Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 31 of 290
Found at i:9974632 original size:53 final size:53
Alignment explanation
Indices: 9974551--9974701 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
9974541 CTTACACGGT
* *
9974551 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
9974606 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** * *
9974659 TCACATTGCACCGATGCCATAGCTCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
9974702 GCGCACTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:9982128 original size:53 final size:53
Alignment explanation
Indices: 9982047--9982197 Score: 196
Period size: 53 Copynumber: 2.8 Consensus size: 53
9982037 CTTACACGGT
* * *
9982047 TCACATATCATACCGAAGTCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
9982102 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** * *
9982155 TCACATTGCACCGATGCCATAGCTCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
9982198 GCGCACTTAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 79 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:9983882 original size:28 final size:33
Alignment explanation
Indices: 9983823--9983882 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 33
9983813 CATTAAATTT
9983823 AATATTTAATTACATATATTATTCATTTTTATG
1 AATATTTAATTACATATATTATTCATTTTTATG
9983856 AATATTT-ATTA-A-ATATTA-T-ATTTTTAT
1 AATATTTAATTACATATATTATTCATTTTTAT
9983883 TTTTATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 8 0.30
29 1 0.04
30 6 0.22
31 1 0.04
32 4 0.15
33 7 0.26
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (33 bp):
AATATTTAATTACATATATTATTCATTTTTATG
Found at i:9984515 original size:21 final size:22
Alignment explanation
Indices: 9984469--9984521 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
9984459 AGAAAACCAT
*
9984469 TTTATGTGTTAAATGCTGAAAA
1 TTTAGGTGTTAAATGCTGAAAA
*
9984491 TTTAGGTGTTAAATGCTG-CAA
1 TTTAGGTGTTAAATGCTGAAAA
9984512 TTTATGGTGT
1 TTTA-GGTGT
9984522 CTGAAAGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.43
Consensus pattern (22 bp):
TTTAGGTGTTAAATGCTGAAAA
Found at i:9993687 original size:44 final size:44
Alignment explanation
Indices: 9993624--9993712 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
9993614 TGCTTTCTCC
9993624 TACAAATTAAAATTTCAAATGTAAAAATGAAACAGAAATATTGT
1 TACAAATTAAAATTTCAAATGTAAAAATGAAACAGAAATATTGT
**
9993668 TACAAATTTTAATTTCAAATGTAAAAATGAAACAGAAATATTGT
1 TACAAATTAAAATTTCAAATGTAAAAATGAAACAGAAATATTGT
9993712 T
1 T
9993713 TCATCAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.33
Consensus pattern (44 bp):
TACAAATTAAAATTTCAAATGTAAAAATGAAACAGAAATATTGT
Found at i:9995642 original size:3 final size:3
Alignment explanation
Indices: 9995636--9995667 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
9995626 AAATTTCAAA
9995636 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9995668 AATTATTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10000812 original size:22 final size:22
Alignment explanation
Indices: 10000786--10000828 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10000776 TTATTTAATT
*
10000786 ATAATTCAATAAACCTTAAATA
1 ATAATTCAAAAAACCTTAAATA
*
10000808 ATAATTCAAAAAATCTTAAAT
1 ATAATTCAAAAAACCTTAAAT
10000829 TAATTCTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
ATAATTCAAAAAACCTTAAATA
Found at i:10003683 original size:26 final size:26
Alignment explanation
Indices: 10003654--10003763 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
10003644 TGGTACAAAT
10003654 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
10003680 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
10003706 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
10003732 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
10003758 TGATAA
1 TGATAA
10003764 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:10005418 original size:27 final size:27
Alignment explanation
Indices: 10005376--10005502 Score: 155
Period size: 27 Copynumber: 4.7 Consensus size: 27
10005366 GAGGAAGCGT
*
10005376 TCTGGTGGCTATGCCACAAATATCTAA
1 TCTGGTGGCTCTGCCACAAATATCTAA
* *
10005403 TCTAGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTAA
* **
10005430 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTAA
* *
10005457 TCTGGTGGCTCTGCCACGATTATCTATA
1 TCTGGTGGCTCTGCCACAAATATCTA-A
* *
10005485 TCTGGTGACTCTGTCACA
1 TCTGGTGGCTCTGCCACA
10005503 TTATCTGTTC
Statistics
Matches: 85, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 70 0.82
28 15 0.18
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.33
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTAA
Found at i:10005465 original size:54 final size:55
Alignment explanation
Indices: 10005376--10005515 Score: 176
Period size: 54 Copynumber: 2.6 Consensus size: 55
10005366 GAGGAAGCGT
* * ** *
10005376 TCTGGTGGCTATGCCACAAATATCTAATCTAGTGGCTCTGCCACAAATATCT-GA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTAGA
* * *
10005430 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTATA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTAGA
* *
10005485 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
10005516 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
54 57 0.76
55 18 0.24
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTAGA
Found at i:10012537 original size:21 final size:21
Alignment explanation
Indices: 10012502--10012616 Score: 167
Period size: 21 Copynumber: 5.4 Consensus size: 21
10012492 GCACTTTATA
10012502 TGTCGTATTTCAGGCACCTCGTG
1 TGTCGTA--TCAGGCACCTCGTG
10012525 TGTCGTATCAGGCACCTCGTG
1 TGTCGTATCAGGCACCTCGTG
10012546 TGTCGTATCAGGCACCTCGTG
1 TGTCGTATCAGGCACCTCGTG
10012567 TGTCGTATCAGGCACCTCGTG
1 TGTCGTATCAGGCACCTCGTG
* * * **
10012588 TGTCGTTTTAGGCACTTTATG
1 TGTCGTATCAGGCACCTCGTG
10012609 TGTCGTAT
1 TGTCGTAT
10012617 ACTGATCAGG
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
21 79 0.92
23 7 0.08
ACGTcount: A:0.14, C:0.24, G:0.27, T:0.35
Consensus pattern (21 bp):
TGTCGTATCAGGCACCTCGTG
Found at i:10015224 original size:50 final size:50
Alignment explanation
Indices: 10015161--10015261 Score: 186
Period size: 50 Copynumber: 2.0 Consensus size: 50
10015151 GATTAACATA
10015161 TACAGCCCATGTGGAGACGATAACTCTTATACTTATTAATTGATAACGAC
1 TACAGCCCATGTGGAGACGATAACTCTTATACTTATTAATTGATAACGAC
10015211 TACAGTCCC-TGTGGAGACGATAACTCTTATACTTATTAATTGATAACGAC
1 TACAG-CCCATGTGGAGACGATAACTCTTATACTTATTAATTGATAACGAC
10015261 T
1 T
10015262 GTATACACTT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
50 47 0.94
51 3 0.06
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (50 bp):
TACAGCCCATGTGGAGACGATAACTCTTATACTTATTAATTGATAACGAC
Found at i:10015554 original size:42 final size:42
Alignment explanation
Indices: 10015495--10015624 Score: 215
Period size: 42 Copynumber: 3.1 Consensus size: 42
10015485 GAGGCAAAAG
*
10015495 TAGGTTTTCTATTGTCGACAATAGAGCAACGACGACAATTAA
1 TAGGTTTTCTACTGTCGACAATAGAGCAACGACGACAATTAA
*
10015537 TAGGTTTTCTACTGTCGACAATAGAGCAACGACGATAATTAA
1 TAGGTTTTCTACTGTCGACAATAGAGCAACGACGACAATTAA
* * *
10015579 TAGGTTTTCTACTGTCGACAATAGAGTAACAACAACAATTAA
1 TAGGTTTTCTACTGTCGACAATAGAGCAACGACGACAATTAA
10015621 TAGG
1 TAGG
10015625 GCGGCCACGA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.28
Consensus pattern (42 bp):
TAGGTTTTCTACTGTCGACAATAGAGCAACGACGACAATTAA
Found at i:10021239 original size:30 final size:30
Alignment explanation
Indices: 10021203--10021282 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
10021193 GATTTGGTCA
*
10021203 ACAATCATCAACTACAATTGGGATATTCTT
1 ACAATCAGCAACTACAATTGGGATATTCTT
* *
10021233 ACAATCAGCAACTACGATTGTGATATTCTT
1 ACAATCAGCAACTACAATTGGGATATTCTT
10021263 AC-ATGCAGCAACTACAATTG
1 ACAAT-CAGCAACTACAATTG
10021283 CAAATGTCTC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 2 0.04
30 43 0.96
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.30
Consensus pattern (30 bp):
ACAATCAGCAACTACAATTGGGATATTCTT
Found at i:10022576 original size:22 final size:22
Alignment explanation
Indices: 10022519--10022585 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
10022509 TCTGGAGTTA
**
10022519 AATTGTGTATTTTTATTATAGT
1 AATTGTGTATTTTTATTATTTT
10022541 AAGTATGT-TA-TTTTATTATTTT
1 AA-T-TGTGTATTTTTATTATTTT
10022563 AATTGTGTATTTTTTATTATTTT
1 AATTGTGTA-TTTTTATTATTTT
10022586 TAAAAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 3 0.08
21 3 0.08
22 14 0.37
23 15 0.39
24 3 0.08
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.64
Consensus pattern (22 bp):
AATTGTGTATTTTTATTATTTT
Found at i:10022581 original size:23 final size:23
Alignment explanation
Indices: 10022519--10022585 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 23
10022509 TCTGGAGTTA
**
10022519 AATTGTGTA-TTTTTATTATAGT
1 AATTGTGTATTTTTTATTATTTT
* * *
10022541 AAGTATGT-TATTTTATTATTTT
1 AATTGTGTATTTTTTATTATTTT
10022563 AATTGTGTATTTTTTATTATTTT
1 AATTGTGTATTTTTTATTATTTT
10022586 TAAAAAAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
22 22 0.63
23 13 0.37
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.64
Consensus pattern (23 bp):
AATTGTGTATTTTTTATTATTTT
Found at i:10025252 original size:27 final size:27
Alignment explanation
Indices: 10025221--10025274 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
