Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold35
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4812169
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 17994 characters in sequence are not A, C, G, or T
File 26 of 30
Found at i:4063784 original size:26 final size:26
Alignment explanation
Indices: 4063750--4063808 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
4063740 TTTGGTTTCC
* * *
4063750 TTGATTTTTCGATTTTTATTTTATTTT
1 TTGA-TTTTCAATTTCTATATTATTTT
*
4063777 TTGATTTTTAATTTCTATATTATTTT
1 TTGATTTTCAATTTCTATATTATTTT
4063803 TT-ATTT
1 TTGATTT
4063809 CTTGAATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 4 0.14
26 20 0.71
27 4 0.14
ACGTcount: A:0.19, C:0.03, G:0.05, T:0.73
Consensus pattern (26 bp):
TTGATTTTCAATTTCTATATTATTTT
Found at i:4063828 original size:23 final size:20
Alignment explanation
Indices: 4063762--4063831 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 20
4063752 GATTTTTCGA
*
4063762 TTTTTATTT-TATTTTTTGAT
1 TTTTTATTTCTA-TATTTGAT
*
4063782 TTTTAATTTCTATA-TT-AT
1 TTTTTATTTCTATATTTGAT
4063800 TTTTTATTTCTTGAATATTTGAT
1 TTTTTATTTC-T--ATATTTGAT
4063823 TTTTTATTT
1 TTTTTATTT
4063832 TTTTATTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
18 11 0.27
19 3 0.07
20 9 0.22
21 5 0.12
22 2 0.05
23 11 0.27
ACGTcount: A:0.20, C:0.03, G:0.04, T:0.73
Consensus pattern (20 bp):
TTTTTATTTCTATATTTGAT
Found at i:4067234 original size:20 final size:19
Alignment explanation
Indices: 4067207--4067281 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 19
4067197 GTAAAAAGAT
4067207 AAAATGTATCGATACATTG
1 AAAATGTATCGATACATTG
*
4067226 AAGAATGTATCGATACATTC
1 AA-AATGTATCGATACATTG
*
4067246 ATACATGTATCGATACATTG
1 A-AAATGTATCGATACATTG
4067266 AAAAATGTATCGATAC
1 -AAAATGTATCGATAC
4067282 TTTTGGGTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 2 0.04
20 45 0.92
21 2 0.04
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (19 bp):
AAAATGTATCGATACATTG
Found at i:4068284 original size:32 final size:32
Alignment explanation
Indices: 4068184--4068303 Score: 118
Period size: 32 Copynumber: 3.8 Consensus size: 32
4068174 GTGGTGATTT
* * *
4068184 GAAAAGGGTTGCCACTGACTTGCGTGGGCTTTA
1 GAAAAGAGTTGCCACTAACTTGTGTGGGC-TTA
* * *
4068217 AAAAAAAG-TGCCACTAACTTGTGTGGGCTTT
1 GAAAAGAGTTGCCACTAACTTGTGTGGGCTTA
* *
4068248 GAAAAGAGTTGCCACCAACTTGTGTGGGCTTC
1 GAAAAGAGTTGCCACTAACTTGTGTGGGCTTA
* *
4068280 GAAAAG-GTATGCCATTGACTTGTG
1 GAAAAGAGT-TGCCACTAACTTGTG
4068304 GGTTTTGAAA
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
31 10 0.14
32 57 0.79
33 5 0.07
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (32 bp):
GAAAAGAGTTGCCACTAACTTGTGTGGGCTTA
Found at i:4068904 original size:28 final size:28
Alignment explanation
Indices: 4068193--4068893 Score: 583
Period size: 28 Copynumber: 24.5 Consensus size: 28
4068183 TGAAAAGGGT
* **
4068193 TGCCACTGACTTGCGTGGGCTTTAAAAAAAA
1 TGCCACTGACTT--GTGGGCTTT-GAAAGGA
* *
4068224 GTGCCACTAACTTGTGTGGGCTTTGAAAAGAGT
1 -TGCCACTGAC-T-TGTGGGCTTTG-AAAG-GA
** *
4068257 TGCCACCAACTTGTGTGGGCTTCGAAAAGGTA
1 TGCCACTGAC-T-TGTGGGCTTTG-AAAGG-A
* * **
4068289 TGCCATTGACTTGTGGGTTTTGAAATAA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
** * * *
4068317 TGCTGCTGACTTGTTGGCTTTCAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
4068345 TGCCACTAACTTGTGGGCTTTGAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
4068373 TGCCACTAACTTGTGTGCTTTGAAA-TA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
4068400 GTGCCACTAACTTGTGGGCTTTAAAAAGGG
1 -TGCCACTGACTTGTGGGCTTT-GAAAGGA
* * *
4068430 TGCCACTTG-CTTGTGGGCCTTGGAAGGG
1 TGCCAC-TGACTTGTGGGCTTTGAAAGGA
* * ** *
4068458 TGCCACTAACTTGCGGGCTTAAAAAATG-
1 TGCCACTGACTTGTGGGCTT-TGAAAGGA
* *
4068486 TGCCACTGACTTGTGGACTTTGACAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
4068514 TGCCACTGACCTGTGGACCTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
4068542 TGCCACTGACCTGTGGACTTTGAGAA-GA
1 TGCCACTGACTTGTGGGCTTTGA-AAGGA
*
4068570 TGCCACTGACATGTGGGCTTT-AAAGAGA
1 TGCCACTGACTTGTGGGCTTTGAAAG-GA
* *
4068598 CGCCACTGACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
4068626 TGCCACTGACTTGTGAGG-TTTGAAATGA
1 TGCCACTGACTTGTG-GGCTTTGAAAGGA
* * * * *
4068654 TGCCACTAATTTGTGGACATTGAAAAGGGT
1 TGCCACTGACTTGTGGGCTTTG-AAA-GGA
* *
4068684 TGCCACTGACTTATGGGCTTT-AATGAGA
1 TGCCACTGACTTGTGGGCTTTGAAAG-GA
4068712 TGCCACTGACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
4068740 AGCCACTGACCTGGGGGCTTTG-AAGAGA
1 TGCCACTGACTTGTGGGCTTTGAAAG-GA
* *
4068768 TGCCACGGAATTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
4068796 TGCCACTGACCTGTGGGCTTTGAAGAGGG
1 TGCCACTGACTTGTGGGCTTTGAA-AGGA
4068825 TGCCAC-GACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
4068852 TGCCACTGACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
4068880 TGCCACTAACTTGT
1 TGCCACTGACTTGT
4068894 TAGCGTTGAA
Statistics
Matches: 548, Mismatches: 95, Indels: 56
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.00
27 20 0.04
28 389 0.71
29 51 0.09
30 27 0.05
31 2 0.00
32 55 0.10
33 1 0.00
34 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.28
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGA
Found at i:4070243 original size:10 final size:10
Alignment explanation
Indices: 4070195--4070243 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
4070185 ACCCTTCTAA
*
4070195 TTTTGTTTGT
1 TTTTTTTTGT
*
4070205 ATTTTTTT-T
1 TTTTTTTTGT
* *
4070214 ATTTTTTTGG
1 TTTTTTTTGT
4070224 TTTTTTTTGT
1 TTTTTTTTGT
4070234 TTTTTTTTGT
1 TTTTTTTTGT
4070244 AGGAATGATG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
9 9 0.27
10 24 0.73
ACGTcount: A:0.04, C:0.00, G:0.12, T:0.84
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:4081307 original size:20 final size:20
Alignment explanation
Indices: 4081278--4081354 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
4081268 GTAAAAAGAC
*
4081278 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTAA
* * *
4081298 AGAATATATCGGTAAATTAA
1 AGAATGTATCGATACATTAA
* *
4081318 AGAATGTATCAATACATTCAT
1 AGAATGTATCGATACATT-AA
*
4081339 A-CATGTATCGATACAT
1 AGAATGTATCGATACAT
4081355 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTAA
Found at i:4082833 original size:80 final size:78
Alignment explanation
Indices: 4082700--4082956 Score: 250
Period size: 79 Copynumber: 3.2 Consensus size: 78
4082690 TTTTGGAGAT
* * * *
4082700 AATAACGGGGCTAGAGTATCCCCGATTATGGAAAATCGGTGTTCTAGAAATAAAAGTCGAGGTTG
1 AATAACAGGGTTAGAGTAT-CCCGATTAT-GAAAATCAGTGTTTTAGAAATAAAAGTCGAGGTTG
* *
4082765 GAGTATCCTCTTAAA
64 GAGTATCCCCTCAAA
* * * *
4082780 AATAACAGGGTTAGAGTATCTCCGATTATAGAAAATTAGTGTTTTAAAAATAAAA-TCGAGATTT
1 AATAACAGGGTTAGAGTATC-CCGATTAT-GAAAATCAGTGTTTTAGAAATAAAAGTCGAGGTTG
*
4082844 GAGTATCCCCGCGAAA
64 GAGTATCCCCTC-AAA
* * * * * *
4082860 AA-AATAGGGTTGGAGTATCCCTGATTGTGAGAAATCAATATTTTAGAAAT-AAAGTCGGGGTTG
1 AATAACAGGGTTAGAGTATCCC-GATTATGA-AAATCAGTGTTTTAGAAATAAAAGTCGAGGTTG
* *
4082923 GAATATCCCCTCAGA
64 GAGTATCCCCTCAAA
*
4082938 AATAACGGGGTTAGAGTAT
1 AATAACAGGGTTAGAGTAT
4082957 GCTCGATGAA
Statistics
Matches: 143, Mismatches: 28, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
78 11 0.08
79 81 0.57
80 51 0.36
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (78 bp):
AATAACAGGGTTAGAGTATCCCGATTATGAAAATCAGTGTTTTAGAAATAAAAGTCGAGGTTGGA
GTATCCCCTCAAA
Found at i:4082991 original size:28 final size:28
Alignment explanation
Indices: 4082915--4082991 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
4082905 GAAATAAAGT
* *
4082915 CGGGGTTGGAATATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
* * *
4082943 CGGGGTTAGAGTATGCTCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
4082971 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
4082992 TGTAAAAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 1 0.03
28 39 0.98
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:4085518 original size:13 final size:13
Alignment explanation
Indices: 4085500--4085542 Score: 70
Period size: 13 Copynumber: 3.3 Consensus size: 13
4085490 GTAAATCCAG
4085500 AATGTATCGATAC
1 AATGTATCGATAC
4085513 AATGTATC-AGTAC
1 AATGTATCGA-TAC
4085526 AATGTATCGATAC
1 AATGTATCGATAC
4085539 AATG
1 AATG
4085543 AGCAACGCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 1 0.04
13 26 0.93
14 1 0.04
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:4085577 original size:20 final size:20
Alignment explanation
Indices: 4085524--4085620 Score: 117
Period size: 20 Copynumber: 4.8 Consensus size: 20
4085514 ATGTATCAGT
4085524 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
* * *
4085544 GCAACGCT-TTGATACAATGCA
1 ACAATG-TATCGATACAATG-A
4085565 A-AATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
4085584 ACAATATATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
4085604 AGAATGTATCGATACAA
1 ACAATGTATCGATACAA
4085621 ATTGTGTAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
19 3 0.05
20 59 0.92
21 2 0.03
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:4086040 original size:153 final size:154
Alignment explanation
Indices: 4085761--4086062 Score: 552
Period size: 153 Copynumber: 2.0 Consensus size: 154
4085751 GTAATGGGAA
*
4085761 ATGGATTCGTATTCGCCGAAAAGCTCAAAAAAATCTAAAAATCCATTTTCGCCGGGCGCCATACC
1 ATGGATTCGTATTAGCCGAAAAGCTCAAAAAAATCTAAAAATCCATTTTCGCCGGGCGCCATACC
*
4085826 TTTCGACCTCTCTACCTAAACATGCCTTGGGTTGCTGAAAAAATTAGCCCGGACAAAATGAGGTG
66 TTTCAACCTCTCTACCTAAACATGCCTTGGGTTGCTGAAAAAATTAGCCCGGACAAAATGAGGTG
*
4085891 TCTACAGCTGCTCCTCTTTAGGGC
131 TCTACAGCTGCCCCTCTTTAGGGC
*
4085915 ATGGATTCGTATTAGCCGAAAAGCTC-AAAAAATCTAAAAATCCATTTTCGTCGGGCGCCATACC
1 ATGGATTCGTATTAGCCGAAAAGCTCAAAAAAATCTAAAAATCCATTTTCGCCGGGCGCCATACC
*
4085979 TTTCAACCTCTCTACCTAAACATGCCTTGGGTTGTTGAAAAAATTAGCCCGGACAAAATGAGGTG
66 TTTCAACCTCTCTACCTAAACATGCCTTGGGTTGCTGAAAAAATTAGCCCGGACAAAATGAGGTG
4086044 TCTACAGCTGCCCCTCTTT
131 TCTACAGCTGCCCCTCTTT
4086063 GGCTATTTCT
Statistics
Matches: 143, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
153 118 0.83
154 25 0.17
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (154 bp):
ATGGATTCGTATTAGCCGAAAAGCTCAAAAAAATCTAAAAATCCATTTTCGCCGGGCGCCATACC
TTTCAACCTCTCTACCTAAACATGCCTTGGGTTGCTGAAAAAATTAGCCCGGACAAAATGAGGTG
TCTACAGCTGCCCCTCTTTAGGGC
Found at i:4086459 original size:42 final size:43
Alignment explanation
Indices: 4086377--4086537 Score: 189
Period size: 45 Copynumber: 3.7 Consensus size: 43
4086367 AAATAGGTGT
* * * * *
4086377 TGCTCCTTGAGGACAAAGGAAAAAAGGAAAACGAAATGCGTCC
1 TGCTCTTTGAGGACAAAAGAGAAAAGGAAAATGAAGTGCGTCC
*
4086420 TGCTTTTTGAGGACAAAAGAG-AAAGGAAAATGAAGTGCGTCC
1 TGCTCTTTGAGGACAAAAGAGAAAAGGAAAATGAAGTGCGTCC
* * * * *
4086462 TACTCTTTGAGGAAAAAAGGGAAAAGAAAGGAATGAAGTGTGTCC
1 TGCTCTTTGAGGACAAAAGAGAAAAGGAA--AATGAAGTGCGTCC
*
4086507 TGCTCTTTGAGGACAAAGGAGAAAAGGAAAA
1 TGCTCTTTGAGGACAAAAGAGAAAAGGAAAA
4086538 GGCATCCTGG
Statistics
Matches: 98, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 36 0.37
43 25 0.26
45 37 0.38
ACGTcount: A:0.42, C:0.12, G:0.28, T:0.18
Consensus pattern (43 bp):
TGCTCTTTGAGGACAAAAGAGAAAAGGAAAATGAAGTGCGTCC
Found at i:4086481 original size:36 final size:36
Alignment explanation
Indices: 4086393--4086490 Score: 90
Period size: 42 Copynumber: 2.6 Consensus size: 36
4086383 TTGAGGACAA
* *
4086393 AGGAAAAAAGGAAAACGAAATGCGTCCTGCTTTTTG
1 AGGAAAAAAGGAAAACGAAATGCGTCCTACTCTTTG
* *
4086429 AGGACAAAAGAGAAAGGAAAATGAAGTGCGTCCTACTCTTTG
1 AGG----AA-A-AAAGGAAAACGAAATGCGTCCTACTCTTTG
4086471 AGGAAAAAAGGGAAAA-GAAA
1 AGGAAAAAA-GGAAAACGAAA
4086491 GGAATGAAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
36 9 0.18
37 7 0.14
38 2 0.04
40 2 0.04
41 1 0.02
42 29 0.58
ACGTcount: A:0.46, C:0.11, G:0.27, T:0.16
Consensus pattern (36 bp):
AGGAAAAAAGGAAAACGAAATGCGTCCTACTCTTTG
Found at i:4086636 original size:62 final size:60
Alignment explanation
Indices: 4086539--4086790 Score: 218
Period size: 61 Copynumber: 4.3 Consensus size: 60
4086529 AAAGGAAAAG
* * * *
4086539 GCATCCTGGTCTTCGAGGATTGGAAGGTGCCACCAAACTCGTGTGGGCTTTGCAAAGAGAAA
1 GCATCCTGCTCTTTGAGGATTGGAAGATGCCACC-AACTCGAGTGGGCTTTG-AAAGAGAAA
* * * *
4086601 GCATCCTACTCTTTGAGGATTGGAAGTTGCCACCAACTCGAGTGGTCTTTAAAAGGAGAAA
1 GCATCCTGCTCTTTGAGGATTGGAAGATGCCACCAACTCGAGTGGGCTTTGAAA-GAGAAA
* * * * * * *
4086662 GCATTCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTGAAAG-G--T
1 GCATCCTGCTCTTTGAGGATTGGAAGATGCCACCAACTCGAGTGGGCTTTGAAAGAGAAA
* * * * *
4086719 G--TCCTGCTCTTAGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAA-AG---
1 GCATCCTGCTCTTTGAGGATTGGAAGATGCCACCAACTCGAGTGGGCTTTGAAAGAGAAA
*
4086772 GCGTCCTGCTCTTTGAGGA
1 GCATCCTGCTCTTTGAGGA
4086791 CTAAAGGGCG
Statistics
Matches: 163, Mismatches: 23, Indels: 15
0.81 0.11 0.07
Matches are distributed among these distances:
53 1 0.01
54 4 0.02
55 58 0.36
57 1 0.01
59 1 0.01
60 4 0.02
61 64 0.39
62 30 0.18
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (60 bp):
GCATCCTGCTCTTTGAGGATTGGAAGATGCCACCAACTCGAGTGGGCTTTGAAAGAGAAA
Found at i:4086743 original size:55 final size:55
Alignment explanation
Indices: 4086667--4086793 Score: 209
Period size: 55 Copynumber: 2.3 Consensus size: 55
4086657 AGAAAGCATT
* *
4086667 CTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTAAAAGGCGTC
* * *
4086722 CTGCTCTTAGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTC
1 CTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTAAAAGGCGTC
4086777 CTGCTCTTTGAGGACTA
1 CTGCTCTTTGAGGACTA
4086794 AAGGGCGAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 65 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (55 bp):
CTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTAAAAGGCGTC
Found at i:4086884 original size:210 final size:211
Alignment explanation
Indices: 4086595--4087008 Score: 566
Period size: 210 Copynumber: 2.0 Consensus size: 211
4086585 GCTTTGCAAA
* * *
4086595 GAGAAAGCATCCTACTCTTTGAGGATTGGAAGTTGCCACCAACTCGAGTGGTCTTTAAAAGGAGA
1 GAGAAAGCATCCTACTCTTTGAGGATGGGAAGTTGCCACCAACTCGAGTGGGCTTTAAAAAGAGA
* * *
4086660 AAGCATTCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGGTGTCCTG
66 AAGCATTCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTAGGTGGGCTTTAAAAGGTATCCTG
* **
4086725 CTCTTAGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
131 CTCTTAGAAGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
4086790 ACT-AAAGGGCGAAAG
196 ACTGAAAGGGCGAAAG
* * * * *
4086805 GAGAGAGCGTCCTAGTCTTTGAGGACTGGGAAG-TGCCACCAACTTGTGTGGGCTTTAAAAAGA-
1 GAGAAAGCATCCTACTCTTTGAGGA-TGGGAAGTTGCCACCAACTCGAGTGGGCTTTAAAAAGAG
* * * * * *
4086868 AAAG-GTGTCCTGCTCTTTGAGGACTAGGAAGTGTCACCAACTTATGTGTGCTTTAAAAGGTATC
65 AAAGCAT-T-CTGCTCTTTGAGGACTAGAAAATGCCACCAACTTAGGTGGGCTTTAAAAGGTATC
* * *
4086932 CTGCTCTTTGAAGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTG
128 CTGCTCTTAGAAGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTG
4086997 AGGACTGAAAGG
193 AGGACTGAAAGG
4087009 TGCCACCAAC
Statistics
Matches: 177, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
208 1 0.01
209 5 0.03
210 160 0.90
211 11 0.06
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (211 bp):
GAGAAAGCATCCTACTCTTTGAGGATGGGAAGTTGCCACCAACTCGAGTGGGCTTTAAAAAGAGA
AAGCATTCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTAGGTGGGCTTTAAAAGGTATCCTG
CTCTTAGAAGACTAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
ACTGAAAGGGCGAAAG
Found at i:4086934 original size:155 final size:149
Alignment explanation
Indices: 4086671--4086950 Score: 382
Period size: 155 Copynumber: 1.8 Consensus size: 149
4086661 AGCATTCTGC
4086671 TCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGGTGTCCTGCTCTTAGAGGA
1 TCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGGTGTCCTGCTCTTAGAGGA
* * *
4086736 CTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGCG
66 CTGGAAAATGCCACCAACTTATGTGGGCTTTAAAAGGCATCCTGCTCTTTGAAGACTAAAGGGCG
4086801 AAAGGAGAGAGCGTCCTAG
131 AAAGGAGAGAGCGTCCTAG
