Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold55
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: 4293517
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.26
Warning! 910309 characters in sequence are not A, C, G, or T
File 1 of 21
Found at i:2749 original size:21 final size:21
Alignment explanation
Indices: 2725--2792 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
2715 CAAAGGCATG
*
2725 AAAAATGAAAAGAAAAACAAA
1 AAAAATGAAAAGAAAAATAAA
* * *
2746 AAAAGTGCGAAAGCAAAATAAA
1 AAAAATG-AAAAGAAAAATAAA
*
2768 AAAAA-GAACAACAAAAATAAA
1 AAAAATGAA-AAGAAAAATAAA
2789 AAAA
1 AAAA
2793 CGAGGACATG
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
20 1 0.03
21 21 0.57
22 15 0.41
ACGTcount: A:0.76, C:0.07, G:0.10, T:0.06
Consensus pattern (21 bp):
AAAAATGAAAAGAAAAATAAA
Found at i:4129 original size:27 final size:27
Alignment explanation
Indices: 4084--4849 Score: 559
Period size: 27 Copynumber: 27.8 Consensus size: 27
4074 GACCTCTTGA
* * *
4084 AAGTCCACGATTCAGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
***
4111 AAGTCCACAACTTAATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
4138 AAGTCCACAACTTCGTGGCATCTTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
**
4165 AAGTCCACAACTCAATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
**
4192 AAAGTCCACAACTCTATGGCATCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
*
4220 AAAGTCCACAACTCTGTGGCATCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
4248 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
4275 AAGTCCACAACTCCGTGGCAT-CTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
4301 AAAGTCCACAACTCTGTGCCATCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
*
4329 AAATCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
4356 AAGTCCACAACTCCATGGCATCTTTTTT
1 AAGTCCACAACTCCGTGGCATC-CTTTT
* * * **
4384 AAG-CCTACAAGTCAGTGGCACCCTTCCA
1 AAGTCC-ACAACTCCGTGGCATCCTT-TT
* * ** * *
4412 AAGCCCACAAGTTAGTGGTACCTCTTTTT
1 AAGTCCACAACTCCGTGG--CATCCTTTT
* * * **
4441 AAG-CCACAAGTCAGTGGCACCCTTCCA
1 AAGTCCACAACTCCGTGGCATCCTT-TT
* * * *
4468 AAG-CTCACAAGTCAGTGGCACCCATTTC
1 AAGTC-CACAACTCCGTGGCATCC-TTTT
** * * *
4496 AAAACCTACAAGTCAGTGGCATCTTTTTT
1 AAGTCC-ACAACTCCGTGGCATC-CTTTT
* * *** *
4525 AAGCCCACAAGTTAATGGCACACCTTTTT
1 AAGTCCACAACTCCGTGGCA-TCC-TTTT
* * *
4554 AAGCCCACAACTCCGTGGCAACCCTTTA
1 AAGTCCACAACTCCGTGGC-ATCCTTTT
* * *
4582 AAATCCACAACTCCATGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * *
4609 ATGTCCACAACTCCATGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * * *
4636 AGGTCCACAACTTCATGCCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
4663 AAAGTCCACAACTTCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
* * *
4691 AAGTCCATAACTCCATGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * * *
4718 AGGTCCACAACTCTGTGGAACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * *
4745 ATGTCCACAACTCCGTGGCACCCTTTA
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * * *
4772 AAGTCCACAAGTTCGTGGCATCATTTCA
1 AAGTCCACAACTCCGTGGCATCCTTT-T
* * ** *
4800 AAGCCCACAAGTTAGTGGCATCCTTTCA
1 AAGTCCACAACTCCGTGGCATCCTTT-T
* * *
4828 AAGCCCACAAGTTCGTGGCATC
1 AAGTCCACAACTCCGTGGCATC
4850 ATTTCAAAGC
Statistics
Matches: 625, Mismatches: 94, Indels: 39