10025211 AACCAATAGA
*
10025221 AGGATTTATAGTAGATTAATATAGAGT
1 AGGATTTATAGTAGATTAATACAGAGT
* *
10025248 AGGATTTCTAGTATATTAATACAGAGT
1 AGGATTTATAGTAGATTAATACAGAGT
10025275 TAGTGTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (27 bp):
AGGATTTATAGTAGATTAATACAGAGT
Found at i:10027305 original size:18 final size:18
Alignment explanation
Indices: 10027281--10027368 Score: 106
Period size: 18 Copynumber: 4.9 Consensus size: 18
10027271 CCGTTTATGG
*
10027281 TACTATTCATGTATACGA
1 TACTATTCACGTATACGA
* * *
10027299 CACTATTCACATATACGG
1 TACTATTCACGTATACGA
*
10027317 TACTATTCACATATAC-A
1 TACTATTCACGTATACGA
*
10027334 GTACTATTCACGTATACGG
1 -TACTATTCACGTATACGA
10027353 TACTATTCACGTATAC
1 TACTATTCACGTATAC
10027369 AGTAGTTGGG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.34
Consensus pattern (18 bp):
TACTATTCACGTATACGA
Found at i:10027371 original size:36 final size:36
Alignment explanation
Indices: 10027279--10027372 Score: 136
Period size: 36 Copynumber: 2.6 Consensus size: 36
10027269 GACCGTTTAT
* *
10027279 GGTACTATTCATGTATAC-GACACTATTCACATATAC
1 GGTACTATTCACGTATACAG-TACTATTCACATATAC
* *
10027315 GGTACTATTCACATATACAGTACTATTCACGTATAC
1 GGTACTATTCACGTATACAGTACTATTCACATATAC
10027351 GGTACTATTCACGTATACAGTA
1 GGTACTATTCACGTATACAGTA
10027373 GTTGGGATTG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
36 51 0.98
37 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (36 bp):
GGTACTATTCACGTATACAGTACTATTCACATATAC
Found at i:10034754 original size:36 final size:35
Alignment explanation
Indices: 10034708--10034780 Score: 128
Period size: 36 Copynumber: 2.1 Consensus size: 35
10034698 CTGCCAGATT
*
10034708 AAAAATGTTATACTTGGGTGAATAATGGTAATAAG
1 AAAAATGTTATACTTAGGTGAATAATGGTAATAAG
10034743 AAAAACTGTTATACTTAGGTGAATAATGGTAATAAG
1 AAAAA-TGTTATACTTAGGTGAATAATGGTAATAAG
10034779 AA
1 AA
10034781 TGATACTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 5 0.14
36 31 0.86
ACGTcount: A:0.45, C:0.04, G:0.21, T:0.30
Consensus pattern (35 bp):
AAAAATGTTATACTTAGGTGAATAATGGTAATAAG
Found at i:10041797 original size:27 final size:26
Alignment explanation
Indices: 10041737--10041798 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
10041727 ATTTTATTTT
10041737 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
10041763 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
10041791 ATTTTATT
1 ATTTTATT
10041799 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:10042965 original size:46 final size:45
Alignment explanation
Indices: 10042896--10042997 Score: 168
Period size: 46 Copynumber: 2.2 Consensus size: 45
10042886 AATATTCCCA
*
10042896 TATTCTTGAGTCTGCAGCAAATGCAGGAACTCGAAACCTATTTCCG
1 TATTCTTGAGTCTGCAGCAAATGCAGGAACTCG-AACCTACTTCCG
*
10042942 TGTTCTTGAGTCTGCAGCAAATGCAGGAACTCGAACCTACTTCCG
1 TATTCTTGAGTCTGCAGCAAATGCAGGAACTCGAACCTACTTCCG
*
10042987 TATTCTCGAGT
1 TATTCTTGAGT
10042998 TCGCAACGTA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 20 0.38
46 32 0.62
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (45 bp):
TATTCTTGAGTCTGCAGCAAATGCAGGAACTCGAACCTACTTCCG
Found at i:10046287 original size:16 final size:17
Alignment explanation
Indices: 10046266--10046299 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10046256 TTGGGTTTGA
*
10046266 TTTTA-TTATTTTGTTT
1 TTTTATTTATTTGGTTT
10046282 TTTTATTTATTTGGTTT
1 TTTTATTTATTTGGTTT
10046299 T
1 T
10046300 AGGCCCGAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (17 bp):
TTTTATTTATTTGGTTT
Found at i:10046600 original size:45 final size:46
Alignment explanation
Indices: 10046549--10046655 Score: 110
Period size: 46 Copynumber: 2.3 Consensus size: 46
10046539 TGGGACTAAA
*
10046549 GGAGATAAGAATTG-GTAATTTCATCCTACTCCACTGCAACTTTAG
1 GGAGATAAGAATTGTGTAATTTCATCCTACTCCACTGCAACTTCAG
* ** * * * *
10046594 GGAGATATGGTTTGTGTAGTTTTATCCTGCTCTACTGCAACTTCAG
1 GGAGATAAGAATTGTGTAATTTCATCCTACTCCACTGCAACTTCAG
*
10046640 AGAGATAA-AGATTGTG
1 GGAGATAAGA-ATTGTG
10046656 GCTTCGATCT
Statistics
Matches: 48, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
45 11 0.23
46 37 0.77
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (46 bp):
GGAGATAAGAATTGTGTAATTTCATCCTACTCCACTGCAACTTCAG
Found at i:10046881 original size:102 final size:102
Alignment explanation
Indices: 10046705--10046898 Score: 293
Period size: 102 Copynumber: 1.9 Consensus size: 102
10046695 TTATAGCTTT
* *
10046705 GATCTACTCCGTTGGAACTTCAATAAGGTAAAAATTAGTGATTTCAACCTACTCCACTGCAACTT
1 GATCTACTCCGCTGGAACTTCAAGAAGGTAAAAATTAGTGATTTCAACCTACTCCACTGCAACTT
*
10046770 CAGGGAGATAAGGCTGGTGGCTTCAATTTGTAGTTTC
66 CAGGGAGATAAGGCTAGTGGCTTCAATTTGTAGTTTC
* * * *
10046807 GATCTACTCCGCTGGAACTTCAAGGAGGTAAGAATTGGT-AGTTTCAACCTGCTCCA-TCGCAAC
1 GATCTACTCCGCTGGAACTTCAAGAAGGTAAAAATTAGTGA-TTTCAACCTACTCCACT-GCAAC
10046870 TTCAGGGAGATAAGGCTAGTGGCTTCAAT
64 TTCAGGGAGATAAGGCTAGTGGCTTCAAT
10046899 CTGCTTTACT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
101 2 0.02
102 81 0.98
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (102 bp):
GATCTACTCCGCTGGAACTTCAAGAAGGTAAAAATTAGTGATTTCAACCTACTCCACTGCAACTT
CAGGGAGATAAGGCTAGTGGCTTCAATTTGTAGTTTC
Found at i:10047035 original size:143 final size:143
Alignment explanation
Indices: 10046865--10047227 Score: 555
Period size: 143 Copynumber: 2.5 Consensus size: 143
10046855 CTGCTCCATC
* **
10046865 GCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTTTACTGCAACTTCAGGAAGATAAGAT
1 GCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT
* ** * *
10046930 TCGCCATAATTTGTAGCTTCAATCTATTCCACTGCAACTCTAGGGAAACAAGATTGGGTTTCTTC
66 CCGCCATAATTCATAGCTTCAATCTATTCCACTGCAACTCCAGGGAAACAAGATTCGGTTTCTTC
*
10046995 AGTCTGGTCCGCT
131 AGTCTGCTCCGCT
* * *
10047008 GCAACTTTAGGGGGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGGT
1 GCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT
* * * *
10047073 CCGCCATAATTCATAGCTTCAATCTGTTCCACTGCAACTCCAGGGAAATAAGATTCGTTTTCTTT
66 CCGCCATAATTCATAGCTTCAATCTATTCCACTGCAACTCCAGGGAAACAAGATTCGGTTTCTTC
*
10047138 AGTCTGCTCTGCT
131 AGTCTGCTCCGCT
* *
10047151 GCAACTTCAGGGAGATAAGACTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAGGAT
1 GCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT
10047216 CCGCCATAATTC
66 CCGCCATAATTC
10047228 GTTAGGGGTG
Statistics
Matches: 198, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
143 198 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (143 bp):
GCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGAT
CCGCCATAATTCATAGCTTCAATCTATTCCACTGCAACTCCAGGGAAACAAGATTCGGTTTCTTC
AGTCTGCTCCGCT
Found at i:10047069 original size:44 final size:44
Alignment explanation
Indices: 10046991--10047211 Score: 129
Period size: 44 Copynumber: 4.8 Consensus size: 44
10046981 GATTGGGTTT
* * * * ** *
10046991 CTTCAGTCTGGTCCGCTGCAACTTTAGGGGGATAAGGCTGGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGTGG
* ** *
10047035 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGGTCCGCCATAATTCATAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAA-----G-----ACTGGTGG
* * * * **
10047089 CTTCAATCTGTTCCACTGCAACTCCAGGGAA-ATAAGATTCGTTTT
1 CTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGACT-GGTGG
* * ** *
10047134 CTTTAGTCTGCTCTGCTGCAACTTCAGGGAGATAAGACTGGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGTGG
10047178 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATA
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATA
10047212 GGATCCGCCA
Statistics
Matches: 131, Mismatches: 33, Indels: 26
0.69 0.17 0.14
Matches are distributed among these distances:
44 66 0.50
45 28 0.21
49 2 0.02
54 31 0.24
55 4 0.03
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGTGG
Found at i:10048505 original size:53 final size:53
Alignment explanation
Indices: 10048423--10048531 Score: 191
Period size: 53 Copynumber: 2.1 Consensus size: 53
10048413 ACCCATATAA
* *
10048423 TTCGTAGCTTCAATCTGTTCCACTGCAACTCCAGGGAAATAATATTCGCTTTC
1 TTCGTAGCTTCAATCTGTTCCACTACAACTCCAGGGAAATAAGATTCGCTTTC
*
10048476 TTCGTAGCTTCAATCTGTTCCACTACAACTCCAGGGAAATAAGATTCGTTTTC
1 TTCGTAGCTTCAATCTGTTCCACTACAACTCCAGGGAAATAAGATTCGCTTTC
10048529 TTC
1 TTC
10048532 AGTCTGTTCC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.35
Consensus pattern (53 bp):
TTCGTAGCTTCAATCTGTTCCACTACAACTCCAGGGAAATAAGATTCGCTTTC
Found at i:10049109 original size:46 final size:46
Alignment explanation
Indices: 10049051--10049200 Score: 185
Period size: 46 Copynumber: 3.3 Consensus size: 46
10049041 AAATTTGGTT
* *
10049051 TCTTCCATCCATCCCACTGCAACTTAGGGGTATGGGATTTGTATCA
1 TCTTCAATCCATCCCACTGCAACTTAGGGGTATAGGATTTGTATCA
* *
10049097 TCTTCAATCCATCCCACTGTAACTTAGGGGTATAGGATTTGTATCT
1 TCTTCAATCCATCCCACTGCAACTTAGGGGTATAGGATTTGTATCA
** * * * * *
10049143 TCTTCAATCCATCCCTTTACAACTAAGGAGTACATGATTTGTAT-A
1 TCTTCAATCCATCCCACTGCAACTTAGGGGTATAGGATTTGTATCA
10049188 TTCTTCAATCCAT
1 -TCTTCAATCCAT
10049201 TGATCTGGGT
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 90 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (46 bp):
TCTTCAATCCATCCCACTGCAACTTAGGGGTATAGGATTTGTATCA
Found at i:10050087 original size:12 final size:12
Alignment explanation
Indices: 10050032--10050087 Score: 64
Period size: 12 Copynumber: 4.9 Consensus size: 12
10050022 TCCTTTTTTA
*
10050032 TTTTTCTTTTCT
1 TTTTTCTTTTGT
*