* * * *
4086820 TCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGTGTCCTGCTCTT
1 TCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTT-----G-AAAGGTGTCCTGCTCTT
* * * * *
4086885 TGAGGACTAGG-AAGTGTCACCAACTTATGTGTGCTTTAAAAGGTATCCTGCTCTTTGAAGACTA
60 AGAGGACT-GGAAAATGCCACCAACTTATGTGGGCTTTAAAAGGCATCCTGCTCTTTGAAGACTA
4086949 AA
124 AA
4086951 AAATGCCACC
Statistics
Matches: 112, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
149 37 0.33
154 1 0.01
155 72 0.64
156 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (149 bp):
TCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGGTGTCCTGCTCTTAGAGGA
CTGGAAAATGCCACCAACTTATGTGGGCTTTAAAAGGCATCCTGCTCTTTGAAGACTAAAGGGCG
AAAGGAGAGAGCGTCCTAG
Found at i:4086961 original size:55 final size:54
Alignment explanation
Indices: 4086820--4087060 Score: 239
Period size: 55 Copynumber: 4.3 Consensus size: 54
4086810 AGCGTCCTAG
***
4086820 TCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGTGTCCTGC
1 TCTTTGAGGACTAAAAAGTGCCACCAACTTGTGT-GGCTTT------AAAAGGTGTCCTGC
** * * *
4086881 TCTTTGAGGACTAGGAAGTGTCACCAACTTATGTGTGCTTTAAAAGGTATCCTGC
1 TCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTG-GCTTTAAAAGGTGTCCTGC
* * *
4086936 TCTTTGAAGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGC
1 TCTTTGAGGACTAAAAAGTGCCACCAACTTGTGT-GGCTTTAAAAGGTGTCCTGC
* * * ** *
4086991 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGTCTTTGAAAGACGTCCAGC
1 TCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGG-CTTTAAAAGGTGTCCTGC
4087046 TCTTTGAGGACTAAA
1 TCTTTGAGGACTAAA
4087061 GGGTAAAAGG
Statistics
Matches: 157, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
54 2 0.01
55 117 0.75
56 1 0.01
60 1 0.01
61 36 0.23
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (54 bp):
TCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGCTTTAAAAGGTGTCCTGC
Found at i:4087002 original size:265 final size:258
Alignment explanation
Indices: 4086662--4087321 Score: 871
Period size: 265 Copynumber: 2.5 Consensus size: 258
4086652 AAAGGAGAAA
* * * *
4086662 GCATTCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTGAAAGGTGTCCTGCT
1 GCATCCTGCTCTTTGAAGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCT
* *
4086727 CTTAGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAC
66 CTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
* * *
4086792 TAAAGGGCGAAAGGAGAGAGCGTCCTAG-TCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTG
130 TAAAGGGCAAAAGGAGAGAGCGTCCT-GTTCTTTAAGGACT-AGAAGGTGCCACCAACTTGTGTG
** * * * *
4086855 GGCTTTAAAAAGAAAAGGTGTCCTGCTCTTTGAGGACTAG-GAAGTGTCACCAACTTATGTGTGC
193 GGCTTT------AAAAGGCATCCTGCTCTTTGAAGAC-AGAAAAGTGCCACCAACTTATGTGGGC
4086919 TTTAAAAG
251 TTTAAAAG
*
4086927 GTATCCTGCTCTTTGAAGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCT
1 GCATCCTGCTCTTTGAAGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCT
* * * *
4086992 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGTCTTTGAAAGACGTCCAGCTCTTTGAGGAC
66 CTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
*
4087057 TAAAGGGTAAAAGGAGAGAGCGTCCTGTTCTTTAAGGACTAGAAGGTGCCACCAACTTGTGTGGG
130 TAAAGGGCAAAAGGAGAGAGCGTCCTGTTCTTTAAGGACTAGAAGGTGCCACCAACTTGTGTGGG
* * * * *
4087122 CTTTAAAAGGCATCTTGCTCTTTGAAGACCGAAAATTGCCACCAACTTGTGTGGGCTTTGAAAG
195 CTTTAAAAGGCATCCTGCTCTTTGAAGACAGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAG
* * * *
4087186 GCATCCTGCTTTTTGATGACTAAAAAATGCCACCAACTTGTGT-GGCTTTGAAAGGCGTCCTTCT
1 GCATCCTGCTCTTTGAAGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCT
* *
4087250 CTTTGAGGACT-AAAATGTGCCACCAACTTGTGTAGGCTTTGAAAGGCATCCTGCTCTTTGAGGA
66 CTTTGAGGACTGAAAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGA
4087314 CTGAAAGG
129 CT-AAAGG
4087322 TGCCACCAAC
Statistics
Matches: 351, Mismatches: 37, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
257 3 0.01
258 75 0.21
259 92 0.26
264 8 0.02
265 173 0.49
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (258 bp):
GCATCCTGCTCTTTGAAGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCT
CTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACT
AAAGGGCAAAAGGAGAGAGCGTCCTGTTCTTTAAGGACTAGAAGGTGCCACCAACTTGTGTGGGC
TTTAAAAGGCATCCTGCTCTTTGAAGACAGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAG
Found at i:4087019 original size:110 final size:112
Alignment explanation
Indices: 4086838--4087060 Score: 283
Period size: 110 Copynumber: 2.0 Consensus size: 112
4086828 GACTGGGAAG
* *
4086838 TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGTGTCCTGCTCTTTGAGGACTAGGAAGTGTC
1 TGCCACCAACTTGTGTGGGCTTT----AGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGTGCC
** *
4086903 ACCAACTTATGT-GTGCTTTAAAAGGTATCCTGCTCTTTGAAGACTAAAAAA
62 ACCAACTTATGTGGT-CTTTAAAAGACATCCAGCTCTTTGAAGACTAAAAAA
4086954 TGCCACCAACTTGTGTGGGCTTT-G-AAAGGTGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACC
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAA-GTGCCACC
* * * *
4087016 AACTTGTGTGGTCTTTGAAAGACGTCCAGCTCTTTGAGGACTAAA
65 AACTTATGTGGTCTTTAAAAGACATCCAGCTCTTTGAAGACTAAA
4087061 GGGTAAAAGG
Statistics
Matches: 96, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
109 3 0.03
110 67 0.70
111 3 0.03
116 23 0.24
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (112 bp):
TGCCACCAACTTGTGTGGGCTTTAGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCA
ACTTATGTGGTCTTTAAAAGACATCCAGCTCTTTGAAGACTAAAAAA
Found at i:4087164 original size:204 final size:203
Alignment explanation
Indices: 4086874--4087263 Score: 575
Period size: 204 Copynumber: 1.9 Consensus size: 203
4086864 AAGAAAAGGT
* * * *
4086874 GTCCTGCTCTTTGAGGACTAGGAAGTGTCACCAACTTATGTGTGCTTTAAAAGGTATCCTGCTCT
1 GTCCTGCTCTTTAAGGACTAGGAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCATCCTGCTCT
* ** *
4086939 TTGAAGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
66 TTGAAGACCAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTA
**
4087004 AAAGGTGCCACCAACTTGTGTGGTCTTTGAAAGACGTCCAGCTCTTTGAGGACTAAAGGGTAAAA
131 AAAAATGCCACCAACTTGTGTGG-CTTTGAAAGACGTCCAGCTCTTTGAGGACTAAAGGGTAAAA
4087069 GGAGAGAGC
195 GGAGAGAGC
* * *
4087078 GTCCTGTTCTTTAAGGACTA-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCTTGCTC
1 GTCCTGCTCTTTAAGGACTAGGAA-GTGCCACCAACTTATGTGGGCTTTAAAAGGCATCCTGCTC
* * * *
4087142 TTTGAAGACCGAAAATTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTTTTTGATGACT
65 TTTGAAGACCAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACT
* **
4087207 AAAAAATGCCACCAACTTGTGTGGCTTTGAAAGGCGTCCTTCTCTTTGAGGACTAAA
130 AAAAAATGCCACCAACTTGTGTGGCTTTGAAAGACGTCCAGCTCTTTGAGGACTAAA
4087264 ATGTGCCACC
Statistics
Matches: 165, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
203 33 0.20
204 132 0.80
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (203 bp):
GTCCTGCTCTTTAAGGACTAGGAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCATCCTGCTCT
TTGAAGACCAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTA
AAAAATGCCACCAACTTGTGTGGCTTTGAAAGACGTCCAGCTCTTTGAGGACTAAAGGGTAAAAG
GAGAGAGC
Found at i:4087201 original size:149 final size:149
Alignment explanation
Indices: 4086930--4087209 Score: 380
Period size: 149 Copynumber: 1.9 Consensus size: 149
4086920 TTAAAAGGTA
* * * ** * **
4086930 TCCTGCTCTTTGAAGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TCCTGTTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTT
* * *
4086995 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGTCTTTGAAAGACGTCCAGCTCTTTGAGGACTAA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAA
4087060 AGGGTAAAAGGAGAGAGCG
131 AGGGTAAAAGGAGAGAGCG
* *
4087079 TCCTGTTCTTTAAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCTTGCTCTT
1 TCCTGTTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTT
* * ** * * *
4087144 TGAAGACCGAAAATTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTTTTTGATGACTAA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAA
4087209 A
131 A
4087210 AAATGCCACC
Statistics
Matches: 111, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
149 111 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (149 bp):
TCCTGTTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAA
AGGGTAAAAGGAGAGAGCG
Found at i:4087274 original size:109 final size:109
Alignment explanation
Indices: 4087079--4087373 Score: 405
Period size: 109 Copynumber: 2.7 Consensus size: 109
4087069 GGAGAGAGCG
* * * ** * *
4087079 TCCTGTTCTTTAAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCAT-CTTGCTCT
1 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTT-CTCT
* * *
4087143 TTGAAGACCGAAAATTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
65 TTGAGGA-CTAAAATTGCCACCAACTTGTGTAGGCTTTGAAAGGCA
* *
4087189 TCCTGCTTTTTGATGACTAAAAAATGCCACCAACTTGTGT-GGCTTTGAAAGGCGTCCTTCTCTT
1 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTTCTCTT
4087253 TGAGGACTAAAATGTGCCACCAACTTGTGTAGGCTTTGAAAGGCA
66 TGAGGACTAAAAT-TGCCACCAACTTGTGTAGGCTTTGAAAGGCA
* ** *
4087298 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTTCTCTT
4087363 TGAGGACTAAA
66 TGAGGACTAAA
4087374 GGGTGAAAGG
Statistics
Matches: 164, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
108 6 0.04
109 88 0.54
110 70 0.43
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (109 bp):
TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTTCTCTT
TGAGGACTAAAATTGCCACCAACTTGTGTAGGCTTTGAAAGGCA
Found at i:4087322 original size:313 final size:316
Alignment explanation
Indices: 4086838--4087444 Score: 923
Period size: 313 Copynumber: 1.9 Consensus size: 316
4086828 GACTGGGAAG
** ** * *
4086838 TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGTGTCCTGCTCTTTGAGGACTAGGAAGTGTC
1 TGCCACCAACTTGTGTGGGCTTT----AGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAATGCC
*
4086903 ACCAACTTATGTGTGCTTTAAAAGGTATCCTGCTCTTTGAAGACTAAAAAATGCCACCAACTTGT
62 ACCAACTTATGTGTGCTTTAAAAGGCATCCTGCTCTTTGAAGACTAAAAAATGCCACCAACTTGT
* ** *
4086968 GTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGTCTTTG
127 GTAGGCTTTGAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
* *
4087033 AAAGACGTCCAGCTCTTTGAGGACTAAAGGGTAAAAGGAGAGAGCGTCCTGTTCTTTAAGGACTA
192 AAAGACGTCCAGCTCTTTGAGGACTAAAGGGTAAAAGGAGAGAGCGTCCTGCTCTTTAAGAACTA
4087098 GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCTTGCTCTTTGAAGACCGAAAAT
257 GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCTTGCTCTTTGAAGACCGAAAAT
* *
4087158 TGCCACCAACTTGTGTGGGCTTT-G-AAAGGCATCCTGCTTTTTGATGACTAAAAAATGCCACCA
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAATGCCACCA
* * * * * **
4087221 ACTTGTGTG-GCTTTGAAAGGCGTCCTTCTCTTTGAGGACTAAAATGTGCCACCAACTTGTGTAG
66 ACTTATGTGTGCTTTAAAAGGCATCCTGCTCTTTGAAGACTAAAAAATGCCACCAACTTGTGTAG
4087285 GCTTTGAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
131 GCTTTGAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * *
4087350 GCGTCCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGAGCGTCCTGCTCTTTGAGAACTAGAAG
196 ACGTCCAGCTCTTTGAGGACTAAAGGGTAAAAGGAGAGAGCGTCCTGCTCTTTAAGAACTAGAAG
4087415 GTGCCACCAACTTGTGTGGGCTTTAAAAGG
261 GTGCCACCAACTTGTGTGGGCTTTAAAAGG
4087445 AAAAGGCATC
Statistics
Matches: 261, Mismatches: 26, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
313 198 0.76
314 39 0.15
315 1 0.00
320 23 0.09
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (316 bp):
TGCCACCAACTTGTGTGGGCTTTAGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAATGCCACCA
ACTTATGTGTGCTTTAAAAGGCATCCTGCTCTTTGAAGACTAAAAAATGCCACCAACTTGTGTAG
GCTTTGAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
ACGTCCAGCTCTTTGAGGACTAAAGGGTAAAAGGAGAGAGCGTCCTGCTCTTTAAGAACTAGAAG
GTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCTTGCTCTTTGAAGACCGAAAAT
Found at i:4087347 original size:164 final size:164
Alignment explanation
Indices: 4087076--4087373 Score: 463
Period size: 164 Copynumber: 1.8 Consensus size: 164
4087066 AAAGGAGAGA
* * *
4087076 GCGTCCTGTTCTTTAAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCTTGCT
1 GCGTCCTGTTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGCATCCTGCT
* * *
4087141 CTTTGAAGACCGAAAATTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTTTTTGATGAC
66 CTTTGAAGACCGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGAC
4087206 TAAAAAATGCCACCAACTTGTGTGGCTTTGAAAG
131 TAAAAAATGCCACCAACTTGTGTGGCTTTGAAAG
* * *
4087240 GCGTCCT-TCTCTTTGAGGACTAAAATGTGCCACCAACTTGTGTAGGCTTTGAAAGGCATCCTGC
1 GCGTCCTGT-TCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGCATCCTGC
* * * *
4087304 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGA
65 TCTTTGAAGACCGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGA
4087369 CTAAA
130 CTAAA
4087374 GGGTGAAAGG
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
163 1 0.01
164 119 0.99
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (164 bp):
GCGTCCTGTTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGGCATCCTGCT
CTTTGAAGACCGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGAC
TAAAAAATGCCACCAACTTGTGTGGCTTTGAAAG
Found at i:4087370 original size:55 final size:54
Alignment explanation
Indices: 4087079--4087375 Score: 389
Period size: 55 Copynumber: 5.4 Consensus size: 54
4087069 GGAGAGAGCG
* * *
4087079 TCCTGTTCTTTAAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
1 TCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* * * **
4087134 TCTTGCTCTTTGAAGACCGAAAATTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGA-CTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* * ** *
4087189 TCCTGCTTTTTGATGACTAAAAAATGCCACCAACTTGTGT-GGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* * *
4087243 TCCTTCTCTTTGAGGACTAAAATGTGCCACCAACTTGTGTAGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
*
4087298 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
4087353 TCCTGCTCTTTGAGGACTAAAGG
1 TCCTGCTCTTTGAGGACTAAAGG
4087376 GTGAAAGGAG
Statistics
Matches: 214, Mismatches: 25, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
54 54 0.25
55 158 0.74
56 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
Found at i:4088457 original size:1 final size:1
Alignment explanation
Indices: 4088442--4088524 Score: 76
Period size: 1 Copynumber: 83.0 Consensus size: 1
4088432 CTTTTCTCTC
* * * * * * * *
4088442 TTTTTTCTTTGTTTTTTTTGTTGTTTTTTGTTTTTTTTTGTTTTTTTTTTGTTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
4088507 TTTGTTTTTTTATTTTTT
1 TTTTTTTTTTTTTTTTTT
4088525 AAAAAAATGT
Statistics
Matches: 62, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.01, C:0.01, G:0.10, T:0.88
Consensus pattern (1 bp):
T
Found at i:4088475 original size:29 final size:28
Alignment explanation
Indices: 4088443--4088517 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 28
4088433 TTTTCTCTCT
4088443 TTTTTCTTTGTTTTTTTTGTTG-TTTTTTG
1 TTTTT-TTTGTTTTTTTT-TTGTTTTTTTG
4088472 TTTTTTTTTGTTTTTTTTTTGTTTTTTTTG
1 -TTTTTTTTGTTTTTTTTTTG-TTTTTTTG
4088502 TTTTTTTTGTTTTTTT
1 TTTTTTTTGTTTTTTT
4088518 ATTTTTTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
28 3 0.07
29 28 0.65
30 12 0.28
ACGTcount: A:0.00, C:0.01, G:0.11, T:0.88
Consensus pattern (28 bp):
TTTTTTTTGTTTTTTTTTTGTTTTTTTG
Found at i:4088478 original size:20 final size:19
Alignment explanation
Indices: 4088442--4088517 Score: 109
Period size: 20 Copynumber: 3.9 Consensus size: 19
4088432 CTTTTCTCTC
4088442 TTTTTTCTTTGTTTTTTTTG
1 TTTTTT-TTTGTTTTTTTTG
*
4088462 TTGTTTTTTGTTTTTTTTTG
1 TTTTTTTTTG-TTTTTTTTG
4088482 TTTTTTTTTTGTTTTTTTTG
1 -TTTTTTTTTGTTTTTTTTG
4088502 -TTTTTTTTGTTTTTTT
1 TTTTTTTTTGTTTTTTT
4088518 ATTTTTTAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
18 16 0.31
19 4 0.08
20 23 0.44
21 9 0.17
ACGTcount: A:0.00, C:0.01, G:0.11, T:0.88
Consensus pattern (19 bp):
TTTTTTTTTGTTTTTTTTG
Found at i:4088524 original size:9 final size:9
Alignment explanation
Indices: 4088443--4088517 Score: 105
Period size: 9 Copynumber: 7.8 Consensus size: 9
4088433 TTTTCTCTCT
4088443 TTTTTCTTTG