0.82 0.12 0.05
Matches are distributed among these distances:
26 9 0.01
27 333 0.53
28 226 0.36
29 52 0.08
30 5 0.01
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCATCCTTTT
Found at i:4199 original size:28 final size:28
Alignment explanation
Indices: 4083--4984 Score: 586
Period size: 28 Copynumber: 32.6 Consensus size: 28
4073 TGACCTCTTG
* *
4083 AAAGTCCACGATTCAGTGGCATCCTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* *
4111 -AAGTCCACAACTTAATGGCATCCTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
4138 -AAGTCCACAACTTC-GTGGCAT-CTTTT
1 AAAGTCCACAAC-TCAGTGGCATCCTTTT
* *
4164 TAAGTCCACAACTCAATGGCATCCTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
4192 AAAGTCCACAACTCTA-TGGCATCCTTTT
1 AAAGTCCACAACTC-AGTGGCATCCTTTT
*
4220 AAAGTCCACAACTCTGTGGCATCCTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
*
4248 -AAGTCCACAACTCCGTGGCATCCTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
*
4275 -AAGTCCACAACTCCGTGGCAT-CTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* *
4301 AAAGTCCACAACTCTGTGCCATCCTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
*
4329 AAA-TCCACAACTCCGTGGCATCCTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
*
4356 -AAGTCCACAACTCCA-TGGCATCTTTTT
1 AAAGTCCACAACT-CAGTGGCATCCTTTT
* * * **
4383 TAAG-CCTACAAGTCAGTGGCACCCTTCC
1 AAAGTCC-ACAACTCAGTGGCATCCTTTT
* * * * *
4411 AAAGCCCACAAGTTAGTGGTACCTCTTTT
1 AAAGTCCACAACTCAGTGGCATC-CTTTT
* * * **
4440 TAAG-CCACAAGTCAGTGGCACCCTTCC
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* * *
4467 AAAG-CTCACAAGTCAGTGGCACCCATTTC
1 AAAGTC-CACAACTCAGTGGCATCC-TTTT
* * *
4496 AAA-ACCTACAAGTCAGTGGCATCTTTTT
1 AAAGTCC-ACAACTCAGTGGCATCCTTTT
* * * * * *
4524 TAAGCCCACAAGTTAATGGCACACCTTTT
1 AAAGTCCACAACTCAGTGGCA-TCCTTTT
* * * * *
4553 TAAGCCCACAACTCCGTGGCAACCCTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* *
4581 AAAATCCACAACTCCA-TGGCACCCTTTT
1 AAAGTCCACAACT-CAGTGGCATCCTTTT
* *
4609 -ATGTCCACAACTCCA-TGGCACCCTTTT
1 AAAGTCCACAACT-CAGTGGCATCCTTTT
* *
4636 -AGGTCCACAACTTCA-TGCCATCCTTTT
1 AAAGTCCACAAC-TCAGTGGCATCCTTTT
*
4663 AAAGTCCACAACTTC-GTGGCACCCTTTT
1 AAAGTCCACAAC-TCAGTGGCATCCTTTT
* *
4691 -AAGTCCATAACTCCA-TGGCACCCTTTT
1 AAAGTCCACAACT-CAGTGGCATCCTTTT
* * * *
4718 -AGGTCCACAACTCTGTGGAACCCTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* * *
4745 -ATGTCCACAACTCCGTGGCA-CCCTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* * *
4771 AAAGTCCACAAGTTC-GTGGCATCATTTC
1 AAAGTCCACAA-CTCAGTGGCATCCTTTT
* * * *
4799 AAAGCCCACAAGTTAGTGGCATCCTTTC
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* * * *
4827 AAAGCCCACAAGTTC-GTGGCATCATTTC
1 AAAGTCCACAA-CTCAGTGGCATCCTTTT
* * * * * *
4855 AAAGCCCATAAGTTAGTGGCATCATTTC
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* * * * * *
4883 AAAGCCCACAAGTTAGCGACA-CCATTTC
1 AAAGTCCACAACTCAGTGGCATCC-TTTT
* * *
4911 AAAGCCCACAAGTTAGTGGCAT-CTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* * * * *
4938 CAAAGCCCACAAGTCAATGGCATCATTTC
1 -AAAGTCCACAACTCAGTGGCATCCTTTT
* *
4967 AAAGCCCACAAGTCAGTG
1 AAAGTCCACAACTCAGTG
4985 ACAACTCATT
Statistics
Matches: 739, Mismatches: 97, Indels: 76
0.81 0.11 0.08
Matches are distributed among these distances:
26 21 0.03
27 305 0.41