10050044 TTTTTCTTTTAT
1 TTTTTCTTTTGT
*
10050056 TTTTT-TGTTG-
1 TTTTTCTTTTGT
10050066 TTTTT-TTTTGT
1 TTTTTCTTTTGT
10050077 TTTTTCTTTTG
1 TTTTTCTTTTG
10050088 AAGATACTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.24
11 8 0.21
12 21 0.55
ACGTcount: A:0.02, C:0.07, G:0.07, T:0.84
Consensus pattern (12 bp):
TTTTTCTTTTGT
Found at i:10057020 original size:15 final size:16
Alignment explanation
Indices: 10057000--10057033 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10056990 TTGGGTTTAA
*
10057000 TTTTA-TTATTTTGTT
1 TTTTATTTATTTGGTT
10057015 TTTTATTTATTTGGTT
1 TTTTATTTATTTGGTT
10057031 TTT
1 TTT
10057034 GGCTCAGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (16 bp):
TTTTATTTATTTGGTT
Found at i:10062462 original size:53 final size:53
Alignment explanation
Indices: 10062382--10062488 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
10062372 ATTCAAATGT
*
10062382 ATATAATACAATGGACCGGGTAACAAGTGTGATTGAGTTTCGGTCTGAATTAA
1 ATATAATACAATGGACCGGGTAACAAGTGTGACTGAGTTTCGGTCTGAATTAA
*
10062435 ATATAATACAATGGACCGGGTAACAAGTGTGACTGGGTTTCGGTCTGAATTAA
1 ATATAATACAATGGACCGGGTAACAAGTGTGACTGAGTTTCGGTCTGAATTAA
10062488 A
1 A
10062489 ATTTTGAGAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (53 bp):
ATATAATACAATGGACCGGGTAACAAGTGTGACTGAGTTTCGGTCTGAATTAA
Found at i:10070762 original size:33 final size:33
Alignment explanation
Indices: 10070720--10070843 Score: 203
Period size: 33 Copynumber: 3.8 Consensus size: 33
10070710 TTTCTTCTTG
* *
10070720 ACATTCCAGCTACTGTCCAGTAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
10070753 ACATTCCAGCTCTTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
10070786 ACATTCCAGCTCCCGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
10070819 ACATTTCAGCTCCTGTCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
10070844 TGAAACAGAG
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 84 1.00
ACGTcount: A:0.30, C:0.40, G:0.10, T:0.20
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:10088726 original size:33 final size:33
Alignment explanation
Indices: 10088688--10088786 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
10088678 AACTGAGTGG
* *
10088688 GAGTGTTTGGTTGCTGGATAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
* *
10088721 GAGTGTTTTGCTGTTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
* *
10088754 GGGTGTTTTGTTGCTGGACAGGAGTTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
10088787 CAAGAAGAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.17, C:0.07, G:0.41, T:0.34
Consensus pattern (33 bp):
GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
Found at i:10103604 original size:2 final size:2
Alignment explanation
Indices: 10103597--10103625 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10103587 GCCAACTGAT
10103597 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
10103626 TTGCTGATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10104803 original size:374 final size:376
Alignment explanation
Indices: 10104111--10104863 Score: 1368
Period size: 374 Copynumber: 2.0 Consensus size: 376
10104101 ATTGGTCAAT
10104111 TTGAGAAATGGATTAATCAGACTCTTCTTTTCTTAATCTAGAAGATTGAGTTTCTTAAGAAAATT
1 TTGAGAAATGGATTAATCAGACTCTTCTTTTCTTAATCTAGAAGATTGAGTTTCTTAAGAAAATT
* *
10104176 CAATAGTTTTGTACGGTCTTGTAAAAAATTGTTACTAAAAGGAACAAAAAATTAAGACCATTCAT
66 CAATAGTTTTGTACGGTCTTGTAAAAAATTATTACCAAAAGGAACAAAAAATTAAGACCATTCAT
10104241 ACTAACCTGGGCAACTCTTAAGCAATCAAGCTTTGATCCTCCTGTTGGAAGATGCATCGTTGATA
131 ACTAACCTGGGCAACTCTTAAGCAATCAAGCTTTGATCCTCCTGTTGGAAGATGCATCGTTGATA
*
10104306 ATATTATTATCGTATAAAAATTATTCATATAATATGTAAGAGGTCAGGCAAGTAAGAGCGGGTGG
196 ATATTATTATCGTATAAAAATGATTCATATAATATGTAAGAGGTCAGGCAAGTAAGAGCGGGTGG
*
10104371 TGACTAAAATTAATCTCAAGAAAACTTATGATATATTGGATTGAAATTTTATAGAGGATGTACTT
261 TGACTAAAATTAATCTCAAGAAAACTTATGATATATTGGATTGAAATTTTACAGAGGATGTACTT
*
10104436 GTTGATATTGAGCAACTTAGTCAATTACATAATTTTGTA-T-TGTCATAAA
326 GTTGATATTGAGCAACATAGTCAATTACATAATTTTGTATTGTGTCATAAA
*
10104485 TTGAGAAATGGATTAATCAGACTCTTCTTTTCTTAATCTAGAAGATTGAGTTTCTTAAGACAATT
1 TTGAGAAATGGATTAATCAGACTCTTCTTTTCTTAATCTAGAAGATTGAGTTTCTTAAGAAAATT
*
10104550 CAATAGTTTTGTACGGTCTTGTAAAAAATTATTACCAAAAGGAACAAAAAATTAAGACCGTTCAT
66 CAATAGTTTTGTACGGTCTTGTAAAAAATTATTACCAAAAGGAACAAAAAATTAAGACCATTCAT
**
10104615 ACTAACCTGGGCAGTTCTTAAGCAATCAAGCTTCT-ATCCTCCTGTTGGAAGATGCATCGTTGAT
131 ACTAACCTGGGCAACTCTTAAGCAATCAAGCTT-TGATCCTCCTGTTGGAAGATGCATCGTTGAT
*
10104679 AATATTATTATTGTATAAAAATGATTCATATAATATGTAAGAGGTCAGGCAAGTAAGAGCGGGTG
195 AATATTATTATCGTATAAAAATGATTCATATAATATGTAAGAGGTCAGGCAAGTAAGAGCGGGTG
* *
10104744 GTGACTAAAATTAATCTCGAGAAAACTTATGATATATTGGATTGGAATTTTACAGAGGATGTACT
260 GTGACTAAAATTAATCTCAAGAAAACTTATGATATATTGGATTGAAATTTTACAGAGGATGTACT
10104809 TGTTGATATTGAGCAACATAGTCAATTACATAATTTTGTATTGTGTCATAAA
325 TGTTGATATTGAGCAACATAGTCAATTACATAATTTTGTATTGTGTCATAAA
10104861 TTG
1 TTG
10104864 CTTTCTATGT
Statistics
Matches: 364, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
374 350 0.96
375 2 0.01
376 12 0.03
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (376 bp):
TTGAGAAATGGATTAATCAGACTCTTCTTTTCTTAATCTAGAAGATTGAGTTTCTTAAGAAAATT
CAATAGTTTTGTACGGTCTTGTAAAAAATTATTACCAAAAGGAACAAAAAATTAAGACCATTCAT
ACTAACCTGGGCAACTCTTAAGCAATCAAGCTTTGATCCTCCTGTTGGAAGATGCATCGTTGATA
ATATTATTATCGTATAAAAATGATTCATATAATATGTAAGAGGTCAGGCAAGTAAGAGCGGGTGG
TGACTAAAATTAATCTCAAGAAAACTTATGATATATTGGATTGAAATTTTACAGAGGATGTACTT
GTTGATATTGAGCAACATAGTCAATTACATAATTTTGTATTGTGTCATAAA
Found at i:10107798 original size:18 final size:18
Alignment explanation
Indices: 10107775--10107809 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10107765 ATACAACAAC
*
10107775 AACAATTATAATAATAAG
1 AACAATAATAATAATAAG
*
10107793 AACAATAATAATGATAA
1 AACAATAATAATAATAA
10107810 TAGATTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.26
Consensus pattern (18 bp):
AACAATAATAATAATAAG
Found at i:10110983 original size:2 final size:2
Alignment explanation
Indices: 10110976--10111053 Score: 54
Period size: 2 Copynumber: 40.0 Consensus size: 2
10110966 ATATTTTCTT
* * * *
10110976 AG AG AG AG AG AG GG AG AT ATG -G AG AG AG GG AG AG GG AG AG AG
1 AG AG AG AG AG AG AG AG AG A-G AG AG AG AG AG AG AG AG AG AG AG
* * * *
10111018 AG AG A- AG -G AG AG AG AA AG GG AG AG AG GG GG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10111054 GGAGGGAGGG
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
1 3 0.05
2 55 0.95
ACGTcount: A:0.42, C:0.00, G:0.55, T:0.03
Consensus pattern (2 bp):
AG
Found at i:10110992 original size:8 final size:8
Alignment explanation
Indices: 10110976--10111089 Score: 83
Period size: 8 Copynumber: 14.0 Consensus size: 8
10110966 ATATTTTCTT
*
10110976 AGAGAGAG
1 AGAGGGAG
10110984 AGAGGGAG
1 AGAGGGAG
* *
10110992 ATATGGAG
1 AGAGGGAG
10111000 AGA-GG-G
1 AGAGGGAG
10111006 AGAGGGAG
1 AGAGGGAG
*
10111014 AGAGAGAG
1 AGAGGGAG
10111022 A-AGGAGAG
1 AGAGG-GAG
10111030 AGAAAGGGAG
1 AG--AGGGAG
10111040 AGAGGGGGAG
1 AGA--GGGAG
10111050 AGAGGGAG
1 AGAGGGAG
*
10111058 GGAGGGAG
1 AGAGGGAG
*
10111066 GGAGGGAG
1 AGAGGGAG
10111074 -GAAGGGAG
1 AG-AGGGAG
*
10111082 GGAGGGAG
1 AGAGGGAG
10111090 GGAGAAGGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 20
0.77 0.06 0.17
Matches are distributed among these distances:
6 4 0.04
7 7 0.08
8 61 0.69
9 1 0.01
10 13 0.15
11 3 0.03
ACGTcount: A:0.38, C:0.00, G:0.61, T:0.02
Consensus pattern (8 bp):
AGAGGGAG
Found at i:10111020 original size:12 final size:12
Alignment explanation
Indices: 10110977--10111073 Score: 78
Period size: 12 Copynumber: 8.2 Consensus size: 12
10110967 TATTTTCTTA
10110977 GAGAGAGAGAGG
1 GAGAGAGAGAGG
*
10110989 GAGATATG-GA--
1 GAGAGA-GAGAGG
*
10110999 GAGAGGGAGAGG
1 GAGAGAGAGAGG
10111011 GAGAGAGAGAGAAG
1 GAGAGAGAGAG--G
*
10111025 GAGAGAGAAAGG
1 GAGAGAGAGAGG
10111037 GAGAGAG-G-GG
1 GAGAGAGAGAGG
*
10111047 GAGAGAGGGAGG
1 GAGAGAGAGAGG
* *
10111059 GAGGGAGGGAGG
1 GAGAGAGAGAGG
10111071 GAG
1 GAG
10111074 GAAGGGAGGG
Statistics
Matches: 70, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
9 1 0.01
10 15 0.21
11 1 0.01
12 41 0.59
13 1 0.01
14 11 0.16
ACGTcount: A:0.38, C:0.00, G:0.60, T:0.02
Consensus pattern (12 bp):
GAGAGAGAGAGG
Found at i:10111060 original size:4 final size:4
Alignment explanation
Indices: 10111045--10111093 Score: 80
Period size: 4 Copynumber: 12.2 Consensus size: 4
10111035 GGGAGAGAGG
* *
10111045 GGGA GAGA GGGA GGGA GGGA GGGA GGGA GGAA GGGA GGGA GGGA GGGA
1 GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA GGGA
10111093 G
1 G
10111094 AAGGAGCATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.29, C:0.00, G:0.71, T:0.00
Consensus pattern (4 bp):
GGGA
Found at i:10120382 original size:4 final size:4
Alignment explanation
Indices: 10120373--10120400 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
10120363 AGAAATACAA
10120373 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
10120401 GTTTATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:10121778 original size:23 final size:23
Alignment explanation
Indices: 10121752--10121796 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10121742 ATTTTTATAA
10121752 ATATTAGTTATATATTATCTATT
1 ATATTAGTTATATATTATCTATT
* * *
10121775 ATATTATTTTTATCTTATCTAT
1 ATATTAGTTATATATTATCTAT