1 TTTTT-TTTG
4088453 TTTTTTTTG
1 TTTTTTTTG
4088462 TTGTTTTTTG
1 TT-TTTTTTG
4088472 TTTTTTTTTG
1 -TTTTTTTTG
4088482 TTTTTTTTTTG
1 --TTTTTTTTG
4088493 TTTTTTTTG
1 TTTTTTTTG
4088502 TTTTTTTTG
1 TTTTTTTTG
4088511 TTTTTTT
1 TTTTTTT
4088518 ATTTTTTAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
9 31 0.50
10 19 0.31
11 12 0.19
ACGTcount: A:0.00, C:0.01, G:0.11, T:0.88
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:4098820 original size:4 final size:4
Alignment explanation
Indices: 4098813--4098843 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
4098803 CAAAACAAAC
4098813 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
4098844 CACCTCTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:4101076 original size:81 final size:81
Alignment explanation
Indices: 4100923--4101165 Score: 219
Period size: 78 Copynumber: 3.0 Consensus size: 81
4100913 GCTGAAGTAT
* * * * *
4100923 CCCCGATTATAAAAAATCGATGTTTTAGAAATAAAAATCGGGGTTGGAGTATCCCCTCAGAAATA
1 CCCCGATTATAAAAAATCGATGTTTTAGAAATAAAAATCGAGATTGGAGTATCCCCGCAAAAAAA
4100988 ACAGGTTTGGAGTATCC
66 ACAGGTTT-GAGTATCC
* *
4101005 CCCCGATTGTAAAAAATCGGTGTTTT-GAAA-ATAAAATCGAGATTGGAGTAT-CCCGCAAAAAA
1 CCCCGATTATAAAAAATCGATGTTTTAGAAATA-AAAATCGAGATTGGAGTATCCCCGCAAAAAA
*
4101067 AATAGGGTTTGAGTAT--
65 AACA-GGTTTGAGTATCC
* * * * * ** * * * * *
4101083 CCCCAATTGTGAGAAATCAATACTTTAGAAAT-AAAGTCGGGGTTGGAGTATCCCCTCAAAAATA
1 CCCCGATTATAAAAAATCGATGTTTTAGAAATAAAAATCGAGATTGGAGTATCCCCGCAAAAAAA
*
4101147 ACAGGGTTGGAGTATCC
66 ACA-GGTTTGAGTATCC
4101164 CC
1 CC
4101166 AATGAAATAA
Statistics
Matches: 132, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
78 35 0.27
79 27 0.20
80 18 0.14
81 28 0.21
82 24 0.18
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (81 bp):
CCCCGATTATAAAAAATCGATGTTTTAGAAATAAAAATCGAGATTGGAGTATCCCCGCAAAAAAA
ACAGGTTTGAGTATCC
Found at i:4101155 original size:28 final size:28
Alignment explanation
Indices: 4101122--4101193 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
4101112 AATAAAGTCG
4101122 GGGTTGGAGTATCCCCTCAA-AAATAACA
1 GGGTTGGAGTATCCCC-CAAGAAATAACA
*
4101150 GGGTTGGAGTAT-CCCCAATGAAATAACG
1 GGGTTGGAGTATCCCCCAA-GAAATAACA
4101178 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
4101194 GATTGTAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
26 3 0.08
27 3 0.08
28 31 0.77
29 3 0.08
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCCAAGAAATAACA
Found at i:4106136 original size:52 final size:52
Alignment explanation
Indices: 4105991--4106113 Score: 228
Period size: 52 Copynumber: 2.4 Consensus size: 52
4105981 AATATGAAAT
4105991 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
* *
4106043 TTTGCTTGCATGTATCAATACATTTCATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
4106095 TTTGCCTGCATGTATCGAT
1 TTTGCCTGCATGTATCGAT
4106114 GCAAAGATCA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (52 bp):
TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
Found at i:4107193 original size:97 final size:97
Alignment explanation
Indices: 4107007--4108696 Score: 2323
Period size: 97 Copynumber: 17.5 Consensus size: 97
4106997 ACAAATGATG
* * * * *
4107007 AAGGCGCCAATATGCTTAGTCAAGGCCAG-TGATATTGGACTTAAAGATGAAGGTGCCAATGTGT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCT-ATATTGGACTTAAAGGTG-AGGTGCCAATGTGC
*
4107071 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATA
64 TGATTCAAGGCCAGCTACATTGGACTTAAAGATA
* *
4107105 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACATAAAGGTGAGGTGCCAATGTGCTA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
* *
4107170 ATTCAAGGCCAGCTACATTGGACTTAAAAAAA
66 ATTCAAGGCCAGCTACATTGGACTTAAAGATA
*
4107202 AAGGTGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
4107267 ATTCAAGGCCAGCTACATTGGACTTAAAGATA
66 ATTCAAGGCCAGCTACATTGGACTTAAAGATA
*
4107299 AATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
4107364 ATTCAAGGCCAGCTACATTGGACTTAAAGATA
66 ATTCAAGGCCAGCTACATTGGACTTAAAGATA
* *
4107396 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACATAAAGGTGAGGTGCCAATGTGCTA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
*
4107461 ATTCAAGGCCAGCTACATTGGACTTAAAAATA
66 ATTCAAGGCCAGCTACATTGGACTTAAAGATA
*
4107493 AAGGTGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
4107558 ATTCAAGGCCAGCTACATTGGACTTAAAGATA
66 ATTCAAGGCCAGCTACATTGGACTTAAAGATA
*
4107590 AATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
*
4107655 ATTCAAGGCCAGCTACATTGGACTTAAAGATG
66 ATTCAAGGCCAGCTACATTGGACTTAAAGATA
4107687 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
* *
4107752 ATTCAAGGCCAGCTACAATGGACTTAAAGATG
66 ATTCAAGGCCAGCTACATTGGACTTAAAGATA
* * *
4107784 AAGGTGCCAATATGCCGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGTTTCCAATGTG-TA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCT-
*
4107848 GATTCAAGGCCTGCTACATTGGACTTAAAGATA
65 GATTCAAGGCCAGCTACATTGGACTTAAAGATA
* * *
4107881 AATGTGCCAATATGGTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCTAATGTGCTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
*
4107946 ATTCAAGGCCAGCTAAATTGGACTTAAAGATA
66 ATTCAAGGCCAGCTACATTGGACTTAAAGATA
*
4107978 AATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
*
4108043 ATTCAAGGCCAGCTACATTGGACTTAAAGATG
66 ATTCAAGGCCAGCTACATTGGACTTAAAGATA
*
4108075 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTCAGGTGCCAATGTG-TA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCT-
* *
4108139 GATTCAAGGCCTGCTACATTGGACTTAAAGATG
65 GATTCAAGGCCAGCTACATTGGACTTAAAGATA
*
4108172 AGGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----G-GAGGTGCCAATGTGCTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
* *
4108232 ATTCAAGGCCAGCTACATTGGATTTAAAGATG
66 ATTCAAGGCCAGCTACATTGGACTTAAAGATA
*
4108264 AAGGTGCAAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA----AGGTGCCAATGTGCT-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
* * * * **
4108323 ACTTAAAGG--TGCCA-ATGTGCTGA-TTCAAG-GC
66 A-TTCAAGGCCAGCTACAT-TG--GACTTAAAGATA
* * * * * * * **
4108354 CAGCT-AC-AT-TGGACTTAAAAATAAAGGTGCCAATATGCTGAT-TCAAGGCCAGCGATGTTGG
1 AAGGTGCCAATAT-G-C-T--GATTCAA-G-GCC---A-GCT-ATAT--TGG--A-C----TTAA
** * *
4108415 ACTTAGAGGTGCCAATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGATG
45 AGGT-GAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
*
4108469 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA----AGGTGCCAATGTGCTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
* *
4108529 ATTCAAGGCTAGCTACATTGGACTTAAAGATG
66 ATTCAAGGCCAGCTACATTGGACTTAAAGATA
4108561 AAGGTGCCAA-ATGCTGATTCAAGGCCAGCTATATTGGACTT-AA----AGGTGCCAATGTGCTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
4108620 ATTCAAGGCCAGCTACATTGGACTTAAAGATA
66 ATTCAAGGCCAGCTACATTGGACTTAAAGATA
* *
4108652 AAGCTGCCAATAAGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
4108697 AGAAGATGCC
Statistics
Matches: 1447, Mismatches: 95, Indels: 105
0.88 0.06 0.06
Matches are distributed among these distances:
87 1 0.00
88 3 0.00
89 3 0.00
90 9 0.01
91 93 0.06
92 197 0.14
93 5 0.00
94 3 0.00
96 2 0.00
97 1009 0.70
98 49 0.03
99 3 0.00
100 2 0.00
102 2 0.00
103 2 0.00
105 2 0.00
106 2 0.00
107 5 0.00
108 2 0.00
111 3 0.00
112 1 0.00
113 27 0.02
114 6 0.00
115 8 0.01
116 4 0.00
117 3 0.00
118 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (97 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
ATTCAAGGCCAGCTACATTGGACTTAAAGATA
Found at i:4107289 original size:194 final size:194
Alignment explanation
Indices: 4107007--4108696 Score: 2600
Period size: 194 Copynumber: 8.7 Consensus size: 194
4106997 ACAAATGATG
* * * * *
4107007 AAGGCGCCAATATGCTTAGTCAAGGCCAG-TGATATTGGACTTAAAGATGAAGGTGCCAATGTGT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCT-ATATTGGACTTAAAGGTG-AGGTGCCAATGTGC
*
4107071 TGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCT
64 TGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCT
* * * *
4107136 ATATTGGACATAAAGGTGAGGTGCCAATGTGCTAATTCAAGGCCAGCTACATTGGACTTAAAAAA
129 ATATTGGACTTAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
4107201 A
194 A
*
4107202 AAGGTGCCAATATGTTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
*
4107267 ATTCAAGGCCAGCTACATTGGACTTAAAGATAAATGTGCCAATATGCTGATTCAAGGCCAGCTAT
66 ATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTAT
4107332 ATTGGACTTAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
131 ATTGGACTTAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
* *
4107396 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACATAAAGGTGAGGTGCCAATGTGCTA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
* *
4107461 ATTCAAGGCCAGCTACATTGGACTTAAAAATAAAGGTGCCAATATGTTGATTCAAGGCCAGCTAT
66 ATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTAT
4107526 ATTGGACTTAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
131 ATTGGACTTAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
*
4107590 AATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
*
4107655 ATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTAT
66 ATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTAT
* *
4107720 ATTGGACTTAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACAATGGACTTAAAGATG
131 ATTGGACTTAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
* * *
4107784 AAGGTGCCAATATGCCGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGTTTCCAATGTG-TA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCT-
* * *
4107848 GATTCAAGGCCTGCTACATTGGACTTAAAGATAAATGTGCCAATATGGTGATTCAAGGCCAGCTA
65 GATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTA
* *
4107913 TATTGGACTTAAAGGTGAGGTGCTAATGTGCTGATTCAAGGCCAGCTAAATTGGACTTAAAGATA
130 TATTGGACTTAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
*
4107978 AATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
*
4108043 ATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTAT
66 ATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTAT
* * *
4108108 ATTGGACTTAAAGGTCAGGTGCCAATGTG-TAGATTCAAGGCCTGCTACATTGGACTTAAAGATG
131 ATTGGACTTAAAGGTGAGGTGCCAATGTGCT-GATTCAAGGCCAGCTACATTGGACTTAAAGATA
*
4108172 AGGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----G-GAGGTGCCAATGTGCTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
* * *
4108232 ATTCAAGGCCAGCTACATTGGATTTAAAGATGAAGGTGCAAATATGCTGATTCAAGGCCAGCTAT
66 ATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTAT
*
4108297 ATTGGACTTAAAGGTGCCAATGTGCTACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
131 ATTGGACTTAAAGGTG---AGGTGC--C----A------A-TGTGCTGATTCAAGGCCAGCTACA
*
4108362 TTGGACTTAAAAATA
180 TTGGACTTAAAGATA
* *
4108377 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATGTTGGACTT--A---GAGGTGCCAATGTGCTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
* * *
4108437 ATTCAAGGCCAACTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
66 ATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTAT
* *
4108502 ATTGGACTT-AA----AGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATG
131 ATTGGACTTAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
4108561 AAGGTGCCAA-ATGCTGATTCAAGGCCAGCTATATTGGACTT-AA----AGGTGCCAATGTGCTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
* *
4108620 ATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGCTGCCAATAAGCTGATTCAAGGCCAGCTAT
66 ATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTAT
4108685 ATTGGACTTAAA
131 ATTGGACTTAAA
4108697 AGAAGATGCC
Statistics
Matches: 1393, Mismatches: 78, Indels: 59
0.91 0.05 0.04
Matches are distributed among these distances:
183 114 0.08
184 49 0.04
185 1 0.00
189 95 0.07
190 1 0.00
191 1 0.00
192 5 0.00
193 2 0.00
194 910 0.65
195 44 0.03
196 1 0.00
197 5 0.00
198 1 0.00
204 3 0.00
205 160 0.11
206 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (194 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAGGTGCCAATGTGCTG
ATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTAT
ATTGGACTTAAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
Found at i:4108352 original size:21 final size:21
Alignment explanation
Indices: 4108302--4108343 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4108292 GCTATATTGG
4108302 ACTTAAAGGTGCCAATGTGCT
1 ACTTAAAGGTGCCAATGTGCT
4108323 ACTTAAAGGTGCCAATGTGCT
1 ACTTAAAGGTGCCAATGTGCT
4108344 GATTCAAGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (21 bp):
ACTTAAAGGTGCCAATGTGCT
Found at i:4108398 original size:49 final size:48
Alignment explanation
Indices: 4108326--4108697 Score: 434
Period size: 49 Copynumber: 8.0 Consensus size: 48
4108316 ATGTGCTACT
*
4108326 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT-AAAA
* **
4108375 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATGTTGGAC-T----
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAA
* * *
4108418 TAGAGGTGCCAATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA-A
* * *
4108467 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T----
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAA
* *
4108510 TAAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA-A
* *
4108559 TGAAGGTGCCAA-ATGCTGATTCAAGGCCAGCTATATTGGAC-T----
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAA
*
4108601 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA-A
* * *
4108650 TAAAGCTGCCAATAAGCTGATTCAAGGCCAGCTATATTGGACTTAAAA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAA
4108698 GAAGATGCCA
Statistics
Matches: 272, Mismatches: 32, Indels: 39
0.79 0.09 0.11
Matches are distributed among these distances:
42 11 0.04
43 100 0.37
44 3 0.01
47 1 0.00
48 29 0.11
49 128 0.47
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (48 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAA
Found at i:4108415 original size:113 final size:113
Alignment explanation
Indices: 4108216--4108435 Score: 377
Period size: 113 Copynumber: 1.9 Consensus size: 113
4108206 TTGGACTTGG
* * *
4108216 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGATTTAAAGATGAAGGTGCAAATATGCTG
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAATAAAGGTGCAAATATGCTG
*
4108281 ATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTACTTAA
66 ATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTACTTAA
*
4108329 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAATAAAGGTGCCAATATGCTG
1 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAATAAAGGTGCAAATATGCTG
* *
4108394 ATTCAAGGCCAGCGATGTTGGACTTAGAGGTGCCAATGTGCT
66 ATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCT
4108436 GATTCAAGGC
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
113 100 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (113 bp):
AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAATAAAGGTGCAAATATGCTG
ATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTACTTAA
Found at i:4108480 original size:92 final size:92
Alignment explanation
Indices: 4108323--4108696 Score: 642
Period size: 92 Copynumber: 4.1 Consensus size: 92
4108313 CCAATGTGCT
*
4108323 ACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAATAAAGGTGCCAAT
1 ACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
4108388 ATGCTGATTCAAGGCCAGCGATGTTGG
66 ATGCTGATTCAAGGCCAGCGATATTGG
* * *
4108415 ACTTAGAGGTGCCAATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGATGAAGGTGCCAAT
1 ACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
4108480 ATGCTGATTCAAGGCCAGCGATATTGG
66 ATGCTGATTCAAGGCCAGCGATATTGG
* *
4108507 ACTTAAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGGTGCCAA-
1 ACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
*
4108571 ATGCTGATTCAAGGCCAGCTATATTGG
66 ATGCTGATTCAAGGCCAGCGATATTGG
*
4108598 ACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGCTGCCAAT
1 ACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
* *
4108663 AAGCTGATTCAAGGCCAGCTATATTGG
66 ATGCTGATTCAAGGCCAGCGATATTGG
4108690 ACTTAAA
1 ACTTAAA
4108697 AGAAGATGCC
Statistics
Matches: 268, Mismatches: 13, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
91 87 0.32
92 181 0.68
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (92 bp):
ACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
ATGCTGATTCAAGGCCAGCGATATTGG
Found at i:4108483 original size:205 final size:205
Alignment explanation
Indices: 4108124--4108527 Score: 693
Period size: 205 Copynumber: 2.0 Consensus size: 205
4108114 CTTAAAGGTC
* * * *
4108124 AGGTGCCAATGTGTAGATTCAAGGCCTGCTACATTGGACTTAAAGATGAGGGTGCCAATATGCTG
1 AGGTGCCAATGTGTAGATTCAAGGCCAGCTACATTGGACTTAAAAATAAAGGTGCCAATATGCTG
* * *
4108189 ATTCAAGGCCAGCTATATTGGACTTGGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
66 ATTCAAGGCCAGCGATATTGGACTTAGAGGTGCCAATGTGCTGATTCAAGGCCAACTACATTGGA
* *
4108254 TTTAAAGATGAAGGTGCAAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATG
131 CTTAAAGATGAAGGTGCAAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATG
4108319 TGCTACTTAA
196 TGCTACTTAA
4108329 AGGTGCCAATGTGCT-GATTCAAGGCCAGCTACATTGGACTTAAAAATAAAGGTGCCAATATGCT
1 AGGTGCCAATGTG-TAGATTCAAGGCCAGCTACATTGGACTTAAAAATAAAGGTGCCAATATGCT
*
4108393 GATTCAAGGCCAGCGATGTTGGACTTAGAGGTGCCAATGTGCTGATTCAAGGCCAACTACATTGG
65 GATTCAAGGCCAGCGATATTGGACTTAGAGGTGCCAATGTGCTGATTCAAGGCCAACTACATTGG
*
4108458 ACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
130 ACTTAAAGATGAAGGTGCAAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
4108523 GTGCT
195 GTGCT
4108528 GATTCAAGGC
Statistics
Matches: 187, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
205 186 0.99
206 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (205 bp):
AGGTGCCAATGTGTAGATTCAAGGCCAGCTACATTGGACTTAAAAATAAAGGTGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGACTTAGAGGTGCCAATGTGCTGATTCAAGGCCAACTACATTGGA
CTTAAAGATGAAGGTGCAAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATG
TGCTACTTAA
Found at i:4108817 original size:64 final size:64
Alignment explanation
Indices: 4108703--4108928 Score: 371
Period size: 64 Copynumber: 3.5 Consensus size: 64
4108693 TAAAAGAAGA
* *
4108703 TGCCACCAACTTGTGTGGGCTTTTGAAGAAGGGTTGCCATCGACTTGTGTGGGCTTTGGAAAGGG
1 TGCCACCGACTTGTGTGGGC-TTTG-AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAAAGGG
4108768 T
64 T
*
4108769 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCAACTTGTGTGGGCTTTGGAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAAAGGGT
4108833 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAAAGGGT
** * *
4108897 TGCCATTGACTTGTATGGGCTTTGAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
4108929 GAAAGATGCC
Statistics
Matches: 152, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
64 129 0.85
65 4 0.03
66 19 0.12
ACGTcount: A:0.18, C:0.17, G:0.35, T:0.30
Consensus pattern (64 bp):
TGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAAAGGGT
Found at i:4108927 original size:32 final size:32
Alignment explanation
Indices: 4108703--4108928 Score: 335
Period size: 32 Copynumber: 7.0 Consensus size: 32
4108693 TAAAAGAAGA
*
4108703 TGCCACCAACTTGTGTGGGCTTTTGAAGAAGGGT
1 TGCCACCGACTTGTGTGGGC-TTTGAA-AAGGGT
* *
4108737 TGCCATCGACTTGTGTGGGCTTTGGAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAAAAGGGT
*
4108769 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAAAAGGGT
* *
4108801 TGCCACCAACTTGTGTGGGCTTTGGAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAAAAGGGT
*
4108833 TGCCACCGACTTGTGTGGGCTTTGAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAAAAGGGT
*
4108865 TGCCACCGACTTGTGTGGGCTTTGGAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAAAAGGGT
** *
4108897 TGCCATTGACTTGTATGGGCTTTGAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAAAAGGGT
4108929 GAAAGATGCC
Statistics
Matches: 174, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
32 151 0.87
33 5 0.03
34 18 0.10
ACGTcount: A:0.18, C:0.17, G:0.35, T:0.30
Consensus pattern (32 bp):
TGCCACCGACTTGTGTGGGCTTTGAAAAGGGT
Found at i:4108973 original size:33 final size:32
Alignment explanation
Indices: 4108930--4109465 Score: 402
Period size: 33 Copynumber: 16.6 Consensus size: 32
4108920 GAAAAGGGTG
4108930 AAAGATGCCAC-GATGTTGTGGACTTAAAAGGAA
1 AAAG-TGCCACGGA-GTTGTGGACTTAAAAGGAA
*
4108963 CAAAGTGCCACGAAGTTGTGGACTTTAAAAGGGAA
1 -AAAGTGCCACGGAGTTGTGGAC-TTAAAA-GGAA
* *
4108998 AATGAGTGCCACGGAGATGTGGGCTTTGAAAA-G--
1 AA--AGTGCCACGGAGTTGTGGAC-TT-AAAAGGAA
*
4109031 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
4109063 CAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAA
1 -AAAGTGCCACGGAGTTGTGGAC-TTAAAA-GG--AA
* *
4109100 AAAGTGTCACGGAGTTGTGGGCTTTAAAAGG--
1 AAAGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
* *
4109131 ---GTACCACGGAGTTGTGGACTTAGAAGGAA
1 AAAGTGCCACGGAGTTGTGGACTTAAAAGGAA
** * * *
4109160 AAAGGGTGCCATAGAGTCGTGGGCTTAAAAAGAA
1 AAA--GTGCCACGGAGTTGTGGACTTAAAAGGAA
4109194 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAA-GTGCCACGGAGTTGTGGACTTAAAAGGAA
*
4109227 CAAGGTGCCACAGG-GTTGTGGACTTTAAAAGGGAAA
1 -AAAGTGCCAC-GGAGTTGTGGAC-TTAAAA-GG-AA
*
4109263 AAGAGTGCCACGGAGTTGTGGGCTTTAAAAGG--
1 AA-AGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
*
4109295 ---GTGCCACGGAGTTGTGGACTTAGAAGGAAA
1 AAAGTGCCACGGAGTTGTGGACTTAAAAGG-AA
* * *
4109325 AAGAGTGCCACGGAGTCGTGGGCTTAAAAAGAA
1 AA-AGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
4109358 AAAGGTGCCACGGAGTTGTGGACTTAAACGG--
1 AAA-GTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
4109389 ---GTGCCACGGAGTTGTGGGCTTAAATGG--
1 AAAGTGCCACGGAGTTGTGGACTTAAAAGGAA
**
4109416 ---GTGCCATAGAGTTGTGGACTTAAAAGGAA
1 AAAGTGCCACGGAGTTGTGGACTTAAAAGGAA
4109445 AAGAGTGCCACGGAGTTGTGG
1 AA-AGTGCCACGGAGTTGTGG
4109466 GCTTTGTAGA
Statistics
Matches: 411, Mismatches: 49, Indels: 85
0.75 0.09 0.16
Matches are distributed among these distances:
27 62 0.15
28 34 0.08
29 4 0.01
30 3 0.01
31 17 0.04
32 1 0.00
33 121 0.29
34 77 0.19
35 17 0.04
36 69 0.17
37 6 0.01
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.20
Consensus pattern (32 bp):
AAAGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:4109039 original size:100 final size:99
Alignment explanation
Indices: 4108935--4109470 Score: 407
Period size: 100 Copynumber: 5.5 Consensus size: 99
4108925 GGGTGAAAGA
4108935 TGCCAC-GATGTTGTGGACTTAAAAGGAACAAAGTGCCACGAAGTTGTGGACTTTAAAAGGGAAA
1 TGCCACGGA-GTTGTGGACTTAAAAGGAACAAAGTGCCACGAAGTTGTGGACTTTAAAAGGGAAA
* *
4108999 ATGAGTGCCACGGAGATGTGGGCTTTGAAAAGAAGG
65 AAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAGG
* **
4109035 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAAGTGCCACGAAGTTGTGGACTTTAAAAGGGAAAA
* *
4109100 AAAGTGTCACGGAGTTGTGGGCTTTAAAAG--GG
66 AGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAGG
* * * * * *
4109132 TACCACGGAGTTGTGGACTTAGAAGGAA-AAAGGGTGCCA-TAGAGTCGTGGGC-TTAAAA-AGA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAA--GTGCCACGA-AGTTGTGGACTTTAAAAGGGA
*
4109193 AAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAACAAGG
63 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-G---AAGG
* * *
4109232 TGCCACAGG-GTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA--G
1 TGCCAC-GGAGTTGTGGAC-TTAAAA-GGAACAA-AGTGCCACGAAGTTGTGGACTTTAAAAGGG
* * *
4109294 -----G-GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAG
62 AAAAAGAGTGCCACGGAGTTGTGGGCTT-TAA--AAGAAG-G
* * * * *
4109330 TGCCACGGAGTCGTGGGCTTAAAAAGAA-AAAGGTGCCACGGAGTTGTGGAC-TT-AAA-CG---
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAA-GTGCCACGAAGTTGTGGACTTTAAAAGGGAAA
*
4109388 --G-GTGCCACGGAGTTGTGGGC-TTAAATG--GG
65 AAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAGG
** * *
4109417 TGCCATAGAGTTGTGGACTTAAAAGGAA-AAGAGTGCCACGGAGTTGTGGGCTTT
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAA-AGTGCCACGAAGTTGTGGACTTT
4109471 GTAGAAAAGG
Statistics
Matches: 369, Mismatches: 40, Indels: 66
0.78 0.08 0.14
Matches are distributed among these distances:
87 44 0.12
88 4 0.01
90 1 0.00
92 2 0.01
93 4 0.01
94 29 0.08
95 38 0.10
96 11 0.03
97 65 0.18
98 28 0.08
99 7 0.02
100 96 0.26
101 11 0.03
102 20 0.05
103 8 0.02
104 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (99 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAACAAAGTGCCACGAAGTTGTGGACTTTAAAAGGGAAAA
AGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAGG
Found at i:4109201 original size:164 final size:164
Alignment explanation
Indices: 4108970--4109385 Score: 660
Period size: 164 Copynumber: 2.5 Consensus size: 164
4108960 GAACAAAGTG
* * * * *
4108970 CCACGAAGTTGTGGACTTTAAAAGGGAAAATGAGTGCCACGGAGAT-GTGGGCTTTGAAAAG---
1 CCACGGAGTTGTGGAC-TTAGAA-GGAAAAAGAGTGCCACAGAG-TCGTGGGC-TTAAAAAGAAA
*
4109031 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGG
62 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGGGTTGTGGACTTTAAAAGGG
*
4109096 AAAAAAAGTGTCACGGAGTTGTGGGCTTTAAAAGGGTA
127 AAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGGTA
* *
4109134 CCACGGAGTTGTGGACTTAGAAGGAAAAAGGGTGCCATAGAGTCGTGGGCTTAAAAAGAAAAAGG
1 CCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTCGTGGGCTTAAAAAGAAAAAGG
4109199 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGGGTTGTGGACTTTAAAAGGGAAAA
66 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGGGTTGTGGACTTTAAAAGGGAAAA
* *
4109264 AGAGTGCCACGGAGTTGTGGGCTTTAAAAGGGTG
131 AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGGTA
*
4109298 CCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTCGTGGGCTTAAAAAGAAAAAGG
1 CCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTCGTGGGCTTAAAAAGAAAAAGG
4109363 TGCCACGGAGTTGTGGACTTAAA
66 TGCCACGGAGTTGTGGACTTAAA
4109386 CGGGTGCCAC
Statistics
Matches: 234, Mismatches: 14, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
161 8 0.03
162 22 0.09
163 5 0.02
164 199 0.85
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (164 bp):
CCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTCGTGGGCTTAAAAAGAAAAAGG
TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGGGTTGTGGACTTTAAAAGGGAAAA
AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGGTA
Found at i:4109353 original size:27 final size:27
Alignment explanation
Indices: 4109323--4109441 Score: 103
Period size: 27 Copynumber: 4.2 Consensus size: 27
4109313 CTTAGAAGGA
* *
4109323 AAAAGAGTGCCACGGAGTCGTGGGCTT
1 AAAAGAGTGCCACGGAGTTGTGGACTT
4109350 AAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
1 -AAAAG----A-GTGCCACGGAGTTGTGGACTT
* * *
4109383 AAACGGGTGCCACGGAGTTGTGGGCTT
1 AAAAGAGTGCCACGGAGTTGTGGACTT
* * **
4109410 AAATGGGTGCCATAGAGTTGTGGACTT
1 AAAAGAGTGCCACGGAGTTGTGGACTT
4109437 AAAAG
1 AAAAG
4109442 GAAAAGAGTG
Statistics
Matches: 76, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
27 47 0.62
28 5 0.07
32 5 0.07
33 19 0.25
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.21
Consensus pattern (27 bp):
AAAAGAGTGCCACGGAGTTGTGGACTT
Found at i:4109486 original size:32 final size:31
Alignment explanation
Indices: 4109462--4109602 Score: 158
Period size: 32 Copynumber: 4.5 Consensus size: 31
4109452 CCACGGAGTT
*
4109462 GTGGGCTTTGTAGAAAAGGATGCCACTAAGTC
1 GTGGACTTTG-AGAAAAGGATGCCACTAAGTC
**
4109494 GTGGACTTTGAGACAAAATATGCCACTAAGTC
1 GTGGACTTTGAGA-AAAGGATGCCACTAAGTC
* *
4109526 GTGGACTTTGAAGAAAAGAATGCCACTGAGTC
1 GTGGACTTTG-AGAAAAGGATGCCACTAAGTC
* * *
4109558 GCGGACTTTGAGAAGA-GATTGCCACTGAGTC
1 GTGGACTTTGAGAAAAGGA-TGCCACTAAGTC
*
4109589 GTGGACTTTAAGAA
1 GTGGACTTTGAGAA
4109603 GGTATTTGAA
Statistics
Matches: 95, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
30 1 0.01
31 32 0.34
32 59 0.62
33 3 0.03
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.24
Consensus pattern (31 bp):
GTGGACTTTGAGAAAAGGATGCCACTAAGTC
Found at i:4109541 original size:64 final size:63
Alignment explanation
Indices: 4109462--4109602 Score: 187
Period size: 64 Copynumber: 2.2 Consensus size: 63
4109452 CCACGGAGTT
* * * *
4109462 GTGGGCTTTGTAGAAAAGGATGCCACTAAGTCGTGGACTTTGAGACA-AAATATGCCACTAAGTC
1 GTGGACTTTGAAGAAAAGAATGCCACTAAGTCGCGGACTTTGAGA-AGAAAT-TGCCACTAAGTC
* * *
4109526 GTGGACTTTGAAGAAAAGAATGCCACTGAGTCGCGGACTTTGAGAAGAGATTGCCACTGAGTC
1 GTGGACTTTGAAGAAAAGAATGCCACTAAGTCGCGGACTTTGAGAAGAAATTGCCACTAAGTC
4109589 GTGGACTTT-AAGAA
1 GTGGACTTTGAAGAA
4109603 GGTATTTGAA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
62 5 0.07
63 21 0.30
64 43 0.62
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.24
Consensus pattern (63 bp):
GTGGACTTTGAAGAAAAGAATGCCACTAAGTCGCGGACTTTGAGAAGAAATTGCCACTAAGTC
Found at i:4109730 original size:8 final size:8
Alignment explanation
Indices: 4109719--4109747 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
4109709 TATTGATATT
4109719 ATGATGTC
1 ATGATGTC
4109727 ATGATGTC
1 ATGATGTC
4109735 ATGATGTC
1 ATGATGTC
4109743 ATGAT
1 ATGAT
4109748 TACAGCACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (8 bp):
ATGATGTC
Found at i:4110547 original size:9 final size:9
Alignment explanation
Indices: 4110535--4110560 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
4110525 GTTTTTCCTT
4110535 TTTTTTTTG
1 TTTTTTTTG
4110544 TTTTTTTTG
1 TTTTTTTTG
4110553 TTTTTTTT
1 TTTTTTTT
4110561 TGTGTGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:4110547 original size:10 final size:10
Alignment explanation
Indices: 4110534--4110563 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
4110524 GGTTTTTCCT
4110534 TTTTTTTTTG
1 TTTTTTTTTG
4110544 -TTTTTTTTG
1 TTTTTTTTTG
4110553 TTTTTTTTTG
1 TTTTTTTTTG
4110563 T
1 T
4110564 GTGAAGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:4127493 original size:19 final size:19
Alignment explanation
Indices: 4127469--4127533 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
4127459 AACTGTACAT
4127469 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
4127488 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
4127501 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
4127520 TGTATCGATACAAA
1 TGTATCGATACAAA
4127534 TCGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:4127505 original size:32 final size:32
Alignment explanation
Indices: 4127464--4127531 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
4127454 TTCGTAACTG
4127464 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
*
4127496 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
4127528 TACA
1 TACA
4127532 AATCGTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
TACATTGTATCGATACAAAACTTATGTATCGA
Found at i:4127506 original size:13 final size:13
Alignment explanation
Indices: 4127488--4127512 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4127478 ACAAAACTTA
4127488 TGTATCGATACAT
1 TGTATCGATACAT
4127501 TGTATCGATACA
1 TGTATCGATACA
4127513 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4130537 original size:12 final size:12
Alignment explanation
Indices: 4130504--4130537 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
4130494 GGTTAAATTT
*
4130504 GTTTGTGATAAA
1 GTTTGTGATGAA
4130516 GTTTGTGATGAA
1 GTTTGTGATGAA
4130528 GTTTGTGATG
1 GTTTGTGATG
4130538 CATGCATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (12 bp):
GTTTGTGATGAA
Found at i:4141232 original size:128 final size:128
Alignment explanation
Indices: 4141004--4141261 Score: 462
Period size: 128 Copynumber: 2.0 Consensus size: 128
4140994 TCAGGCCTGG
4141004 ATGCAAACCAATCCAACAAAAGTTAAGGAGGATGAAGCCAGAAATGCTCCTCAAAATTGAAGAGA
1 ATGCAAACCAATCCAACAAAAGTTAAGGAGGATGAAGCCAGAAATGCTCCTCAAAATTGAAGAGA
*
4141069 AAGTCAAAAAACAGTTCGATGCAAGGTTCATCAAAGTAGCTAAGTATTCGGAATGGGTTGCCA
66 AAGTCAAAAAACAGTTCGATGCAAGGTTCATCAAAGTAGCTAAGTATCCGGAATGGGTTGCCA
*
4141132 ATGCAAACCAATCCAACAAAAGTTAAGGAGGATGAAGCCAGAAATGCTCCTCAAATTTGAAGAGA
1 ATGCAAACCAATCCAACAAAAGTTAAGGAGGATGAAGCCAGAAATGCTCCTCAAAATTGAAGAGA
* * * *
4141197 AAGTCAAGAAACAGTTCGATGTAGGGTTCATCAAAGTAGCTAAGTATCCGGAGTGGGTTGCCA
66 AAGTCAAAAAACAGTTCGATGCAAGGTTCATCAAAGTAGCTAAGTATCCGGAATGGGTTGCCA
4141260 AT
1 AT
4141262 ATAGTCCCTG
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 124 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (128 bp):