10121797 AAATTATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (23 bp):
ATATTAGTTATATATTATCTATT
Found at i:10121931 original size:15 final size:15
Alignment explanation
Indices: 10121911--10121942 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10121901 TATATATTAC
10121911 ATTCCCTCTTTTATT
1 ATTCCCTCTTTTATT
10121926 ATTCCCTCTTTTATT
1 ATTCCCTCTTTTATT
10121941 AT
1 AT
10121943 ACATTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.16, C:0.25, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTCCCTCTTTTATT
Found at i:10122219 original size:19 final size:19
Alignment explanation
Indices: 10122195--10122237 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
10122185 ATGTTTCTAT
10122195 TATTTAGTATTCCTTATA-A
1 TATTTA-TATTCCTTATATA
* *
10122214 TATTTATCTTTCTTATATA
1 TATTTATATTCCTTATATA
10122233 TATTT
1 TATTT
10122238 TTTATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.60
Consensus pattern (19 bp):
TATTTATATTCCTTATATA
Found at i:10122255 original size:15 final size:14
Alignment explanation
Indices: 10122213--10122255 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
10122203 ATTCCTTATA
*
10122213 ATATTTATCTTTCTT
1 ATATATATCTTT-TT
10122228 ATATATAT-TTTTT
1 ATATATATCTTTTT
10122241 ATATATATCTATTTT
1 ATATATATCT-TTTT
10122256 GTTTTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 10 0.40
14 4 0.16
15 11 0.44
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (14 bp):
ATATATATCTTTTT
Found at i:10126419 original size:14 final size:14
Alignment explanation
Indices: 10126398--10126438 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
10126388 TTTCAACTTG
10126398 CACAACTTGCACAT
1 CACAACTTGCACAT
** *
10126412 TGCAACTTGCAAAT
1 CACAACTTGCACAT
10126426 CACAACTTGCACA
1 CACAACTTGCACA
10126439 ATTAGGTAAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.22
Consensus pattern (14 bp):
CACAACTTGCACAT
Found at i:10127641 original size:2 final size:2
Alignment explanation
Indices: 10127636--10127672 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
10127626 ATATTCTCTT
10127636 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10127673 GGAGGGAGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10131270 original size:17 final size:17
Alignment explanation
Indices: 10131248--10131281 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10131238 TTAATTTCCC
*
10131248 ATATATTATTTATTTTA
1 ATATATTATTTACTTTA
*
10131265 ATATATTCTTTACTTTA
1 ATATATTATTTACTTTA
10131282 GATTATTTTA
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:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTATTTACTTTA
Found at i:10131373 original size:21 final size:23
Alignment explanation
Indices: 10131322--10131385 Score: 58
Period size: 26 Copynumber: 2.6 Consensus size: 23
10131312 TTCATGTGTA
10131322 ATATTTAATTTAAACTGTTTTAT
1 ATATTTAATTTAAACTGTTTTAT
* *
10131345 ATGTTATTTACTTTAAA-TTTTTATAT
1 A---TATTTAATTTAAACTGTTT-TAT
10131371 ATTATTTAATTTAAA
1 A-TATTTAATTTAAA
10131386 TTTCTTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 1 0.03
24 13 0.38
25 4 0.12
26 16 0.47
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (23 bp):
ATATTTAATTTAAACTGTTTTAT
Found at i:10131375 original size:24 final size:24
Alignment explanation
Indices: 10131323--10131388 Score: 96
Period size: 24 Copynumber: 2.7 Consensus size: 24
10131313 TCATGTGTAA
*
10131323 TATTTAATTTAAACTGTTTTATATGT
1 TATTTAATTTAAA-T-TTTTATATAT
*
10131349 TATTTACTTTAAATTTTTATATAT
1 TATTTAATTTAAATTTTTATATAT
10131373 TATTTAATTTAAATTT
1 TATTTAATTTAAATTT
10131389 CTTTTTACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 24 0.65
25 1 0.03
26 12 0.32
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (24 bp):
TATTTAATTTAAATTTTTATATAT
Found at i:10131454 original size:22 final size:23
Alignment explanation
Indices: 10131414--10131464 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
10131404 TATTTTGAGC
* *
10131414 TCTTAATATTTATTTTAAA-TT-
1 TCTTTATATTTATTCTAAACTTG
10131435 TCTTTATATATTATTCTAAACTTG
1 TCTTTATAT-TTATTCTAAACTTG
10131459 TCTTTA
1 TCTTTA
10131465 CGTATATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.32
22 9 0.36
23 2 0.08
24 6 0.24
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (23 bp):
TCTTTATATTTATTCTAAACTTG
Found at i:10138134 original size:66 final size:66
Alignment explanation
Indices: 10138023--10138147 Score: 214
Period size: 66 Copynumber: 1.9 Consensus size: 66
10138013 TATCATCCAT
* * *
10138023 AACACATCTAATTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACACATTCA
1 AACACATCTAATTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATCATTTGACACATTCA
10138088 C
66 C
*
10138089 AACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATCATTTGACA
1 AACACATCTAATTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATCATTTGACA
10138148 TAAGCATAGA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (66 bp):
AACACATCTAATTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATCATTTGACACATTCA
C
Found at i:10138658 original size:44 final size:45
Alignment explanation
Indices: 10138555--10138665 Score: 136
Period size: 45 Copynumber: 2.5 Consensus size: 45
10138545 AAGACGGTAG
* * * *
10138555 ATCTTGTCTCCCTAAAGTTGTAGTGGAGCAGATCGAATACAGTGA
1 ATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAATACACTGA
* *
10138600 ATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGT-CACT-A
1 ATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAA-TACACTGA
*
10138644 GTCTTGTCTCCCTGAAGTTGCA
1 ATCTTGTCTCCCTGAAGTTGCA
10138666 ATGGAACAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
44 21 0.37
45 35 0.61
46 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (45 bp):
ATCTTGTCTCCCTGAAGTTGCAGTGAAGCAGATCGAATACACTGA
Found at i:10138688 original size:221 final size:220
Alignment explanation
Indices: 10138334--10138891 Score: 911
Period size: 221 Copynumber: 2.5 Consensus size: 220
10138324 AGAATTACAT
* * *
10138334 ATCTTGTCTCCCTGAAG-TTACGGTGGAACAGATCGAATCCAGCGAATCTTATCTTCCTGAAGTT
1 ATCTTGTCTCCCTGAAGTTTA--GTGGAGCAGATCGAATACAGCGAATCTTGTCTTCCTGAAGTT
* *
10138398 GTAGTGAAGTAGATTGAAGTCACTAGTCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCAAAAAC
64 GTAGTGAAGCAGATTGAAGTCACTAGTCTTGTCTCCCTGAAGTTGCAGTGGAACAAATCAAAAAC
*
10138463 GGTGAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGC
129 GGTGAGCCTTAAACCCCTAAGCAGTAGGGTAAAAGGCTGAATTTACAGATCTTATCACCCTAAGC
*
10138528 AGTAGGGAAACAGATAGAAGACGGTAG
194 AGTAGGGAAACAGATAGAAGAAGGTAG
* *
10138555 ATCTTGTCTCCCTAAAGTTGTAGTGGAGCAGATCGAATACAGTGAATCTTGTCTTCCTGAAGTTG
1 ATCTTGTCTCCCTGAAGTT-TAGTGGAGCAGATCGAATACAGCGAATCTTGTCTTCCTGAAGTTG
* * * *
10138620 CAGTGAAGCAGATTGAAGTCACTAGTCTTGTCTCCCTGAAGTTGCAATGGAACAAATCGAAGACG
65 TAGTGAAGCAGATTGAAGTCACTAGTCTTGTCTCCCTGAAGTTGCAGTGGAACAAATCAAAAACG
*
10138685 GTGAGCCTTAAACCCCTAAGCAGTAGGGTAAAAGGCTGAATTTACAGATCTTATCACCCTAAGTA
130 GTGAGCCTTAAACCCCTAAGCAGTAGGGTAAAAGGCTGAATTTACAGATCTTATCACCCTAAGCA
* *
10138750 GTAGGGAAATAGATCGAAGAAGGTAG
195 GTAGGGAAACAGATAGAAGAAGGTAG
10138776 ATCTTGTCTCCCTGAAGTTTCAGTGGAGCAGATCGAATACAGCGAATCTTGTCTTCCTGAAGTTG
1 ATCTTGTCTCCCTGAAGTTT-AGTGGAGCAGATCGAATACAGCGAATCTTGTCTTCCTGAAGTTG
* *
10138841 TAGTGAAGCAGATTGAAGTCACTAGTCTTATCTCCCTAAAGTTGCAGTGGA
65 TAGTGAAGCAGATTGAAGTCACTAGTCTTGTCTCCCTGAAGTTGCAGTGGA
10138892 GCAGACTGAA
Statistics
Matches: 312, Mismatches: 22, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
220 1 0.00
221 308 0.99
222 1 0.00
223 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (220 bp):
ATCTTGTCTCCCTGAAGTTTAGTGGAGCAGATCGAATACAGCGAATCTTGTCTTCCTGAAGTTGT
AGTGAAGCAGATTGAAGTCACTAGTCTTGTCTCCCTGAAGTTGCAGTGGAACAAATCAAAAACGG
TGAGCCTTAAACCCCTAAGCAGTAGGGTAAAAGGCTGAATTTACAGATCTTATCACCCTAAGCAG
TAGGGAAACAGATAGAAGAAGGTAG
Found at i:10138811 original size:45 final size:44
Alignment explanation
Indices: 10138760--10138992 Score: 143
Period size: 45 Copynumber: 5.1 Consensus size: 44
10138750 GTAGGGAAAT
*
10138760 AGATCGAAGAAGGTAGATCTTGTCTCCCTGAAGTTTCAGTGGAGC
1 AGATCGAAGAA-GTAGATCTTATCTCCCTGAAGTTTCAGTGGAGC
* * * * *
10138805 AGATCGAATACAG-CGAATCTTGTCTTCCTGAAGTTGT-AGTGAAGC
1 AGATCGAAGA-AGTAG-ATCTTATCTCCCTGAAGTT-TCAGTGGAGC
* * * * *
10138850 AGATTGAAGTCACTAG-TCTTATCTCCCTAAAGTTGCAGTGGAGC
1 AGATCGAAG-AAGTAGATCTTATCTCCCTGAAGTTTCAGTGGAGC
* * *
10138894 AGA-CTGAAGATAGTAAATCTTATTTCCCTGAA-TTTGCAGTGGAAC
1 AGATC-GAAGA-AGTAGATCTTATCTCCCTGAAGTTT-CAGTGGAGC
* * * * *
10138939 AGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGC
1 AGATCGAAG---AAGT--AGATCTTATCTCCCTGAAGTTTCAGTGGAGC
10138988 AGATC
1 AGATC
10138993 ATCACAAATC
Statistics
Matches: 140, Mismatches: 31, Indels: 30
0.70 0.15 0.15
Matches are distributed among these distances:
44 35 0.25
45 71 0.51
46 3 0.02
47 2 0.01
48 1 0.01
49 26 0.19
50 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (44 bp):
AGATCGAAGAAGTAGATCTTATCTCCCTGAAGTTTCAGTGGAGC
Found at i:10138895 original size:89 final size:90
Alignment explanation
Indices: 10138777--10139071 Score: 257
Period size: 89 Copynumber: 3.3 Consensus size: 90
10138767 AGAAGGTAGA
* * * * * *
10138777 TCTTGTCTCCCTGAAGTTTCAGTGGAGCAGATCGAATACAGCGAATCTTGTCTTCCTGAAGTTGT
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCGAATACAGCAAATCTTATCTTCCTGAAGTTGC
*
10138842 AGTGAAGCAGATTGAAG-TCACTAG