ATGCAAACCAATCCAACAAAAGTTAAGGAGGATGAAGCCAGAAATGCTCCTCAAAATTGAAGAGA
AAGTCAAAAAACAGTTCGATGCAAGGTTCATCAAAGTAGCTAAGTATCCGGAATGGGTTGCCA
Found at i:4144721 original size:55 final size:55
Alignment explanation
Indices: 4144633--4145191 Score: 732
Period size: 55 Copynumber: 10.0 Consensus size: 55
4144623 CTCCGTCCGC
* *
4144633 TTTT-CAGTCCCCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
*
4144687 TTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
4144742 CCTTT-CAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCA
1 -TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
** * **
4144797 TTTTTTAGTCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGA--C---ACCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * *
4144858 CCTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGTA
1 -TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
*
4144913 -TTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
4144967 TTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
* **
4145022 TTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGA--C---ACCTTTT-AAAGCCCACACAAGTTGGTGGCA
** * *
4145083 CCTTCCAGTCCTCAAAGAGCAAGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
*
4145138 -TTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTAGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
4145192 AACCTTCCCA
Statistics
Matches: 444, Mismatches: 43, Indels: 36
0.85 0.08 0.07
Matches are distributed among these distances:
53 3 0.01
54 104 0.23
55 228 0.51
56 11 0.02
57 2 0.00
59 2 0.00
60 10 0.02
61 81 0.18
62 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (55 bp):
TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:4145026 original size:225 final size:225
Alignment explanation
Indices: 4144634--4145191 Score: 992
Period size: 225 Copynumber: 2.5 Consensus size: 225
4144624 TCCGTCCGCT
* * *
4144634 TTTCAGTCCCCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
1 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTCCAGTCCT
4144699 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAG
65 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAG
* *
4144764 GACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTTAGTCCTCAAAGAGTAGGATGCTTTTT
130 GACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTT
4144829 CTTTTCAAAGCCCACACAAGTTGGTGGCACC
195 CTTTTCAAAGCCCACACAAGTTGGTGGCACC
*
4144860 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGTATTTCCAGTCCTC
1 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTCCAGTCCTC
*
4144925 AAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAATCCTCAAAGAGCAG
66 AAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAATCCTCAAAGAGCAG
4144989 GACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTT
130 GACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTT
4145054 CTTTTCAAAGCCCACACAAGTTGGTGGCACC
195 CTTTTCAAAGCCCACACAAGTTGGTGGCACC
* *
4145085 TTCCAGTCCTCAAAGAGCAAGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTCCAGTCCTC
1 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTCCAGTCCTC
* *
4145150 AAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTAGTGGCA
66 AAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
4145192 AACCTTCCCA
Statistics
Matches: 319, Mismatches: 12, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
224 3 0.01
225 267 0.84
226 49 0.15
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (225 bp):
TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTCCAGTCCTC
AAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAGG
ACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTC
TTTTCAAAGCCCACACAAGTTGGTGGCACC
Found at i:4145117 original size:280 final size:275
Alignment explanation
Indices: 4144637--4145189 Score: 779
Period size: 280 Copynumber: 2.0 Consensus size: 275
4144627 GTCCGCTTTT
* * *
4144637 CAGTCCCCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
1 CAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAA
4144702 AGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAGGAC
66 AGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAGGAC
* ** ** * * * *
4144767 ACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTTAGTCCTCAAAGAGTAGGATGCTTTTTCTT
131 ACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAAGA-GC---TACCT
4144832 TTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCC
192 TTCAAAGCCCACACAAGTTGGTGGCA--TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCC
*
4144896 CACACAAGTTGGTGGTATTTC
255 CACACAAGTTAGTGGTATTTC
*
4144917 CAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAA
1 CAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAA
* * ** *
4144982 AGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGAT
66 AGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAGGA-
**
4145047 GCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAAGA-C-AC
130 -C---ACCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAAGAGCTAC
*
4145110 CTTTCAAAGCCCACACAAGTTGGTGGCATTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCC
190 CTTTCAAAGCCCACACAAGTTGGTGGCATTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCC
4145175 CACACAAGTTAGTGG
255 CACACAAGTTAGTGG
4145190 CAAACCTTCC
Statistics
Matches: 244, Mismatches: 22, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
278 3 0.01
279 46 0.19
280 148 0.61
282 1 0.00
284 1 0.00
285 5 0.02
286 40 0.16
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (275 bp):
CAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAA
AGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAGGAC
ACCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAAGAGCTACCTTTCA
AAGCCCACACAAGTTGGTGGCATTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACA
AGTTAGTGGTATTTC
Found at i:4145168 original size:116 final size:114
Alignment explanation
Indices: 4144637--4145191 Score: 737
Period size: 116 Copynumber: 5.0 Consensus size: 114
4144627 GTCCGCTTTT
* *
4144637 CAGTCCCCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
1 CAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
*
4144702 AGAGCAGGACACC----TCTTAAAGCCCACACAAGTTGGTGGCACCTTT
66 AGAGCAGGACACCTTTTTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * **
4144747 CAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTTAGTCCTCAA
1 CAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
* ** *
4144812 AGAGTAGGA-TGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
66 AGAGCAGGACACCTTTTTC--TT-AAAGCCCACACAAGTTGGTGGCACCTTC
* *
4144863 CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGTA-TTTCCAGTCCTCAA
1 CAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
**
4144927 AGAGCAGGACACC----TCTTAAAGCCCACACAAGTTGGTGGCATTTTC
66 AGAGCAGGACACCTTTTTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
4144972 CAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAA
1 CAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
**
4145037 AGAGCAGGA-TGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
66 AGAGCAGGACACCTTTTTC--TT-AAAGCCCACACAAGTTGGTGGCACCTTC
* *
4145088 CAGTCCTCAAAGAGCAAGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTCCAGTCCTCAA
1 CAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
*
4145152 AGAGCAGGACACC---TT-TTAAAGCCCACACAAGTTAGTGGCA
66 AGAGCAGGACACCTTTTTCTTAAAGCCCACACAAGTTGGTGGCA
4145192 AACCTTCCCA
Statistics
Matches: 390, Mismatches: 38, Indels: 35
0.84 0.08 0.08
Matches are distributed among these distances:
109 95 0.24
110 93 0.24
112 2 0.01
113 6 0.02
115 46 0.12
116 148 0.38
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (114 bp):
CAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
AGAGCAGGACACCTTTTTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:4145708 original size:19 final size:19
Alignment explanation
Indices: 4145684--4145751 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
4145674 AATTCAACGA
4145684 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
4145703 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
4145718 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
4145735 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
4145752 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:4145722 original size:32 final size:32
Alignment explanation
Indices: 4145686--4145748 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
4145676 TTCAACGATT
*
4145686 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
4145718 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
4145749 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:4145723 original size:13 final size:13
Alignment explanation
Indices: 4145705--4145729 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4145695 ACATAAGTTT
4145705 TGTATCGATACAA
1 TGTATCGATACAA
4145718 TGTATCGATACA
1 TGTATCGATACA
4145730 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4145796 original size:20 final size:20
Alignment explanation
Indices: 4145771--4145824 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
4145761 GCCAAGGAAA
4145771 TGTATCGATACATTTTTCTG
1 TGTATCGATACATTTTTCTG
4145791 TGTATCGATACATTTTTCTG
1 TGTATCGATACATTTTTCTG
4145811 TGTATCGATACATT
1 TGTATCGATACATT
4145825 GTATCGATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (20 bp):
TGTATCGATACATTTTTCTG
Found at i:4145829 original size:13 final size:13
Alignment explanation
Indices: 4145811--4145836 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4145801 CATTTTTCTG
4145811 TGTATCGATACAT
1 TGTATCGATACAT
4145824 TGTATCGATACAT
1 TGTATCGATACAT
4145837 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4145833 original size:33 final size:33
Alignment explanation
Indices: 4145791--4145857 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4145781 CATTTTTCTG
***
4145791 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
4145824 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
4145857 T
1 T
4145858 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:4148387 original size:28 final size:27
Alignment explanation
Indices: 4148320--4148388 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
4148310 CTTCACAATC
**
4148320 GGGGATACTCCAACCCCATTAATCATC
1 GGGGATACTCCAACCCCATTAATCAGA
* * *
4148347 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCATTA-ATCAGA
4148375 GGGGATACTCCAAC
1 GGGGATACTCCAAC
4148389 TCCGGTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCATTAATCAGA
Found at i:4148448 original size:52 final size:51
Alignment explanation
Indices: 4148375--4148544 Score: 175
Period size: 52 Copynumber: 3.3 Consensus size: 51
4148365 TTATTTCCGA
*
4148375 GGGGATACTCCAACTCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTATT-CTAAAACACCAATTTTTCCACAATC
* * **
4148427 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTATTCT-AAAACACCAATTTTTCC-ACAATC
* * *
4148479 GGGGATACTCCAACTCCGATTTTATTTCCAAAATTACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTA-TTCTAAAA-CACCAATTTTTCCACAATC
* *
4148531 GAGGATGCTCCAAC
1 GGGGATACTCCAAC
4148545 CTCGTTATTT
Statistics
Matches: 97, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
51 10 0.10
52 73 0.75
53 10 0.10
54 4 0.04
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGGTTTTATTCTAAAACACCAATTTTTCCACAATC
Found at i:4148587 original size:212 final size:212
Alignment explanation
Indices: 4148205--4148612 Score: 606
Period size: 212 Copynumber: 1.9 Consensus size: 212
4148195 TTATCAATTC
* *
4148205 TCCACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
4148270 TACTCTAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
66 TACTCCAACTCCGATTTTATTTCC-AAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACC
* * *
4148335 CCATTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGGTTTTAT
130 CCATTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTAT
4148400 TGCTAAAACACTAATTTT
195 TGCTAAAACACTAATTTT
* * * *
4148418 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGAGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
** *
4148482 GATACTCCAACTCCGATTTTATTTCC-AAAATTACCAATTT-TTCACAATCGAGGATGCTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* * *
4148545 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
129 CCCATTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
4148610 ATT
193 ATT
4148613 CCCAAAATAT
Statistics
Matches: 175, Mismatches: 17, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
211 26 0.15
212 71 0.41
213 43 0.25
214 35 0.20
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (212 bp):
TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CATTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATT
GCTAAAACACTAATTTT
Found at i:4148677 original size:107 final size:107
Alignment explanation
Indices: 4148265--4148678 Score: 268
Period size: 107 Copynumber: 3.9 Consensus size: 107
4148255 TTCTATAATC
* * * * ** *
4148265 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTC
1 GGGGATACTCCAACCCCGACTTTA-TTCC-CAAAATTACCAATTTC-TCACAATCGAGGATACTC
* * * *
4148330 CAACCCCATTAATCATCGGGGATACTCCAACCCCGTTATTTCCGA
63 CAACCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGA
* ** * * * * * *
4148375 GGGGATACTCCAACTCCGGTTTTATTGCTAAAA-CACTAATTTTTCCACAATCGGGGATACTCCA
1 GGGGATACTCCAACCCCGACTTTATTCCCAAAATTACCAATTTCT-CACAATCGAGGATACTCCA
* * * ***** * * ** * *
4148439 ATCCTGGT-TTTATTTTCAAAACGCCAATTTTCCTTTA-AT-C--
65 ACCCCGTTATTTATCGGGGATACTCCAA--CCCCGTTACTTCCGA
* * * * *
4148479 GGGGATACTCCAACTCCGATTTTATTTCCAAAATTACCAATTTTTCACAATCGAGGATGCTCCAA
1 GGGGATACTCCAACCCCGACTTTATTCCCAAAATTACCAATTTCTCACAATCGAGGATACTCCAA
*
4148544 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTT-ATCGGGGATACTCCAACCCCGTTACTTCCGA
* *** * * *
4148587 GGGGATACTCCAACCCCGGCTTTATTCCCAAAA-TATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTCCCAAAATTACCAATTTCTCACAATCGAGGATACTCCAA
4148651 CCCCGTTATTT-TCGAAGGGATACTCCAA
66 CCCCGTTATTTATCG--GGGATACTCCAA
4148679 TCTCGATTTT
Statistics
Matches: 234, Mismatches: 58, Indels: 27
0.73 0.18 0.08
Matches are distributed among these distances:
104 56 0.24
105 16 0.07
106 22 0.09
107 77 0.33
108 38 0.16
109 3 0.01
110 22 0.09
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.31
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTCCCAAAATTACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGA
Found at i:4148707 original size:79 final size:79
Alignment explanation
Indices: 4148558--4148760 Score: 221
Period size: 79 Copynumber: 2.6 Consensus size: 79
4148548 GTTATTTCAT
* * * *
4148558 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
4148623 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * * ** *
4148637 TGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCTCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
4148701 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* *
4148716 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCC
4148761 TGTTATTATC
Statistics
Matches: 102, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
78 8 0.08
79 94 0.92
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.30
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:4155497 original size:17 final size:17
Alignment explanation
Indices: 4155475--4155508 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4155465 CAGAGGTAAG
*
4155475 AAGGAAGGCAAAGTCAA
1 AAGGAAGCCAAAGTCAA
*
4155492 AAGGAAGCCACAGTCAA
1 AAGGAAGCCAAAGTCAA
4155509 GAATCGATGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.18, G:0.26, T:0.06
Consensus pattern (17 bp):
AAGGAAGCCAAAGTCAA
Found at i:4161195 original size:17 final size:15
Alignment explanation
Indices: 4161173--4161215 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
4161163 CCTTCTCTTC
*
4161173 AAAAAAAAAAGGGCAA
1 AAAAAAAAAAAGG-AA
4161189 AAAAAAAAAAAGGAA
1 AAAAAAAAAAAGGAA
4161204 AAAAACAAAAAA
1 AAAAA-AAAAAA
4161216 ACAAAACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.84, C:0.05, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAGGAA
Found at i:4161216 original size:17 final size:17
Alignment explanation
Indices: 4161173--4161216 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
4161163 CCTTCTCTTC
*
4161173 AAAAAAAAAAGGGCAAA
1 AAAAAAAAAAGGGAAAA
4161190 AAAAAAAAAA-GGAAAA
1 AAAAAAAAAAGGGAAAA
4161206 AAACAAAAAAA
1 AAA-AAAAAAA
4161217 CAAAACAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 8 0.32
17 17 0.68
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAGGGAAAA
Found at i:4162271 original size:55 final size:55
Alignment explanation
Indices: 4162183--4163137 Score: 1170
Period size: 55 Copynumber: 17.0 Consensus size: 55
4162173 CTCCGTCTGC
* *
4162183 TTTT-CAGTCCCCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
*
4162237 TTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
4162292 CCTTT-CAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCA
1 -TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
** * ** *
4162347 TTTTTTAGTCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTAGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGA--C---ACCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * *
4162408 CCTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGTA
1 -TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
4162463 -TTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
4162517 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTTGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
* **
4162572 TTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGA--C---ACCTTTT-AAAGCCCACACAAGTTGGTGGCA
** *
4162633 CCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
4162688 CCTTT-CAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACATAGGTTGGTGGCA
1 -TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
** * **
4162743 TTTTTTAGTCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGA--C---ACCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * *
4162804 CCTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGTA
1 -TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
*
4162859 -TTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
4162913 TTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
* * **
4162968 TTTTTCAGTCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGA--C---ACCTTTT-AAAGCCCACACAAGTTGGTGGCA
** * * *
4163029 CCTTCTAGTCCTCAAAGAGCAAGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
*
4163084 -TTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTAGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
4163138 AACCTTCCCA
Statistics
Matches: 782, Mismatches: 84, Indels: 70
0.84 0.09 0.07
Matches are distributed among these distances:
53 6 0.01
54 154 0.20
55 408 0.52
56 22 0.03
57 4 0.01
59 4 0.01
60 20 0.03
61 158 0.20
62 6 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (55 bp):
TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:4162576 original size:225 final size:220
Alignment explanation
Indices: 4162184--4163137 Score: 1206
Period size: 225 Copynumber: 4.2 Consensus size: 220
4162174 TCCGTCTGCT
* * * *
4162184 TTTCAGTCCCCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
1 TTTCAGTCCTCAAAGAGCAGGACACC-TTTAAAGCCCACACAAGTTGGTGGCACTTTCCAATCCT
* ** *
4162249 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAG
65 CAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAG
* ** * *
4162314 GA-C-ACCTTTT-AAAGCCCACACAGGTTGGTGGCATTTTTTAGTCCTCAAAGAGTAGGATGCTT
130 GAGCTACCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C--
* * *
4162376 TTTCTTTTCAAAGCCCACACAAGTTAGTGGCA
191 --ACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
4162408 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGTA-TTTCCAGTC
1 --TTTCAGTCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCACTTTCCAATC
*
4162472 CTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
63 CTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGC
* * **
4162537 AGGA-C-ACCTTTT-AAAGCCCACACAGGTTTGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGC
128 AGGAGCTACCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C
* *
4162599 TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
191 ----ACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
4162633 CCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAAT
1 --TTTCAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAAT
* * *
4162697 CCTCAAAGAGCAGGACACCTTTTAAAGCCCACATAGGTTGGTGGCATTTTTTAGTCCTCAAAGAG
62 CCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAG
* **
4162762 TAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGG
127 CAGGA-GC--TACCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGG
*
4162827 ACACCTTTCAAAGCCCACACAAGTTGGTGGTA
189 ACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
4162859 TTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCC
1 TTT-CAGTCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACTTTCCAATCC
* *
4162924 TCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGTA
64 TCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCA
** *
4162989 GGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC-TTCTAGTCCTCAAAGAGCAAGA
129 GGA-GC--TACCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGA
4163053 CACCTTTCAAAGCCCACACAAGTTGGTGGCA
190 CACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
4163084 TTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTAGTGGCA
1 TTT-CAGTCCTCAAAGAGCAGGACACC-TTTAAAGCCCACACAAGTTGGTGGCA
4163138 AACCTTCCCA
Statistics
Matches: 678, Mismatches: 36, Indels: 29
0.91 0.05 0.04
Matches are distributed among these distances:
224 8 0.01
225 473 0.70
226 144 0.21
227 3 0.00
228 1 0.00
230 1 0.00
231 5 0.01
232 43 0.06
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (220 bp):
TTTCAGTCCTCAAAGAGCAGGACACCTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAATCCTC
AAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGG
AGCTACCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTT
TCAAAGCCCACACAAGTTGGTGGCA
Found at i:4162946 original size:396 final size:396
Alignment explanation
Indices: 4162209--4163137 Score: 1695
Period size: 396 Copynumber: 2.4 Consensus size: 396
4162199 AGCAGGACGC
**
4162209 CTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAG
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAG
4162273 CCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGG
66 CCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGG
4162338 TTGGTGGCATTTTTTAGTCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTAG
131 TTGGTGGCATTTTTTAGTCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTAG
4162403 TGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGTATTTCC
196 TGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGTATTTCC
* *
4162468 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
261 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAA
*
4162533 GAGCAGGACACCTTTTAAAGCCCACACAGGTTTGTGGCATTTTTCAGTCCTCAAAGAGCAGGATG
326 GAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATG
4162598 CTTTTT
391 CTTTTT
4162604 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAG
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAG
*
4162669 CCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACATAGG
66 CCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGG
*
4162734 TTGGTGGCATTTTTTAGTCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGG
131 TTGGTGGCATTTTTTAGTCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTAG
4162799 TGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGTATTTCC
196 TGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGTATTTCC
4162864 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAA
261 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAA
*
4162929 GAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGTAGGATG
326 GAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATG
4162994 CTTTTT
391 CTTTTT
* *
4163000 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACACCT-TTCAAA
1 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAA
*
4163064 GCCCACACAAGTTGGTGGCA--TTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACA
65 GCCCACACAAGTTGGTGGCACCTTT-CAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACA
* *
4163127 AGTTAGTGGCA
129 GGTTGGTGGCA
4163138 AACCTTCCCA
Statistics
Matches: 517, Mismatches: 14, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
394 3 0.01
395 53 0.10
396 461 0.89
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (396 bp):
CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAG
CCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGG
TTGGTGGCATTTTTTAGTCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTAG
TGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGTATTTCC
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAA
GAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATG
CTTTTT
Found at i:4163654 original size:19 final size:19
Alignment explanation
Indices: 4163630--4163697 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
4163620 AATTCAACGA
4163630 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
4163649 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
4163664 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
4163681 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
4163698 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:4163668 original size:32 final size:32
Alignment explanation
Indices: 4163632--4163694 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
4163622 TTCAACGATT
*
4163632 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
4163664 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
4163695 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:4163669 original size:13 final size:13
Alignment explanation
Indices: 4163651--4163675 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4163641 ACATAAGTTT
4163651 TGTATCGATACAA
1 TGTATCGATACAA
4163664 TGTATCGATACA
1 TGTATCGATACA
4163676 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4163755 original size:13 final size:13
Alignment explanation
Indices: 4163737--4163761 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4163727 CATTTTTCTG
4163737 TGTATCGATACAC
1 TGTATCGATACAC
4163750 TGTATCGATACA
1 TGTATCGATACA
4163762 TGGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:4163759 original size:33 final size:33
Alignment explanation
Indices: 4163717--4163781 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
4163707 GCCAAGGAAA
***
4163717 TGTATCGATACATTTTTCTGTGTATCGATACAC
1 TGTATCGATACATGGATCTGTGTATCGATACAC
*
4163750 TGTATCGATACATGGATCTTTGTATCGATACA
1 TGTATCGATACATGGATCTGTGTATCGATACA
4163782 TTTGGAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAC
Found at i:4166313 original size:28 final size:27
Alignment explanation
Indices: 4166246--4166314 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
4166236 CTTCACAATC
**
4166246 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
4166273 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
4166301 GGGGATACTCCAAC
1 GGGGATACTCCAAC
4166315 TCTGGTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:4166355 original size:107 final size:105
Alignment explanation
Indices: 4166191--4166584 Score: 323
Period size: 107 Copynumber: 3.7 Consensus size: 105
4166181 TTCTATAATC
* *
4166191 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTC
1 GGGGATACTCCAACTCCGGTTTTA-TTCC--AAAAACACCAATTT-TTCACAATCGGGGATACTC
4166256 CAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGA
62 CAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTA-TTCCGA
* * * *
4166301 GGGGATACTCCAACTCTGGTTTTATTGCTAAAACACTAATTTTTCCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACTCCGGTTTTATTCCAAAAACACCAATTTTT-CACAATCGGGGATACTCCAA
** * ** * * * ** * *
4166366 TCCTGGTTTTATTTTC---AAAACGCCAATTTTCCTTTAAT-C--
65 -CCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTCCGA
* * * *
4166405 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATGCTCCAA
1 GGGGATACTCCAACTCCGGTTTTA-TTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
* *
4166470 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
65 CCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTA-TTCCGA
* * * * *** * * *
4166513 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGGATACTCCAACTCCGGTTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
4166578 CCCGTTA
66 CCCGTTA
4166585 TTTTCGAAGG
Statistics
Matches: 219, Mismatches: 51, Indels: 31
0.73 0.17 0.10
Matches are distributed among these distances:
102 2 0.01
103 7 0.03
104 45 0.21
105 17 0.08
106 18 0.08
107 71 0.32
108 29 0.13
109 9 0.04
110 21 0.10
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (105 bp):
GGGGATACTCCAACTCCGGTTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTAATCATCGGGGATACTCCAACCCCGTTATTCCGA
Found at i:4166454 original size:104 final size:103
Alignment explanation
Indices: 4166133--4166469 Score: 279
Period size: 104 Copynumber: 3.2 Consensus size: 103
4166123 ATCAATTCTC
* * * *
4166133 CACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGAT
1 CACAATCGAGGATACTCCAA-TCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
4166197 ACTCTAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCC--AAAAACACCAATTT-TT
* * * * ** * * * ** * *
4166239 CACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTTCCGA
1 CACAATCGAGGATACTCCAATCCGGTTTTATTTTC---AAAACACCAATTTTCCTTTA-AT-C--
* * * * *
4166301 GGGGATACTCCAACTCTGGTTTTA-TTGCTAAAACACTAATTTTT
59 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
* *
4166345 CCACAATCGGGGATACTCCAATCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 -CACAATCGAGGATACTCCAATCC-GGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
*
4166410 TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
*
4166450 CACAATCGAGGATGCTCCAA
1 CACAATCGAGGATACTCCAA
4166470 CCTCGTTATT
Statistics
Matches: 174, Mismatches: 43, Indels: 30
0.70 0.17 0.12
Matches are distributed among these distances:
104 46 0.26
105 18 0.10
106 31 0.18
107 42 0.24
108 7 0.04
109 9 0.05
110 21 0.12
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (103 bp):
CACAATCGAGGATACTCCAATCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:4166470 original size:52 final size:51
Alignment explanation
Indices: 4166133--4166470 Score: 204
Period size: 52 Copynumber: 6.4 Consensus size: 51
4166123 ATCAATTCTC
* * * * *
4166133 CACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAA-TTTT
1 CACAATCGGGGATACTCCAACTCCGGTTTTATTTCCAAAACACCAATTTTT
* * *
4166183 CTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTT
1 C-ACAATCGGGGATACTCCAACTCCGGTTTTATTTCC---AAAACACCAATTT-TT
* * * ** * *
4166239 CACAATCGGGGATACTCCAAC-CCCG-TTAATCATCGGGGATACTCCAACCCCGTTATTT
1 CACAATCGGGGATACTCCAACTCCGGTTTTAT-TTC--CAAAACACCAA-----TT-TTT
* * * * *
4166297 C-CGA--GGGGATACTCCAACTCTGGTTTTATTGCTAAAACACTAATTTTT
1 CACAATCGGGGATACTCCAACTCCGGTTTTATTTCCAAAACACCAATTTTT
* * *
4166345 CCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTC
1 -CACAATCGGGGATACTCCAACTCC-GGTTTTATTTCCAAAACACCAATTTTT
** * *
4166397 CTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
1 C-ACAATCGGGGATACTCCAACTCCGGTTTTATTTCC-AAAACACCAATTTTT
* *
4166450 CACAATCGAGGATGCTCCAAC
1 CACAATCGGGGATACTCCAAC
4166471 CTCGTTATTT
Statistics
Matches: 217, Mismatches: 46, Indels: 48
0.70 0.15 0.15
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 3 0.01
51 33 0.15
52 77 0.35
53 27 0.12
54 19 0.09
55 34 0.16
56 6 0.03
57 6 0.03
58 5 0.02
59 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
CACAATCGGGGATACTCCAACTCCGGTTTTATTTCCAAAACACCAATTTTT
Found at i:4166513 original size:212 final size:212
Alignment explanation