66 AGTGAAGCAGATTGAAGATAACTAG
* * * *
10138866 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-CTGAAGATAGTAAATCTTAT-TTCCCTGAATTT
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATC-GAATACAGCAAATCTTATCTT-CCTGAAGTT
* *
10138929 GCAGTGGAA-CAGATTGAAGCTAAATTACAG
64 GCAGT-GAAGCAGATTGAAGAT-AACT--AG
* * *
10138959 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC--AT-CA-CAAATCTTATC-TCTCTGAAGTT
1 -TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCGAATACAGCAAATCTTATCTTC-CTGAAGTT
* * * * * *
10139019 GCAGCGGAGCAGACTAAAGATAACAAA
64 GCAGTGAAGCAGATTGAAGATAACTAG
10139046 TCTTATCTCCCTAAAGTTGCAGTGGA
1 TCTTATCTCCCTAAAGTTGCAGTGGA
10139072 ATAGATTAAA
Statistics
Matches: 164, Mismatches: 30, Indels: 27
0.74 0.14 0.12
Matches are distributed among these distances:
86 23 0.14
87 1 0.01
88 3 0.02
89 68 0.41
90 34 0.21
91 3 0.02
92 1 0.01
93 2 0.01
94 28 0.17
95 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (90 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCGAATACAGCAAATCTTATCTTCCTGAAGTTGC
AGTGAAGCAGATTGAAGATAACTAG
Found at i:10139016 original size:41 final size:43
Alignment explanation
Indices: 10138866--10139165 Score: 160
Period size: 45 Copynumber: 6.7 Consensus size: 43
10138856 AAGTCACTAG
* * * **
10138866 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGTAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACT--ACATAACAAA
* * * * * * *
10138911 TCTTATTTCCCTGAATTTGCAGTGGAACAGATTGAAGCTAAATTACAGA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGC--A--G-A-CTACATAACAAA
* *
10138960 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CATCACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTACATAACAAA
* *
10139001 TCTTATCTCTCTGAAGTTGCAGCGGAGCAGACTAAAGATAACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACT--ACATAACAAA
* * ** * *
10139046 TCTTATCTCCCTAAAGTTGCAGTGGAATAGATTAAAGCTAA-ATTACGGA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTACA--TAACA--A---A
* * *
10139095 TCTTATCTCTCTAAAGTTGCAGTAGAGCAGA-T-CAAAACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTACATAACAAA
* * *
10139136 CCTTATCTCCCTGTAGTTGCAGTGGAGCAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAG
10139166 TGGATTGGAA
Statistics
Matches: 198, Mismatches: 39, Indels: 40
0.71 0.14 0.14
Matches are distributed among these distances:
41 61 0.31
42 2 0.01
43 2 0.01
44 3 0.02
45 64 0.32
46 2 0.01
47 3 0.02
48 1 0.01
49 57 0.29
50 1 0.01
51 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (43 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTACATAACAAA
Found at i:10139039 original size:135 final size:135
Alignment explanation
Indices: 10138866--10139165 Score: 447
Period size: 135 Copynumber: 2.2 Consensus size: 135
10138856 AAGTCACTAG
* * ** * * *
10138866 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGTAAATCTTATTTCCCTGAATTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAACAAATCTTATCTCCCTAAAGTTGC
* * **
10138931 AGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATC
66 AGTGGAACAGATTAAAGCTAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAA
10138996 ACAAA
131 ACAAA
* *
10139001 TCTTATCTCTCTGAAGTTGCAGCGGAGCAGACTAAAGATAACAAATCTTATCTCCCTAAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAACAAATCTTATCTCCCTAAAGTTGC
* *
10139066 AGTGGAATAGATTAAAGCTAAATTACGGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAA
66 AGTGGAACAGATTAAAGCTAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAA
10139131 ACAAA
131 ACAAA
* *
10139136 CCTTATCTCCCTGTAGTTGCAGTGGAGCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG
10139166 TGGATTGGAA
Statistics
Matches: 146, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
135 146 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (135 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAACAAATCTTATCTCCCTAAAGTTGC
AGTGGAACAGATTAAAGCTAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCAAA
ACAAA
Found at i:10140769 original size:17 final size:17
Alignment explanation
Indices: 10140747--10140780 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10140737 TTAATTTCCC
*
10140747 ATATATTATTTATTTTA
1 ATATATTATTTACTTTA
*
10140764 ATATATTCTTTACTTTA
1 ATATATTATTTACTTTA
10140781 GATTATTTTA
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:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTATTTACTTTA
Found at i:10140872 original size:21 final size:23
Alignment explanation
Indices: 10140821--10140884 Score: 58
Period size: 26 Copynumber: 2.6 Consensus size: 23
10140811 TTCATGTGTA
10140821 ATATTTAATTTAAACTGTTTTAT
1 ATATTTAATTTAAACTGTTTTAT
* *
10140844 ATGTTATTTACTTTAAA-TTTTTATAT
1 A---TATTTAATTTAAACTGTTT-TAT
10140870 ATTATTTAATTTAAA
1 A-TATTTAATTTAAA
10140885 TTTCTTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 1 0.03
24 13 0.38
25 4 0.12
26 16 0.47
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (23 bp):
ATATTTAATTTAAACTGTTTTAT
Found at i:10140874 original size:24 final size:24
Alignment explanation
Indices: 10140822--10140887 Score: 96
Period size: 24 Copynumber: 2.7 Consensus size: 24
10140812 TCATGTGTAA
*
10140822 TATTTAATTTAAACTGTTTTATATGT
1 TATTTAATTTAAA-T-TTTTATATAT
*
10140848 TATTTACTTTAAATTTTTATATAT
1 TATTTAATTTAAATTTTTATATAT
10140872 TATTTAATTTAAATTT
1 TATTTAATTTAAATTT
10140888 CTTTTTACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 24 0.65
25 1 0.03
26 12 0.32
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (24 bp):
TATTTAATTTAAATTTTTATATAT
Found at i:10140968 original size:24 final size:22
Alignment explanation
Indices: 10140922--10140968 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
10140912 CTCTTAATAT
* *
10140922 TTATTTTAAATTTCTTTATATA
1 TTATTCTAAATTTCTTTACATA
10140944 TTATTCTAAACTTGTCTTTACATA
1 TTATTCTAAA-TT-TCTTTACATA
10140968 T
1 T
10140969 ATTTATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 2 0.10
24 10 0.48
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.57
Consensus pattern (22 bp):
TTATTCTAAATTTCTTTACATA
Found at i:10140968 original size:26 final size:27
Alignment explanation
Indices: 10140918--10140992 Score: 81
Period size: 26 Copynumber: 3.0 Consensus size: 27
10140908 TGAGCTCTTA
*
10140918 ATATTTATTTTAAATT-TCTT-T--AT
1 ATATTTATTTAAAATTGTCTTATACAT
*
10140941 ATA-TTATTCTAAACTTGTCTT-TACAT
1 ATATTTATT-TAAAATTGTCTTATACAT
10140967 ATATTTATTTAAAATTGTCTTATACA
1 ATATTTATTTAAAATTGTCTTATACA
10140993 ACTTATTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
22 5 0.12
23 8 0.19
24 5 0.12
26 16 0.37
27 9 0.21
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (27 bp):
ATATTTATTTAAAATTGTCTTATACAT
Found at i:10143731 original size:6 final size:6
Alignment explanation
Indices: 10143722--10143759 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
10143712 TGCGGCTGTG
10143722 GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GC
1 GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GC
10143760 ACCAGCTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.18, T:0.32
Consensus pattern (6 bp):
GCTCCT
Found at i:10143767 original size:18 final size:18
Alignment explanation
Indices: 10143728--10143768 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
10143718 TGTGGCTCCT
* *
10143728 GCTCCTGCTCCTGCTCCT
1 GCTCCTGCTCCTGCACCA
10143746 GCTCCTGCTCCTGCACCA
1 GCTCCTGCTCCTGCACCA
10143764 GCTCC
1 GCTCC
10143769 ATAGGTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.51, G:0.17, T:0.27
Consensus pattern (18 bp):
GCTCCTGCTCCTGCACCA
Found at i:10150281 original size:24 final size:23
Alignment explanation
Indices: 10150250--10150296 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
10150240 ATTACATGAT
*
10150250 TATTCTGGTGTGTTTTGGTTGGA
1 TATTCTGGTGTGTTTGGGTTGGA
10150273 TATTACTGGTGTGTTTGGGTTGGA
1 TATT-CTGGTGTGTTTGGGTTGGA
10150297 ATCCATGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.11, C:0.04, G:0.36, T:0.49
Consensus pattern (23 bp):
TATTCTGGTGTGTTTGGGTTGGA
Found at i:10177256 original size:21 final size:24
Alignment explanation
Indices: 10177230--10177279 Score: 70
Period size: 21 Copynumber: 2.2 Consensus size: 24
10177220 GGAACAGAAC
10177230 AGGGAAAG-AAAGAAA-GAAAAA-
1 AGGGAAAGAAAAGAAAGGAAAAAT
10177251 AGGGAAAGAAAAAGAAAGGAAAAAT
1 AGGGAAAG-AAAAGAAAGGAAAAAT
10177276 AGGG
1 AGGG
10177280 TTTTAAGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.32
23 7 0.28
24 6 0.24
25 4 0.16
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (24 bp):
AGGGAAAGAAAAGAAAGGAAAAAT
Found at i:10184473 original size:3 final size:3
Alignment explanation
Indices: 10184465--10184522 Score: 82
Period size: 3 Copynumber: 19.3 Consensus size: 3
10184455 AATTTAAAAC
* *
10184465 ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA TATT ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
10184511 ATA A-A ATA ATA A
1 ATA ATA ATA ATA A
10184523 AGAAATAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.92
4 2 0.04
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10198721 original size:5 final size:5
Alignment explanation
Indices: 10198706--10198735 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
10198696 GTAAATTAAT
10198706 AAATAA AAATA AAATA AAATA AAATA AAAT
1 AAAT-A AAATA AAATA AAATA AAATA AAAT
10198736 TGTAAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:10206496 original size:33 final size:33