Indices: 4166131--4166526 Score: 618
Period size: 212 Copynumber: 1.9 Consensus size: 212
4166121 TTATCAATTC
* *
4166131 TCCACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
4166196 TACTCTAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
66 TACTCCAACTCCGATTTTATTTCC-AAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACC
*
4166261 CCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCTGGTTTTAT
130 CCGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACTCTGGTTTTAT
4166326 TGCTAAAACACTAATTTT
195 TGCTAAAACACTAATTTT
* * * *
4166344 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGAGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
* *
4166408 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATGCTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* *
4166471 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAAC
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAAC
4166527 CCCGGCTTTA
Statistics
Matches: 167, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
211 27 0.16
212 62 0.37
213 43 0.26
214 35 0.21
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (212 bp):
TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACTCTGGTTTTATT
GCTAAAACACTAATTTT
Found at i:4166633 original size:79 final size:79
Alignment explanation
Indices: 4166484--4166686 Score: 230
Period size: 79 Copynumber: 2.6 Consensus size: 79
4166474 GTTATTTCAT
* * * *
4166484 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
4166549 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * ** *
4166563 TGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
4166627 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* *
4166642 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCC
4166687 TGTTATTATC
Statistics
Matches: 104, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
78 8 0.08
79 96 0.92
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:4168140 original size:10 final size:10
Alignment explanation
Indices: 4168123--4168191 Score: 77
Period size: 10 Copynumber: 6.7 Consensus size: 10
4168113 TCCTTCATAC
4168123 ACAAAAAAAA
1 ACAAAAAAAA
*
4168133 A-TAAAAAAA
1 ACAAAAAAAA
4168142 ACAAAAAAAA
1 ACAAAAAAAA
4168152 ACAAAAAAAA
1 ACAAAAAAAA
*
4168162 ATAAAAAAACCA
1 ACAAAAAAA--A
*
4168174 AGAAAAAAATA
1 ACAAAAAAA-A
4168185 ACAAAAA
1 ACAAAAA
4168192 GACAGAAAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
9 8 0.16
10 26 0.52
11 7 0.14
12 9 0.18
ACGTcount: A:0.86, C:0.09, G:0.01, T:0.04
Consensus pattern (10 bp):
ACAAAAAAAA
Found at i:4168150 original size:20 final size:20
Alignment explanation
Indices: 4168126--4168191 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 20
4168116 TTCATACACA
* *
4168126 AAAAAAAATAAAAAAAACA-
1 AAAAAAAACAAAAAAAAAAT
4168145 AAAAAAAAC-AAAAAAAAAT
1 AAAAAAAACAAAAAAAAAAT
* *
4168164 AAAAAAACCAAGAAAAAAAT
1 AAAAAAAACAAAAAAAAAAT
4168184 AACAAAAA
1 AA-AAAAA
4168192 GACAGAAAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.20
19 16 0.40
20 11 0.28
21 5 0.12
ACGTcount: A:0.86, C:0.08, G:0.02, T:0.05
Consensus pattern (20 bp):
AAAAAAAACAAAAAAAAAAT
Found at i:4168155 original size:29 final size:30
Alignment explanation
Indices: 4168123--4168191 Score: 104
Period size: 29 Copynumber: 2.3 Consensus size: 30
4168113 TCCTTCATAC
4168123 ACAAAAAAAAATAAAAAAAACAA-AAAAAA
1 ACAAAAAAAAATAAAAAAAACAAGAAAAAA
*
4168152 ACAAAAAAAAATAAAAAAACCAAGAAAAAA
1 ACAAAAAAAAATAAAAAAAACAAGAAAAAA
* *
4168182 ATAACAAAAA
1 ACAAAAAAAA
4168192 GACAGAAAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
29 22 0.61
30 14 0.39
ACGTcount: A:0.86, C:0.09, G:0.01, T:0.04
Consensus pattern (30 bp):
ACAAAAAAAAATAAAAAAAACAAGAAAAAA
Found at i:4168182 original size:1 final size:1
Alignment explanation
Indices: 4168125--4168170 Score: 56
Period size: 1 Copynumber: 46.0 Consensus size: 1
4168115 CTTCATACAC
* * * *
4168125 AAAAAAAAATAAAAAAAACAAAAAAAAACAAAAAAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4168171 CCAAGAAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.91, C:0.04, G:0.00, T:0.04
Consensus pattern (1 bp):
A
Found at i:4168455 original size:13 final size:13
Alignment explanation
Indices: 4168437--4168461 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4168427 TTGTTAGAGG
4168437 CATCTTTCACCCT
1 CATCTTTCACCCT
4168450 CATCTTTCACCC
1 CATCTTTCACCC
4168462 AAAAATCATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.48, G:0.00, T:0.36
Consensus pattern (13 bp):
CATCTTTCACCCT
Found at i:4169451 original size:28 final size:27
Alignment explanation
Indices: 4169408--4169909 Score: 583
Period size: 28 Copynumber: 17.9 Consensus size: 27
4169398 CGTTCATCTC
*
4169408 TTCAAAGCCCAAAAGTCAGTGGCACCAT
1 TTCAAAGCCCACAAGTCAGTGGCACC-T
* *
4169436 TTTAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCT
*
4169464 TTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCT
*
4169492 TTCAAAGCCCACAAGTCAGTGGAACCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCT
*
4169520 TTCAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCT
* *
4169548 TTCAAAGCCCACAAATTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCT
4169576 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCT
* *
4169604 TTGAAAGCCCATAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCT
*
4169632 TTCAAAGCCCACAATTCAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACC-T
* **
4169660 TTCAAAG-CCATAAGTCAGTGGCATTATT
1 TTCAAAGCCCACAAGTCAGTGGCA--CCT
* *
4169688 TTCAAAGCCCACAAGTCAATGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCT
*
4169716 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCT
*
4169744 TTCAAAGCCCGCAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCT
4169772 TTCAAAGCCCACAAGTCAGTGGCATTCCT
1 TTCAAAGCCCACAAGTCAGTGGCA--CCT
*
4169801 TTCAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCT
* *
4169829 TTCAAAGCCCATAAGTCAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCT
** *
4169857 TTCAAAGCCTGCAAGTCAGTGGTACCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCT
* * *
4169885 TTCAAAGCCCATATGTGAGTGGCAC
1 TTCAAAGCCCACAAGTCAGTGGCAC
4169910 TATTTTCAGA
Statistics
Matches: 412, Mismatches: 56, Indels: 13
0.86 0.12 0.03
Matches are distributed among these distances:
27 17 0.04
28 353 0.86
29 42 0.10
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (27 bp):
TTCAAAGCCCACAAGTCAGTGGCACCT
Found at i:4169543 original size:84 final size:84
Alignment explanation
Indices: 4169402--4169924 Score: 652
Period size: 84 Copynumber: 6.2 Consensus size: 84
4169392 CTAGAACGTT
* * * *
4169402 CATCTCTTCAAAGCCCAAAAGTCAGTGGCACCATTTTAAAGCCCACAAGTCAATGGCATCCTTTC
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCATCCTTTC
4169467 AAAGCCCACAAGTCAGTGG
66 AAAGCCCACAAGTCAGTGG
*
4169486 CATCTTTTCAAAGCCCACAAGTCAGTGGAACCCTTTCAAAGCCCACAAGTCAATGGCATCCTTTC
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCATCCTTTC
* *
4169551 AAAGCCCACAAATTAGTGG
66 AAAGCCCACAAGTCAGTGG
* * * * * *
4169570 CACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTGAAAGCCCATAAGTCAGTGGCATCCTTTC
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCATCCTTTC
*
4169635 AAAGCCCACAATTCAGTGG
66 AAAGCCCACAAGTCAGTGG
* * *** *
4169654 CACCTTTTCAAAG-CCATAAGTCAGTGGCATTATTTTCAAAGCCCACAAGTCAATGGCATCATTT
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAATGGCATCCTTT
*
4169718 CAAAGCCCACAAGTTAGTGG
65 CAAAGCCCACAAGTCAGTGG
* * * *
4169738 CACCCTTTCAAAGCCCGCAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATTCCTTT
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCA-TCCTTT
*
4169803 CAAAGCCCACAAGTCAATGG
65 CAAAGCCCACAAGTCAGTGG
* * * * ** * * *
4169823 CATCCTTTCAAAGCCCATAAGTCAGTGGCATCATTTCAAAGCCTGCAAGTCAGTGGTACCCTTTC
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCATCCTTTC
* * *
4169888 AAAGCCCATATGTGAGTGG
66 AAAGCCCACAAGTCAGTGG
* *
4169907 CACTATTTTCAGAGCCCA
1 CA-TCTTTTCAAAGCCCA
4169925 TAAGCTAGTA
Statistics
Matches: 383, Mismatches: 52, Indels: 7
0.87 0.12 0.02
Matches are distributed among these distances:
83 15 0.04
84 269 0.70
85 99 0.26
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (84 bp):
CATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCATCCTTTC
AAAGCCCACAAGTCAGTGG
Found at i:4169908 original size:56 final size:56
Alignment explanation
Indices: 4169408--4169895 Score: 658
Period size: 56 Copynumber: 8.7 Consensus size: 56
4169398 CGTTCATCTC
* * *
4169408 TTCAAAGCCCAAAAGTCAGTGGCA-CCATTTTAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
4169464 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGAACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
4169520 TTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAATTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
4169576 TTCAAAGCCCACAAGTCAGTGGCATCCTTTGAAAGCCCATAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* * **
4169632 TTCAAAGCCCACAATTCAGTGGCA-CCTTTTCAAAG-CCATAAGTCAGTGGCATTATT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCA-TCCT
* * * *
4169688 TTCAAAGCCCACAAGTCAATGGCATCATTTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
* *
4169744 TTCAAAGCCCGCAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATTCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-TCCT
* * *
4169801 TTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCATAAGTCAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
** * *
4169857 TTCAAAGCCTGCAAGTCAGTGGTACCCTTTCAAAGCCCA
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCA
4169896 TATGTGAGTG
Statistics
Matches: 381, Mismatches: 45, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
55 18 0.05
56 296 0.78
57 67 0.18
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.23
Consensus pattern (56 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:4170051 original size:33 final size:35
Alignment explanation
Indices: 4169979--4170062 Score: 127
Period size: 35 Copynumber: 2.5 Consensus size: 35
4169969 AACTCTTTTC
*
4169979 AAAGCCCACACAAGTTAGTAGCACCTTTTAAAAAA
1 AAAGCCCACACAAGTTAGGAGCACCTTTTAAAAAA
*
4170014 AAAGCCCACACAAGTTAGGGGCACC-TTT-AAAAA
1 AAAGCCCACACAAGTTAGGAGCACCTTTTAAAAAA
*
4170047 AAAGCCCACGCAAGTT
1 AAAGCCCACACAAGTT
4170063 GGTGGCAACC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 20 0.43
34 3 0.07
35 23 0.50
ACGTcount: A:0.43, C:0.25, G:0.15, T:0.17
Consensus pattern (35 bp):
AAAGCCCACACAAGTTAGGAGCACCTTTTAAAAAA
Found at i:4170076 original size:35 final size:35
Alignment explanation
Indices: 4169979--4170076 Score: 121
Period size: 35 Copynumber: 2.8 Consensus size: 35
4169969 AACTCTTTTC
* * *
4169979 AAAGCCCACACAAGTTAGTAGCACCTTTTAAAAAA
1 AAAGCCCACACAAGTTGGTGGCACCCTTTAAAAAA
4170014 AAAGCCCACACAAGTTAGG-GGCA-CCTTT-AAAAA
1 AAAGCCCACACAAGTT-GGTGGCACCCTTTAAAAAA
*
4170047 AAAGCCCACGCAAGTTGGTGGCAACCCTTT
1 AAAGCCCACACAAGTTGGTGGC-ACCCTTT
4170077 TCAAATCACC
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
32 2 0.04
33 23 0.42
34 5 0.09
35 24 0.44
36 1 0.02
ACGTcount: A:0.39, C:0.26, G:0.17, T:0.18
Consensus pattern (35 bp):
AAAGCCCACACAAGTTGGTGGCACCCTTTAAAAAA
Found at i:4170958 original size:20 final size:20
Alignment explanation
Indices: 4170933--4171006 Score: 112
Period size: 20 Copynumber: 3.7 Consensus size: 20
4170923 TGCCTAGATA
4170933 TATCGATACATTTTTCAATG
1 TATCGATACATTTTTCAATG
* * *
4170953 TATCGATACATGTATGAATG
1 TATCGATACATTTTTCAATG
*
4170973 TATCGATACATTCTTCAATG
1 TATCGATACATTTTTCAATG
4170993 TATCGATACATTTT
1 TATCGATACATTTT
4171007 ATCTTTTTAC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (20 bp):
TATCGATACATTTTTCAATG
Found at i:4176801 original size:20 final size:20
Alignment explanation
Indices: 4176776--4176872 Score: 81
Period size: 20 Copynumber: 4.8 Consensus size: 20
4176766 CTGCTAGGGA
4176776 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
*
4176796 AATGTATCGATACATTGTATC
1 AATGTATCGATACATTAT-TC
* ** * **
4176817 GATACATCTGGA-A-TTTACCC
1 AATGTATC--GATACATTATTC
4176837 AGATGTATCGATACATTATTC
1 A-ATGTATCGATACATTATTC
4176858 AATGTATCGATACAT
1 AATGTATCGATACAT
4176873 GCAGGCAAAG
Statistics
Matches: 57, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
19 2 0.04
20 33 0.58
21 19 0.33
22 1 0.02
23 2 0.04
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:4176816 original size:13 final size:13
Alignment explanation
Indices: 4176798--4176823 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4176788 CATTATTCAA
4176798 TGTATCGATACAT
1 TGTATCGATACAT
4176811 TGTATCGATACAT
1 TGTATCGATACAT
4176824 CTGGAATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4182575 original size:51 final size:51
Alignment explanation
Indices: 4182479--4182587 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 51
4182469 ATTTGTCTGC
* * * * *
4182479 ATGTATCAATACATTGAAGAAGTATCGATACATTTGGTTTAAAAACCTAGA
1 ATGTATCAAGACAATGAAGAAGTATCCATACATTTGGTGTAAAAACCCAGA
*
4182530 ATGTATCAAGACAATGAAGAATGTATCCATACATTTGG-GTCAAAACCCAGA
1 ATGTATCAAGACAATGAAGAA-GTATCCATACATTTGGTGTAAAAACCCAGA
4182581 ATGTATC
1 ATGTATC
4182588 GATACATTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
51 36 0.71
52 15 0.29
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (51 bp):
ATGTATCAAGACAATGAAGAAGTATCCATACATTTGGTGTAAAAACCCAGA
Found at i:4183418 original size:21 final size:20
Alignment explanation
Indices: 4183394--4183486 Score: 82
Period size: 21 Copynumber: 4.7 Consensus size: 20
4183384 TTTCATAATT
4183394 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAA-AGTAAA
** **
4183415 TGTATCGATACTTAAGT-GT
1 TGTATCGATACAAAAGTAAA
*
4183434 TGTATCGATATAAATAGTAAA
1 TGTATCGATACAAA-AGTAAA
* **
4183455 TGTATCGATACATAAGT-GT
1 TGTATCGATACAAAAGTAAA
4183474 TGTATCGATACAA
1 TGTATCGATACAA
4183487 TGTATGGATA
Statistics
Matches: 56, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
19 23 0.41
20 9 0.16
21 24 0.43
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAAAAGTAAA
Found at i:4183453 original size:40 final size:40
Alignment explanation
Indices: 4183393--4183486 Score: 161
Period size: 40 Copynumber: 2.4 Consensus size: 40
4183383 TTTTCATAAT
*
4183393 TTGTATCGATACAAACAGTAAATGTATCGATACTTAAGTG
1 TTGTATCGATACAAACAGTAAATGTATCGATACATAAGTG
* *
4183433 TTGTATCGATATAAATAGTAAATGTATCGATACATAAGTG
1 TTGTATCGATACAAACAGTAAATGTATCGATACATAAGTG
4183473 TTGTATCGATACAA
1 TTGTATCGATACAA
4183487 TGTATGGATA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (40 bp):
TTGTATCGATACAAACAGTAAATGTATCGATACATAAGTG
Found at i:4183485 original size:19 final size:19
Alignment explanation
Indices: 4183415--4183485 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
4183405 AAACAGTAAA
*
4183415 TGTATCGATACTTAAGTGT
1 TGTATCGATACATAAGTGT
* * **
4183434 TGTATCGATATAAATAGTAAA
1 TGTATCGATACATA-AGT-GT
4183455 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
4183474 TGTATCGATACA
1 TGTATCGATACA
4183486 ATGTATGGAT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
19 23 0.56
20 6 0.15
21 12 0.29
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:4190603 original size:26 final size:25
Alignment explanation
Indices: 4190574--4190642 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 25
4190564 AAAAATGATG
4190574 AAAAAGTCAAAAGTAAAAACACAAAA
1 AAAAAGTCAAAAG-AAAAACACAAAA
*
4190600 AAAAAG-CAAAA-AGAAACACAAAA
1 AAAAAGTCAAAAGAAAAACACAAAA
*
4190623 AAAAGAGTGCAAAAGCAAAA
1 AAAA-AGT-CAAAAGAAAAA
4190643 TCAAAAAGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
23 15 0.42
24 2 0.06
25 5 0.14
26 11 0.31
27 3 0.08
ACGTcount: A:0.72, C:0.12, G:0.12, T:0.04
Consensus pattern (25 bp):
AAAAAGTCAAAAGAAAAACACAAAA
Found at i:4191921 original size:30 final size:30
Alignment explanation
Indices: 4191886--4192304 Score: 466
Period size: 30 Copynumber: 13.7 Consensus size: 30
4191876 TCTTCAAATC
* *
4191886 TCTCTTCTCAAAGTCCACGACTTAGTGGCC
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
4191916 TCTCTTCTCAAAGTTCACAACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
4191946 TCTTTTTTTCAAAGTCCACGACTCAGTGGCA
1 TC-TCTTCTCAAAGTCCACGACTCAGTGGCA
* *
4191977 TC-CTTCTCTTCCAAGTCCACGACCCAGTGGCA
1 TCTC-T-TC-TCAAAGTCCACGACTCAGTGGCA
* * *
4192009 TCTTTTTTCCAAAGTCCATGACTCAGTGGCA
1 TCTCTTCT-CAAAGTCCACGACTCAGTGGCA
* * *
4192040 TCTCTTCCCTAAGTCCATGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
4192070 TC-CGTTTCTTCAAAGTCCACGACTCAGTGGCA
1 TCTC--TTC-TCAAAGTCCACGACTCAGTGGCA
* * *
4192102 TCTCTTCCCAAAGTCCACGACTTAGGGGCAA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGC-A
*
4192133 TCTCTTCTCAAAGTCCACGACTTAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
*
4192163 TCT-TGTCCCAAAGTCCACGACTCAGTGGCA
1 TCTCT-TCTCAAAGTCCACGACTCAGTGGCA
* *
4192193 TCTCTTCCCAAAGTCCACAACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* * *
4192223 TCTTTTCTTCAAAGTCCATGACTCAGTGGTAA
1 TCTCTTC-TCAAAGTCCACGACTCAGTGG-CA
* *
4192255 TCTCTTCTTAAAGTCCACGACTTAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
*
4192285 TCTCTTCCCAAAGTCCACGA
1 TCTCTTCTCAAAGTCCACGA
4192305 TTCCATGGCA
Statistics
Matches: 330, Mismatches: 44, Indels: 30
0.82 0.11 0.07
Matches are distributed among these distances:
29 2 0.01
30 151 0.46
31 123 0.37
32 53 0.16
33 1 0.00
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.29
Consensus pattern (30 bp):
TCTCTTCTCAAAGTCCACGACTCAGTGGCA
Found at i:4192015 original size:61 final size:61
Alignment explanation
Indices: 4191883--4192304 Score: 380
Period size: 61 Copynumber: 6.9 Consensus size: 61
4191873 AATTCTTCAA
* * * * * *
4191883 ATCTCTCTTCTCAAAGTCCACGACTTAGTGGCCTCTCTTCT-CAAAGTTCACAACTCAGTGGC
1 ATCT-TCTTTTCAAAGTCCACGACTCAGTGGCATC-CTTCTCCCAAGTCCACGACTCAGTGGC
* *
4191945 ATCTTTTTTTCAAAGTCCACGACTCAGTGGCATCCTTCTCTTCCAAGTCCACGACCCAGTGGC
1 ATCTTCTTTTCAAAGTCCACGACTCAGTGGCATCCTTCTC--CCAAGTCCACGACTCAGTGGC
* * *
4192008 ATCTT-TTTTCCAAAGTCCATGACTCAGTGGCATCTCTTC-CCTAAGTCCATGACTCAGTGGC
1 ATCTTCTTTT-CAAAGTCCACGACTCAGTGGCATC-CTTCTCCCAAGTCCACGACTCAGTGGC
* * * *
4192069 ATCCGTT-TCTTCAAAGTCCACGACTCAGTGGCATCTCTTC-CCAAAGTCCACGACTTAGGGGC
1 AT-C-TTCTTTTCAAAGTCCACGACTCAGTGGCATC-CTTCTCCCAAGTCCACGACTCAGTGGC
* * *
4192131 AATC-TCTTCTCAAAGTCCACGACTTAGTGGCAT-CTTGTCCCAAAGTCCACGACTCAGTGGC
1 -ATCTTCTTTTCAAAGTCCACGACTCAGTGGCATCCTTCTCCC-AAGTCCACGACTCAGTGGC
** * * * * * *
4192192 ATC-TCTTCCCAAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCATGACTCAGTGGTA
1 ATCTTCTTTTCAAAGTCCACGACTCAGTGGCATC-CTTCTCCCAAGTCCACGACTCAGTGG-C
* *
4192254 ATC-TCTTCTT-AAAGTCCACGACTTAGTGGCATCTCTTC-CCAAAGTCCACGA
1 ATCTTCTT-TTCAAAGTCCACGACTCAGTGGCATC-CTTCTCCCAAGTCCACGA
4192305 TTCCATGGCA
Statistics
Matches: 304, Mismatches: 41, Indels: 31
0.81 0.11 0.08
Matches are distributed among these distances:
59 3 0.01
60 37 0.12
61 115 0.38
62 92 0.30
63 53 0.17
64 4 0.01
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.29
Consensus pattern (61 bp):
ATCTTCTTTTCAAAGTCCACGACTCAGTGGCATCCTTCTCCCAAGTCCACGACTCAGTGGC
Found at i:4192360 original size:61 final size:61
Alignment explanation
Indices: 4192295--4192529 Score: 242
Period size: 61 Copynumber: 3.8 Consensus size: 61
4192285 TCTCTTCCCA
* * * *
4192295 AAGTCCACGATTCCATGGCACTTTTTTCTTTTCAAAGTCTACAACTCTATCG-CACCCTTTT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGTCCACAACTCTAT-GACACCCTTTT
* *
4192356 AAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGTCCATAACTCTGTGACACCCTTTT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGTCCACAACTCTATGACACCCTTTT
* * * * ** *
4192417 AAGTCCACAACTCCATGACACCTTTTTCTTTTTAAAGCCCATAACTCCGTGGCATCTATTTCCTT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGTCCACAACTCTAT-G-A-C-A--CCCTT
4192482 TT
60 TT
* *
4192484 AAGTCCACAACTCCATGTCACCTTGTTCCTTTT--AAGTCCACAACTC
1 AAGTCCACAACTCCATGGCACCTT-TTTCTTTTCAAAGTCCACAACTC
4192530 CATGGTACCT
Statistics
Matches: 151, Mismatches: 15, Indels: 11
0.85 0.08 0.06
Matches are distributed among these distances:
60 1 0.01
61 99 0.66
62 1 0.01
63 1 0.01
64 1 0.01
65 1 0.01
66 11 0.07
67 29 0.19
68 7 0.05
ACGTcount: A:0.24, C:0.31, G:0.09, T:0.35
Consensus pattern (61 bp):
AAGTCCACAACTCCATGGCACCTTTTTCTTTTCAAAGTCCACAACTCTATGACACCCTTTT
Found at i:4192362 original size:122 final size:121
Alignment explanation
Indices: 4191886--4192304 Score: 407
Period size: 123 Copynumber: 3.4 Consensus size: 121
4191876 TCTTCAAATC
* * * *
4191886 TCTCTTCTCAAAGTCCACGACTTAGTGGCCTCTCT-TCTCAAAGTTCACAACTCAGTGGCATCTT
1 TCTCTTCTCAAAGTCCACGACTTAGTGGCATCT-TGTCCCAAAGTCCACGACTCAGTGGCATC-T
* ** * * * * * *
4191950 TTTTTCAAAGTCCACGACTCAGTGGCATCCTTCTCTTCCAAGTCCACGACCCAGTGGC-A
64 CTTCCCAAAGTCCACAACTCAGTCGCATCCCT-TCTT-AAAGTCCACGACTCAGGGGCAA
* * * * * *
4192009 TCTTTTTTCCAAAGTCCATGACTCAGTGGCATCTCT-TCCCTAAGTCCATGACTCAGTGGCATC-
1 TCTCTTCT-CAAAGTCCACGACTTAGTGGCATCT-TGTCCCAAAGTCCACGACTCAGTGGCATCT
* * * * ** *
4192072 CGTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCCCAAAGTCCACGACTTAGGGGCAA
64 C--TTC-CCAAAGTCCACAACTCAGTCGCATCCCTTCTTAAAGTCCACGACTCAGGGGCAA
4192133 TCTCTTCTCAAAGTCCACGACTTAGTGGCATCTTGTCCCAAAGTCCACGACTCAGTGGCATCTCT
1 TCTCTTCTCAAAGTCCACGACTTAGTGGCATCTTGTCCCAAAGTCCACGACTCAGTGGCATCTCT
* ** * * *
4192198 TCCCAAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCATGACTCAGTGGTAA
66 TCCCAAAGTCCACAACTCAGTCGCATCCCTTCTT-AAAGTCCACGACTCAGGGGCAA
*
4192255 TCTCTTCTTAAAGTCCACGACTTAGTGGCATCTCT-TCCCAAAGTCCACGA
1 TCTCTTCTCAAAGTCCACGACTTAGTGGCATCT-TGTCCCAAAGTCCACGA
4192305 TTCCATGGCA
Statistics
Matches: 251, Mismatches: 36, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
121 27 0.11
122 69 0.27
123 71 0.28
124 58 0.23
125 26 0.10
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.29
Consensus pattern (121 bp):
TCTCTTCTCAAAGTCCACGACTTAGTGGCATCTTGTCCCAAAGTCCACGACTCAGTGGCATCTCT
TCCCAAAGTCCACAACTCAGTCGCATCCCTTCTTAAAGTCCACGACTCAGGGGCAA
Found at i:4192365 original size:27 final size:26
Alignment explanation
Indices: 4192329--4192443 Score: 77
Period size: 27 Copynumber: 4.0 Consensus size: 26
4192319 TTTCTTTTCA
*
4192329 AAGTCTACAACTCTATCGCACCCTTTT
1 AAGTCCACAACTCTAT-GCACCCTTTT
*
4192356 AAGTCCACAACTCCATGGCACCTTTTTCTTTT
1 AAGTCCACAACTCTAT-GCACC-----CTTTT
* *
4192388 CAAAGTCCATAACTCTGTGACACCCTTTT
1 --AAGTCCACAACTCTATG-CACCCTTTT
* *
4192417 AAGTCCACAACTCCATGACACCTTTTT
1 AAGTCCACAACTCTATG-CACCCTTTT
4192444 CTTTTTAAAG
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
27 42 0.60
29 5 0.07
32 5 0.07
33 1 0.01
34 17 0.24
ACGTcount: A:0.26, C:0.32, G:0.09, T:0.33
Consensus pattern (26 bp):
AAGTCCACAACTCTATGCACCCTTTT
Found at i:4192451 original size:33 final size:33
Alignment explanation
Indices: 4192295--4192618 Score: 208
Period size: 34 Copynumber: 10.0 Consensus size: 33
4192285 TCTCTTCCCA
* * * *
4192295 AAGTCCACGATTCCATGGCACTTTTTTCTTTTCA
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTT-T
* * *
4192329 AAGTCTACAACTCTATCGCACC-----C-TTTT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
*
4192356 AAGTCCACAACTCCATGGCACCTTTTTCTTTTCA
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTT-T
* ** *
4192390 AAGTCCATAACTCTGTGACACC-----C-TTTT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
*
4192417 AAGTCCACAACTCCATGACACCTTTTTCTTTTT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
* * * * * *
4192450 AAAGCCCATAACTCCGTGGCATCTATTTCCTTTT
1 -AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
* * *
4192484 AAGTCCACAACTCCATGTCACCTTGTTCCTTTT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
*
4192517 AAGTCCACAACTCCATGGTACC-TTTTCTTTTT
1 AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
* ** * *
4192549 AAGTCCACGACTCTGTGGCACCCTTTTCCCTTTT
1 AAGTCCACAACTCCATGGCA-CCTTTTTCTTTTT
* *
4192583 AAGCCCAC-ACTTCCGTGGCATCCTTTTATTCTTTTT
1 AAGTCCACAAC-TCCATGGCA-CC-TTT-TTCTTTTT
4192619 CTCACCTTTA
Statistics
Matches: 223, Mismatches: 48, Indels: 36
0.73 0.16 0.12
Matches are distributed among these distances:
27 38 0.17
28 6 0.03
29 2 0.01
32 26 0.12
33 57 0.26
34 85 0.38
35 3 0.01
36 6 0.03
ACGTcount: A:0.22, C:0.31, G:0.10, T:0.37
Consensus pattern (33 bp):
AAGTCCACAACTCCATGGCACCTTTTTCTTTTT
Found at i:4192669 original size:43 final size:43
Alignment explanation
Indices: 4192621--4192763 Score: 169
Period size: 43 Copynumber: 3.2 Consensus size: 43
4192611 TTCTTTTTCT
*
4192621 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGA
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
* * * *
4192664 CACCTTTATTTTTAAGACCAATGTCGCTAGCCTTGAATCAACATATTGG
1 CACC------TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
*
4192713 CACCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGG
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
*
4192756 CAACTTTA
1 CACCTTTA
4192764 TCCTTTTTCT
Statistics
Matches: 83, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
43 45 0.54
49 38 0.46
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (43 bp):
CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
Found at i:4192697 original size:49 final size:49
Alignment explanation
Indices: 4192624--4193314 Score: 514
Period size: 49 Copynumber: 14.5 Consensus size: 49
4192614 TTTTTCTCAC
* *
4192624 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTTAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * * *
4192673 TTTTAAGACCAATGTCGCTAGCCTTGAATCAACATATTGGCA-C-----
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * *
4192716 CTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCAACTTTATCCTTTTTCTCAC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGG---C---A-CC---TT-T-AT
* * *
4192777 CTTTAAGTCCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * * * *
4192826 CTTTAAGACCAATGTCGTTGGCCTCGAATCAGAACATTGGCA-C-----
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* *
4192869 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * * *
4192918 CATTTTGAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACC-TTGT
1 C--TTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * * *
4192968 CTTGAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGG---C---A-
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * * * * *
4193010 C---AAGCCCAATATCGCTGGTCTTGAATCAACATCTTGGCAGC-TTGT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * * *
4193055 CTTTAATACCAATGTCGCTAGCCTTGAATCAGCACATTGG---C---A-
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * * *
4193097 C---AAGCCCAATATCGTTGGCCTTGAATTAGCATATTGGCACCTTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * * * * *
4193143 CTCTAAGACCGATGTCGGTGGCCTTGAATCAGCACATTGGCATCTTTAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* *
4193192 CTTTAAGTCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
** *
4193241 CTTTAAGACCAATGCCGCTGGCCTTGAATCAGCATAGTGGCACCTTTAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
* * **
4193290 CTTTAAGTCCGATATCATTGGCCTT
1 CTTTAAGACCAATATCGCTGGCCTT
4193315 TGTAGACACC
Statistics
Matches: 506, Mismatches: 91, Indels: 90
0.74 0.13 0.13
Matches are distributed among these distances:
39 58 0.11
42 4 0.01
43 70 0.14
44 1 0.00
45 4 0.01
46 2 0.00
48 62 0.12
49 216 0.43
50 4 0.01
51 44 0.09
54 2 0.00
55 1 0.00
58 1 0.00
61 37 0.07
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAT
Found at i:4192885 original size:153 final size:152
Alignment explanation
Indices: 4192607--4193048 Score: 572
Period size: 153 Copynumber: 3.0 Consensus size: 152
4192597 GTGGCATCCT
* *
4192607 TTTATTCTTTTTCTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTTA
1 TTTATCCTTTTTCTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* * * * *
4192672 TTTTTAAGACCAATGTCGCTAGCCTTGAATCA-ACATATTGGCACCTTTAAGTCTAATATCGCTG
66 TCTTTAAGACCAATGTCGTTGGCCTTGAATCAGA-ACATTGGCACCTTTAAGTCCAATATCGCTG
4192736 GCCTTGAATCAGCATATTGGCAAC
130 GCCTTGAATCAGCATATTGGC-AC
* *
4192760 TTTATCCTTTTTCTCACCTTTAAGTCCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTTA
1 TTTATCCTTTTTCTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
*
4192825 TCTTTAAGACCAATGTCGTTGGCCTCGAATCAGAACATTGGCACCTTTAAGTCCAATATCGCTGG
66 TCTTTAAGACCAATGTCGTTGGCCTTGAATCAGAACATTGGCACCTTTAAGTCCAATATCGCTGG
4192890 CCTTGAATCAGCATATTGG--C
131 CCTTGAATCAGCATATTGGCAC
* * * * *
4192910 ---A-CC-TTTAC-CA-TTTTGAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACC-TTG
1 TTTATCCTTTTTCTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
* * *
4192967 TCTTGAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-C---AAGCCCAATATCGCTGG
66 TCTTTAAGACCAATGTCGTTGGCCTTGAATCAGAACATTGGCACCTTTAAGTCCAATATCGCTGG
* * *
4193028 TCTTGAATCAACATCTTGGCA
131 CCTTGAATCAGCATATTGGCA
4193049 GCTTGTCTTT
Statistics
Matches: 262, Mismatches: 24, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
138 32 0.12
141 1 0.00
142 42 0.16
143 39 0.15
144 2 0.01
145 4 0.02
146 2 0.01
147 1 0.00
150 1 0.00
153 137 0.52
154 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (152 bp):
TTTATCCTTTTTCTCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
TCTTTAAGACCAATGTCGTTGGCCTTGAATCAGAACATTGGCACCTTTAAGTCCAATATCGCTGG
CCTTGAATCAGCATATTGGCAC
Found at i:4193033 original size:39 final size:39
Alignment explanation
Indices: 4192976--4193136 Score: 126
Period size: 39 Copynumber: 3.9 Consensus size: 39
4192966 GTCTTGAAGA
* *
4192976 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
* * **
4193015 CCAATATCGCTGGTCTTGAATCAACATC-TTGGCAGCTTGTCTTTAATA
1 CCAATATCGCTGGCCTTGAATCAGCA-CATTGGCA------C---AAGC
* *
4193063 CCAATGTCGCTAGCCTTGAATCAGCACATTGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
* * *
4193102 CCAATATCGTTGGCCTTGAATTAGCATATTGGCAC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
4193137 CTTCATCTCT
Statistics
Matches: 94, Mismatches: 17, Indels: 22
0.71 0.13 0.17
Matches are distributed among these distances:
39 60 0.64
40 1 0.01
42 1 0.01
45 1 0.01
47 1 0.01
48 30 0.32
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (39 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGC
Found at i:4193079 original size:87 final size:87
Alignment explanation
Indices: 4192928--4193283 Score: 415
Period size: 87 Copynumber: 4.0 Consensus size: 87
4192918 CATTTTGAGT
* * *
4192928 CCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTGTCTTGAAGACCAATGTCGTTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
4192993 GAATCAGCACATTGGCACAAGC
66 GAATCAGCACATTGGCACAAGC
* * * * * *
4193015 CCAATATCGCTGGTCTTGAATCAACATCTTGGCAGCTTGTCTTTAATACCAATGTCGCTAGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
4193080 GAATCAGCACATTGGCACAAGC
66 GAATCAGCACATTGGCACAAGC
* * * * * *
4193102 CCAATATCGTTGGCCTTGAATTAGCATATTGGCACCTTCATCTCTAAGACCGATGTCGGTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCGCTGGCCT
*
4193167 TGAATCAGCACATTGGCATCTTTATCTTTAAGT
65 TGAATCAGCACATTGG---C---A-C---AAGC
* * *
4193200 CCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGCCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGACCAATGTCGCTGGCCT
* *
4193265 TGAATCAGCATAGTGGCAC
65 TGAATCAGCACATTGGCAC
4193284 CTTTATCTTT
Statistics
Matches: 226, Mismatches: 31, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
87 110 0.49
88 36 0.16
91 2 0.01
92 1 0.00
94 1 0.00
95 2 0.01
98 72 0.32
99 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
GAATCAGCACATTGGCACAAGC
Found at i:4193828 original size:52 final size:51
Alignment explanation
Indices: 4193721--4193848 Score: 211
Period size: 52 Copynumber: 2.5 Consensus size: 51
4193711 CACTGATCTT
* *
4193721 TGTATCGATACATGTAGGTAAATTTGCCCAGTGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGTGTATCGATACACTATGAAA
*
4193772 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAG-TGTATCGATACACTATGAAA
*
4193824 TGTATCGATACATGCTGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
4193849 TCATATTTCA
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
51 28 0.39
52 43 0.61
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (51 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGTGTATCGATACACTATGAAA
Done.