Alignment explanation
Indices: 10206453--10206600 Score: 164
Period size: 33 Copynumber: 4.6 Consensus size: 33
10206443 TCTTTCTGAG
*
10206453 TGGTACACACAAAGTATACCTTTCATTTTCATA
1 TGGTATACACAAAGTATACCTTTCATTTTCATA
10206486 TGGTATACAC--A--ATACCTTTCATTTTCATA
1 TGGTATACACAAAGTATACCTTTCATTTTCATA
*
10206515 TGGTATACACAAAGTATACCTTTCCTTTTCA-A
1 TGGTATACACAAAGTATACCTTTCATTTTCATA
* * * ** * *
10206547 -GTGTACACACAAAGTGTACATAACCTTTTCATG
1 TG-GTATACACAAAGTATACCTTTCATTTTCATA
10206580 TGGTATACACAAAGTATACCT
1 TGGTATACACAAAGTATACCT
10206601 AACCTTTTTA
Statistics
Matches: 97, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
29 28 0.29
31 3 0.03
32 25 0.26
33 40 0.41
34 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (33 bp):
TGGTATACACAAAGTATACCTTTCATTTTCATA
Found at i:10206501 original size:29 final size:29
Alignment explanation
Indices: 10206468--10206526 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
10206458 CACACAAAGT
10206468 ATACCTTTCATTTTCATATGGTATACACA
1 ATACCTTTCATTTTCATATGGTATACACA
10206497 ATACCTTTCATTTTCATATGGTATACACA
1 ATACCTTTCATTTTCATATGGTATACACA
10206526 A
1 A
10206527 AGTATACCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (29 bp):
ATACCTTTCATTTTCATATGGTATACACA
Found at i:10206645 original size:29 final size:29
Alignment explanation
Indices: 10206603--10206671 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
10206593 GTATACCTAA
*
10206603 CCTTTTTACATTCGATAGTCGAAGCTATC
1 CCTTTTCACATTCGATAGTCGAAGCTATC
*
10206632 CCTTTTGACATTCGATAGTCGAAGCTATC
1 CCTTTTCACATTCGATAGTCGAAGCTATC
10206661 CCTTTTCACAT
1 CCTTTTCACAT
10206672 GGTACAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGTCGAAGCTATC
Found at i:10218394 original size:6 final size:6
Alignment explanation
Indices: 10218378--10218425 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
10218368 TATAAACACC
* * *
10218378 TATTATT TATTTT TATTTT T-CTTT TATTTT TATCTT TATTTA TATTTT
1 TATT-TT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
10218426 GAAATTACTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
5 4 0.12
6 26 0.76
7 4 0.12
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:10218403 original size:17 final size:17
Alignment explanation
Indices: 10218383--10218425 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
10218373 ACACCTATTA
* *
10218383 TTTATTTTTATTTTTCT
1 TTTATTTTTATCTTTAT
10218400 TTTATTTTTATCTTTAT
1 TTTATTTTTATCTTTAT
10218417 TTATATTTT
1 TT-TATTTT
10218426 GAAATTACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTATTTTTATCTTTAT
Found at i:10218404 original size:11 final size:11
Alignment explanation
Indices: 10218378--10218425 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
10218368 TATAAACACC
10218378 TATTATTTATTTT
1 TATT-TTTA-TTT
*
10218391 TATTTTTCTTT
1 TATTTTTATTT
10218402 TATTTTTATCTT
1 TATTTTTAT-TT
*
10218414 TATTTATATTT
1 TATTTTTATTT
10218425 T
1 T
10218426 GAAATTACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
11 14 0.45
12 13 0.42
13 4 0.13
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:10229614 original size:17 final size:17
Alignment explanation
Indices: 10229592--10229625 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10229582 TCGAATAGTA
10229592 AAACTAGTCAGTTCTTC
1 AAACTAGTCAGTTCTTC
10229609 AAACTAGTCAGTTCTTC
1 AAACTAGTCAGTTCTTC
10229626 TCAACCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (17 bp):
AAACTAGTCAGTTCTTC
Found at i:10234209 original size:33 final size:33
Alignment explanation
Indices: 10234162--10234293 Score: 133
Period size: 33 Copynumber: 4.0 Consensus size: 33
10234152 TCTTTCTAAG
* *
10234162 TGGTACACATAAAGTATACCTTTCTTTTTCATA
1 TGGTACACACAAAGTATACCTTTCCTTTTCATA
*
10234195 TGGTATACACAAAGTATACCTTTCCTTTTCA-A
1 TGGTACACACAAAGTATACCTTTCCTTTTCATA
* * * ** *
10234227 -GCATACACACAAAGTGTACATAACCTTTTCATG
1 TG-GTACACACAAAGTATACCTTTCCTTTTCATA
* **
10234260 TGGTATACACAAAGTATACCTAACCTTTTCATA
1 TGGTACACACAAAGTATACCTTTCCTTTTCATA
10234293 T
1 T
10234294 TAGATAGCAG
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
31 1 0.01
32 24 0.30
33 55 0.68
34 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (33 bp):
TGGTACACACAAAGTATACCTTTCCTTTTCATA
Found at i:10234328 original size:29 final size:29
Alignment explanation
Indices: 10234283--10234380 Score: 133
Period size: 29 Copynumber: 3.4 Consensus size: 29
10234273 GTATACCTAA
*
10234283 CCTTTTCATATTAGATAGCAGAAGCTATC
1 CCTTTTCACATTAGATAGCAGAAGCTATC
* *
10234312 CCTTTTCACATTTGATAGCGGAAGCTATC
1 CCTTTTCACATTAGATAGCAGAAGCTATC
* * * *
10234341 TCTTTTCACATTCGATAGCCGGAGCTATC
1 CCTTTTCACATTAGATAGCAGAAGCTATC
10234370 CCTTTTCACAT
1 CCTTTTCACAT
10234381 GGTACACACA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (29 bp):
CCTTTTCACATTAGATAGCAGAAGCTATC
Found at i:10234889 original size:20 final size:21
Alignment explanation
Indices: 10234864--10234907 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
10234854 CATTTAAGTA
10234864 TATCTGAATCA-TTTCATAAC
1 TATCTGAATCATTTTCATAAC
10234884 TATCTGAATCATTTTCATAAC
1 TATCTGAATCATTTTCATAAC
10234905 TAT
1 TAT
10234908 GGCAGCCCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.43
Consensus pattern (21 bp):
TATCTGAATCATTTTCATAAC
Found at i:10253969 original size:5 final size:5
Alignment explanation
Indices: 10253959--10254010 Score: 52
Period size: 5 Copynumber: 9.6 Consensus size: 5
10253949 TACCCTTGTC
10253959 TTTAT TTTAT TTTATT TTTATT TCTTAT GTTCTAT TTTAT TTTA- TTTAT
1 TTTAT TTTAT TTTA-T TTTA-T T-TTAT -TT-TAT TTTAT TTTAT TTTAT
10254008 TTT
1 TTT
10254011 CATTCTATTC
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
4 4 0.10
5 19 0.45
6 12 0.29
7 7 0.17
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:10254016 original size:25 final size:25
Alignment explanation
Indices: 10253961--10254019 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
10253951 CCCTTGTCTT
* *
10253961 TATTTTATTTTATTTTTATTTCTTA
1 TATTCTATTTTATTTTTATTTATTA
* *
10253986 TGTTCTATTTTA-TTTTATTTATTT
1 TATTCTATTTTATTTTTATTTATTA
10254010 TCATTCTATT
1 T-ATTCTATT
10254020 CCTCTGTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.73
Consensus pattern (25 bp):
TATTCTATTTTATTTTTATTTATTA
Found at i:10255344 original size:14 final size:14
Alignment explanation
Indices: 10255325--10255351 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10255315 AATACTTGTT
10255325 TTTGTTCTTAATTA
1 TTTGTTCTTAATTA
10255339 TTTGTTCTTAATT
1 TTTGTTCTTAATT
10255352 CTTGATCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTGTTCTTAATTA
Found at i:10260982 original size:6 final size:6
Alignment explanation
Indices: 10260973--10261021 Score: 98
Period size: 6 Copynumber: 8.2 Consensus size: 6
10260963 AAAAAAAAGG
10260973 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
10261021 A
1 A
10261022 TAAAAAGGAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:10270832 original size:6 final size:6
Alignment explanation
Indices: 10270817--10270852 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
10270807 ATTGAGTCAA
* *
10270817 TTTATC TTTATT TTTATT TTTATT TTTATG TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
10270853 CTGTTTTCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:10271205 original size:14 final size:14
Alignment explanation
Indices: 10271188--10271217 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10271178 TAATTTTCTC
10271188 ATATTACTTTTAGA
1 ATATTACTTTTAGA
10271202 ATATTACTTTTAGA
1 ATATTACTTTTAGA
10271216 AT
1 AT
10271218 GAACTCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
ATATTACTTTTAGA
Found at i:10277416 original size:49 final size:49
Alignment explanation
Indices: 10277363--10277553 Score: 170
Period size: 49 Copynumber: 3.8 Consensus size: 49
10277353 CAAACTATCT
* * * *
10277363 GGTATGCATAGTAGTCTGCACTTAGTATTACACATGCGACCAATTATTC
1 GGTATACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATTC
* * *
10277412 GGTATACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTA-TC
1 GGTATACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATTC
* * * * * **
10277461 TG-ATACACGTAGTAGCCTGCATTTAGTACAACACACGTGATCGAAGTTATGG
1 GGTATACA--TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATTC
** *
10277513 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GGTATACATAGTAGCCTGCACTTAGTACTACACACGCGACC
10277554 TAGCTACATA
Statistics
Matches: 112, Mismatches: 23, Indels: 13
0.76 0.16 0.09
Matches are distributed among these distances:
48 4 0.04
49 38 0.34
50 36 0.32
51 30 0.27
52 1 0.01
53 3 0.03
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (49 bp):
GGTATACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATTC
Found at i:10277487 original size:50 final size:51
Alignment explanation
Indices: 10277371--10277559 Score: 172
Period size: 50 Copynumber: 3.8 Consensus size: 51
10277361 CTGGTATGCA
* * * * * *
10277371 TAGTAGTCTGCACTTAGTATTACACATGCGACC-AA-TTATTCGG-TATACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGCTA-TCGGATACACG
*
10277420 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGCTATCGGATACACG
* * * * * * * * *
10277470 TAGTAGCCTGCATTTAGTACAACACACGTGATCGAAGTTATGGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGCTATCGGATACACG
* *
10277521 TAGTAGCCTGCACTTAGTACTACACATGCGACCT-AGCTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGCTA
10277560 CATATATCCC
Statistics
Matches: 113, Mismatches: 24, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
49 32 0.28
50 45 0.40
51 36 0.32
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGCTATCGGATACACG
Found at i:10278305 original size:26 final size:26
Alignment explanation
Indices: 10278276--10278357 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
10278266 TGATACAAAT
10278276 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10278302 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10278328 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10278354 TGAT
1 TGAT
10278358 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:10288220 original size:8 final size:9
Alignment explanation
Indices: 10288189--10288217 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
10288179 CTTTTACTAA
10288189 TTTAAAATT
1 TTTAAAATT
10288198 TTTAAAATT
1 TTTAAAATT
10288207 TTTAAAATT
1 TTTAAAATT
10288216 TT
1 TT
10288218 AAAGGGCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTAAAATT
Found at i:10290775 original size:16 final size:16
Alignment explanation
Indices: 10290750--10290781 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10290740 ATATTATTAT
*
10290750 AATAACTAAAAGAAAA
1 AATAAATAAAAGAAAA
10290766 AATAAATAAAAGAAAA
1 AATAAATAAAAGAAAA
10290782 GAAACAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.12
Consensus pattern (16 bp):
AATAAATAAAAGAAAA
Found at i:10293920 original size:23 final size:22
Alignment explanation
Indices: 10293890--10293942 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
10293880 CTTTAGTACC
*
10293890 ATTATTATTATTGTTA-CTATTTT
1 ATTATTATT-TTATTATCTA-TTT
10293913 ATTATTATTTTATTATCTATTT
1 ATTATTATTTTATTATCTATTT
10293935 ATTTATTA
1 A-TTATTA
10293943 CCTCTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (22 bp):
ATTATTATTTTATTATCTATTT
Found at i:10293937 original size:11 final size:11
Alignment explanation
Indices: 10293890--10293934 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
10293880 CTTTAGTACC
10293890 ATTATTATTATT
1 ATTATTATT-TT
* *
10293902 GTTACTATTTT
1 ATTATTATTTT
10293913 ATTATTATTTT
1 ATTATTATTTT
10293924 ATTATCTATTT
1 ATTAT-TATTT
10293935 ATTTATTACC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 16 0.57
12 12 0.43
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (11 bp):
ATTATTATTTT
Found at i:10301015 original size:13 final size:13
Alignment explanation
Indices: 10300997--10301034 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
10300987 AACGAAGCTA
*
10300997 GACACGACCGTGC
1 GACACGGCCGTGC
10301010 GACACGGCCGTGC
1 GACACGGCCGTGC
10301023 GACACGGCCGTG
1 GACACGGCCGTG
10301035 TGAACCCACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.18, C:0.37, G:0.37, T:0.08
Consensus pattern (13 bp):
GACACGGCCGTGC
Found at i:10333767 original size:26 final size:26
Alignment explanation
Indices: 10333731--10333814 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
10333721 CATGAAATTC
10333731 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
10333757 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
10333783 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
10333809 TTATCA
1 TTATCA
10333815 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:10337993 original size:25 final size:26
Alignment explanation
Indices: 10337956--10338007 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
10337946 TCAAACATGC
10337956 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
10337982 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
10338007 A
1 A
10338008 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:10339524 original size:26 final size:26
Alignment explanation
Indices: 10339486--10339543 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
10339476 AATGAAATTC
10339486 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
10339512 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
10339538 TTATCA
1 TTATCA
10339544 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:10340919 original size:97 final size:97
Alignment explanation
Indices: 10340753--10340947 Score: 372
Period size: 97 Copynumber: 2.0 Consensus size: 97
10340743 AGTGAGGAGT
10340753 TAGGCGTGGAATCATATGGAATATTGGGGATGGTGTGAGGTGGATTTTGGGCGCGACTCTTGGGT
1 TAGGCGTGGAATCATATGGAATATTGGGGATGGTGTGAGGTGGATTTTGGGCGCGACTCTTGGGT
10340818 AAAAAACTGTGAGCCTTTGATGAACAGTAGTA
66 AAAAAACTGTGAGCCTTTGATGAACAGTAGTA
* *
10340850 TAGGCGTGGAATCATTTGGAATATTGGGGATGGTGTGAGGTGGATTTTGGGTGCGACTCTTGGGT
1 TAGGCGTGGAATCATATGGAATATTGGGGATGGTGTGAGGTGGATTTTGGGCGCGACTCTTGGGT
10340915 AAAAAACTGTGAGCCTTTGATGAACAGTAGTA
66 AAAAAACTGTGAGCCTTTGATGAACAGTAGTA
10340947 T
1 T
10340948 CCAACCGGCC
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 96 1.00
ACGTcount: A:0.25, C:0.10, G:0.35, T:0.30
Consensus pattern (97 bp):
TAGGCGTGGAATCATATGGAATATTGGGGATGGTGTGAGGTGGATTTTGGGCGCGACTCTTGGGT
AAAAAACTGTGAGCCTTTGATGAACAGTAGTA
Found at i:10342288 original size:11 final size:11
Alignment explanation
Indices: 10342272--10342296 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10342262 TTATTATTGT
10342272 TATTATATATA
1 TATTATATATA
10342283 TATTATATATA
1 TATTATATATA
10342294 TAT
1 TAT
10342297 AAAGTAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTATATATA
Found at i:10344520 original size:46 final size:46
Alignment explanation
Indices: 10344453--10344634 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
10344443 AGTGTGTTCT
*
10344453 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
10344499 CTGATATGAAATGTGTAAGACCATGGTTTAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
10344545 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
10344591 ATGAT-GGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
10344635 TCATGTCAAA
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 125 0.99
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:10349474 original size:2 final size:2
Alignment explanation
Indices: 10349469--10349575 Score: 135
Period size: 2 Copynumber: 54.0 Consensus size: 2
10349459 ACACACACAT
*
10349469 AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG AG AG AG GG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * * *
10349510 GG AG GG AG GG AG GG AG GG AG AG AG AG AG AG AG GG AG AG AG GG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10349552 AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG
10349576 CTTCAAGAGG
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
1 1 0.01
2 87 0.99
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10349850 original size:4 final size:4
Alignment explanation
Indices: 10349841--10349866 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
10349831 CCTCCCCTCC
10349841 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
10349867 CAAAAACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:10351804 original size:6 final size:6
Alignment explanation
Indices: 10351795--10351856 Score: 124
Period size: 6 Copynumber: 10.3 Consensus size: 6
10351785 TGCGGCTGTG
10351795 GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT
1 GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT
10351843 GCTCCT GCTCCT GC
1 GCTCCT GCTCCT GC
10351857 AGCAGCTCCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.00, C:0.50, G:0.18, T:0.32
Consensus pattern (6 bp):
GCTCCT
Found at i:10358378 original size:24 final size:23
Alignment explanation
Indices: 10358347--10358393 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
10358337 ATTACATGAT
*
10358347 TATTCTGGTGTGTTTTGGTTGGA
1 TATTCTGGTGTGTTTGGGTTGGA
10358370 TATTACTGGTGTGTTTGGGTTGGA
1 TATT-CTGGTGTGTTTGGGTTGGA
10358394 ATCCATGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.11, C:0.04, G:0.36, T:0.49
Consensus pattern (23 bp):
TATTCTGGTGTGTTTGGGTTGGA
Found at i:10375010 original size:38 final size:38
Alignment explanation
Indices: 10374954--10375033 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
10374944 GATGTGTATT
* * *
10374954 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
*
10374992 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
10375030 CGGG
1 CGGG
10375034 CCTTCGTGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:10375086 original size:43 final size:43
Alignment explanation
Indices: 10375005--10375236 Score: 333
Period size: 43 Copynumber: 5.4 Consensus size: 43
10374995 GATAAATCCC
* * *
10375005 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
10375046 GCAGGCCTAGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
10375089 GCAGGCTTAGTGCCGGTGATGTGTATTCAGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
10375132 GCAGGCTTCGTGCCAGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
10375175 GTAGGCTTCGTACCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
10375218 GCAGGCGTAATGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
10375237 AATGATATGT
Statistics
Matches: 172, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
41 16 0.09
42 2 0.01
43 154 0.90
ACGTcount: A:0.13, C:0.24, G:0.33, T:0.30
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:10378593 original size:3 final size:3
Alignment explanation
Indices: 10378587--10378617 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
10378577 TTTAATTTTT
10378587 TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
10378618 ACCTACTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10387972 original size:19 final size:19
Alignment explanation
Indices: 10387948--10387986 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
10387938 TTTTCTTTGT
10387948 ACGTATAAGCATGTTTTTA
1 ACGTATAAGCATGTTTTTA
10387967 ACGTATAAGCATGTTTTTA
1 ACGTATAAGCATGTTTTTA
10387986 A
1 A
10387987 GTCTATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.41
Consensus pattern (19 bp):
ACGTATAAGCATGTTTTTA
Found at i:10393910 original size:26 final size:27
Alignment explanation
Indices: 10393881--10393932 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
10393871 AAGAAAATTT
*
10393881 AGTAATTT-AAACAAAATTAAAAAAAA
1 AGTAATTTGAAACAAAAATAAAAAAAA
* *
10393907 AGTAATTTGCAATAAAAATAAAAAAA
1 AGTAATTTGAAACAAAAATAAAAAAA
10393933 TTGCTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (27 bp):
AGTAATTTGAAACAAAAATAAAAAAAA
Found at i:10405284 original size:12 final size:12
Alignment explanation
Indices: 10405267--10405291 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10405257 AAGGAAAGGG
10405267 TAAGGCCTTGAT
1 TAAGGCCTTGAT
10405279 TAAGGCCTTGAT
1 TAAGGCCTTGAT
10405291 T
1 T
10405292 TCAATTAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (12 bp):
TAAGGCCTTGAT
Found at i:10409384 original size:29 final size:31
Alignment explanation
Indices: 10409331--10409413 Score: 84
Period size: 34 Copynumber: 2.6 Consensus size: 31
10409321 CTTTAAGAAA
*
10409331 AAAATGAAATTAATT-CT-AAAAA-AAAT-ACC
1 AAAATGAAA-T-ATTACTAAAAAATAAATGAAC
10409360 AAAATGAAATATTACTAAAAAAAAATAAATGAAC
1 AAAATGAAATATTACT---AAAAAATAAATGAAC
10409394 AAAATGAAATATTACTAAAA
1 AAAATGAAATATTACTAAAA
10409414 TTGAGTGGCT
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
27 3 0.07
28 3 0.07
29 9 0.20
31 4 0.09
32 5 0.11
33 4 0.09
34 18 0.39
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (31 bp):
AAAATGAAATATTACTAAAAAATAAATGAAC
Found at i:10410438 original size:24 final size:24
Alignment explanation
Indices: 10410418--10410466 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
10410408 GATTATTGAC
*
10410418 AACCTTTCATTTGCAACTATTAGA
1 AACCTTTCATTTACAACTATTAGA
*
10410442 AGCCTTTCATTTACAACTATTAGA
1 AACCTTTCATTTACAACTATTAGA
10410466 A
1 A
10410467 CACTATCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (24 bp):
AACCTTTCATTTACAACTATTAGA
Found at i:10415858 original size:15 final size:15
Alignment explanation
Indices: 10415820--10415858 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
10415810 GTATTTATTT
10415820 TTTC-TTTTTTTCTA
1 TTTCGTTTTTTTCTA
10415834 TTCTCGTTTTTTTCTA
1 TT-TCGTTTTTTTCTA
10415850 TTT-GTTTTT
1 TTTCGTTTTT
10415859 ATTTTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 8 0.35
15 3 0.13
16 12 0.52
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.77
Consensus pattern (15 bp):
TTTCGTTTTTTTCTA
Found at i:10416713 original size:3 final size:3
Alignment explanation
Indices: 10416705--10416767 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
10416695 TACCCACAAC
10416705 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10416753 ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT
10416768 TTAAATTTCT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10419322 original size:25 final size:25
Alignment explanation
Indices: 10419285--10419344 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
10419275 TTGAAATAAG
* *
10419285 TAAAATGGGTTTAAAATAAGGT-ATA
1 TAAAATAGTTTTAAAATAA-GTAATA
10419310 TAAAATAGTTTTAAAATAAGTAATA
1 TAAAATAGTTTTAAAATAAGTAATA
*
10419335 TATAATAGTT
1 TAAAATAGTT
10419345 AATTTAAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 2 0.06
25 29 0.94
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (25 bp):
TAAAATAGTTTTAAAATAAGTAATA
Found at i:10421655 original size:206 final size:206
Alignment explanation
Indices: 10421301--10422351 Score: 1615
Period size: 206 Copynumber: 5.1 Consensus size: 206
10421291 ATCCGAGAGT
10421301 CAAATCTA-CTATGTCTTCGATTTGTTTCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTT
1 CAAATC-AGCTATGTCTTCGATTTGTTTCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTT
* *
10421365 ACTTTAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGGAGATGC
65 ACTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGAAGATGC
*
10421430 CAGACTTTGATTTGTTCTCTGACAATATAGAGACGACAAATCATCTTAGATTTGTTTCAACGTAA
130 CAGACTTTGATTTGTTCTCTGACAATATAGAGACGACAAATCATCTTAGATTTGTTTCATCGTAA
10421495 ACACGTGAAAGC
195 ACACGTGAAAGC
10421507 CAAATCTA-CTATGTCTTCGATTTGTTTCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTT
1 CAAATC-AGCTATGTCTTCGATTTGTTTCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTT
* *
10421571 ACTTCAGTATAAACATCTAAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGGAGATGC
65 ACTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGAAGATGC
* *
10421636 CAGACTTTAATTTGTTCTCTGACAATATAGAGACGACAAATCATCTTAGATTTGTTTCAACGTAA
130 CAGACTTTGATTTGTTCTCTGACAATATAGAGACGACAAATCATCTTAGATTTGTTTCATCGTAA
10421701 ACACGTGAAAGC
195 ACACGTGAAAGC
* * *
10421713 CAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTTG
1 CAAATCAGCTATGTCTTCGATTTGTTTCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTTA
* **
10421778 CTTCAGTATAAACATCTGAAGGTCAGATCTGTTATGTATCTGCTCTCCATCAAAGTGAAGATGCC
66 CTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGAAGATGCC
* * * * * * *
10421843 AAAATTCGATTCGTTCTCTGACAATACAGAGACGAAAAATCATCTTAGATTTGTTTCATCGTAAT
131 AGACTTTGATTTGTTCTCTGACAATATAGAGACGACAAATCATCTTAGATTTGTTTCATCGTAAA
*
10421908 CACGTAAAAGC
196 CACGTGAAAGC
* *
10421919 CAAATCAGCTACGTCTTCGATTTG-TTCATTGTAAGCACAAGGATGCCAAATCATCTTGGATCTT
1 CAAATCAGCTATGTCTTCGATTTGTTTC-TTGTAAGCATAAGGATGCCAAATCATCTTGGATCTT
* * * * **
10421983 ACTTTAGTATAAACATCCGAAGG-CGAGATCTGCTATATGTCTGCTCTCCATCAAAGTGAAGATG
65 ACTTCAGTATAAACATCTGAAGGTC-AGATCTGCTATGTATCTGCTCTCCATTGAAGTGAAGATG
* * * * *
10422047 CCAAACTTCGATTCGTTCTCTGACAATATAGAGACGACAAATCATCTTAGATTTGCTTGATCGTA
129 CCAGACTTTGATTTGTTCTCTGACAATATAGAGACGACAAATCATCTTAGATTTGTTTCATCGTA
*
10422112 ATCACGTGAAAGC
194 AACACGTGAAAGC
* * * * * *
10422125 CAAATCAGCTATATCTTCAATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTTG
1 CAAATCAGCTATGTCTTCGATTTGTTTCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTTA
*
10422190 CTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCGGCTCTCCATTGAAGTGAAGATGCC
66 CTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGAAGATGCC
* * *
10422255 AGACTTTGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAAATTTGCTTCATCGTAAA
131 AGACTTTGATTTGTTCTCTGACAATATAGAGACGACAAATCATCTTAGATTTGTTTCATCGTAAA
*
10422320 TACGTGAAAGC
196 CACGTGAAAGC
*
10422331 CAAATCAGCCATGTCTTCGAT
1 CAAATCAGCTATGTCTTCGAT
10422352 CTACTCCCCG
Statistics
Matches: 780, Mismatches: 60, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
205 4 0.01
206 773 0.99
207 3 0.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (206 bp):
CAAATCAGCTATGTCTTCGATTTGTTTCTTGTAAGCATAAGGATGCCAAATCATCTTGGATCTTA
CTTCAGTATAAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGAAGATGCC
AGACTTTGATTTGTTCTCTGACAATATAGAGACGACAAATCATCTTAGATTTGTTTCATCGTAAA
CACGTGAAAGC
Found at i:10430401 original size:13 final size:15
Alignment explanation
Indices: 10430371--10430401 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10430361 TTCCAGATTT
10430371 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
10430386 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
10430401 T
1 T
10430402 GGAAAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTTCTACCTCTC
Found at i:10430487 original size:15 final size:14
Alignment explanation
Indices: 10430445--10430494 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
10430435 ATAACTTTGA
*
10430445 ATGCAAATGATGTG
1 ATGCAAATGATGAG
10430459 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
10430474 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
10430488 ATGCAAA
1 ATGCAAA
10430495 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:10434155 original size:33 final size:33
Alignment explanation
Indices: 10434105--10434167 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
10434095 GGAGTCAAAC
10434105 GCGTGGAGCGTGATGACCAAGGCTGAGGGGCAT
1 GCGTGGAGCGTGATGACCAAGGCTGAGGGGCAT
* *
10434138 GCGTGGAGTGTGGTGACCAAGGCTGAGGGG
1 GCGTGGAGCGTGATGACCAAGGCTGAGGGG
10434168 TATGGTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.19, C:0.16, G:0.49, T:0.16
Consensus pattern (33 bp):
GCGTGGAGCGTGATGACCAAGGCTGAGGGGCAT
Found at i:10436266 original size:20 final size:21
Alignment explanation
Indices: 10436232--10436300 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 21
10436222 AAAACCTAAG
10436232 TTTTTATAGGAAAATATTGGA
1 TTTTTATAGGAAAATATTGGA
* * *
10436253 TTTTTATA-GCAAATGTTGGC
1 TTTTTATAGGAAAATATTGGA
* *
10436273 TTTTTACAAGGATAAA-CTTGGA
1 TTTTTA-TAGGA-AAATATTGGA
10436295 TTTTTA
1 TTTTTA
10436301 CAAGGAATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 15 0.39
21 9 0.24
22 11 0.29
23 3 0.08
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.45
Consensus pattern (21 bp):
TTTTTATAGGAAAATATTGGA
Done.