28 353 0.48
29 60 0.08
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (28 bp):
AAAGTCCACAACTCAGTGGCATCCTTTT
Found at i:4848 original size:56 final size:56
Alignment explanation
Indices: 4771--5029 Score: 333
Period size: 56 Copynumber: 4.5 Consensus size: 56
4761 GGCACCCTTT
* *
4771 AAAGTCCACAAGTTCGTGGCATCATTTCAAAGCCCACAAGTTAGTGGCATCCTTTC
1 AAAGCCCACAAGTTCGTGGCATCATTTCAAAGCCCACAAGTTAGTGGCATCATTTC
*
4827 AAAGCCCACAAGTTCGTGGCATCATTTCAAAGCCCATAAGTTAGTGGCATCATTTC
1 AAAGCCCACAAGTTCGTGGCATCATTTCAAAGCCCACAAGTTAGTGGCATCATTTC
* * * * *
4883 AAAGCCCACAAGTTAGCGACACCATTTCAAAGCCCACAAGTTAGTGGCATCTTTTC
1 AAAGCCCACAAGTTCGTGGCATCATTTCAAAGCCCACAAGTTAGTGGCATCATTTC
* * *
4939 AAAGCCCACAAG-TCAATGGCATCATTTCAAAGCCCACAAGTCAGTGACAACTCATTTC
1 AAAGCCCACAAGTTC-GTGGCATCATTTCAAAGCCCACAAGTTAGTGGC-A-TCATTTC
4997 AAAGCCTACACAAG-TCGGTGGCAACTCATTTCA
1 AAAGCC--CACAAGTTC-GTGGC-A-TCATTTCA
5030 TGCTTGATGC
Statistics
Matches: 177, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
55 1 0.01
56 142 0.80
57 1 0.01
58 12 0.07
60 12 0.07
61 1 0.01
62 8 0.05
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (56 bp):
AAAGCCCACAAGTTCGTGGCATCATTTCAAAGCCCACAAGTTAGTGGCATCATTTC
Found at i:4877 original size:84 final size:84
Alignment explanation
Indices: 4749--5029 Score: 334
Period size: 84 Copynumber: 3.3 Consensus size: 84
4739 CCTTTTATGT
* * * * * *
4749 CCACAACTCCGTGGCACCCTTT-AAAGTCCACAAGTTCGTGGCATCATTTCAAAGCCCACAAGTT
1 CCACAAGTTCGTGGCATCATTTCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTT
*
4813 AGTGGCATCCTTTCAAAGC
66 AGTGACATCCTTTCAAAGC
*
4832 CCACAAGTTCGTGGCATCATTTCAAAGCCCATAAGTTAGTGGCATCATTTCAAAGCCCACAAGTT
1 CCACAAGTTCGTGGCATCATTTCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTT
*
4897 AGCGACA-CCATTTCAAAGC
66 AGTGACATCC-TTTCAAAGC
* * * * *
4916 CCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAATGGCATCATTTCAAAGCCCACAAGTC
1 CCACAAGTTCGTGGCATCATTTCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTT
*
4981 AGTGACAACTCATTTCAAAGC
66 AGTGAC-A-TCCTTTCAAAGC
5002 CTACACAAG-TCGGTGGCAACTCATTTCA
1 C--CACAAGTTC-GTGGC-A-TCATTTCA
5030 TGCTTGATGC
Statistics
Matches: 169, Mismatches: 19, Indels: 13
0.84 0.09 0.06
Matches are distributed among these distances:
83 20 0.12
84 117 0.69
85 1 0.01
86 10 0.06
87 2 0.01
88 11 0.07
89 1 0.01
90 7 0.04
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (84 bp):
CCACAAGTTCGTGGCATCATTTCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTT
AGTGACATCCTTTCAAAGC
Found at i:9807 original size:28 final size:28
Alignment explanation
Indices: 9767--9838 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
9757 GGAATAAAGC
** **
9767 CGGGGTTGGAGTATCCCCTCTGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
9795 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
9823 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
9839 TCAATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:9916 original size:52 final size:53
Alignment explanation
Indices: 9849--9948 Score: 139
Period size: 52 Copynumber: 1.9 Consensus size: 53
9839 TCAATTGTGA
* * *
9849 AAAATTGGTGTTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGG
1 AAAATTGGTGATTTTGAAAATAAAATCAGAGTTGAAGTATCCCCGATTAAAGG
* * *
9902 AAAATTGGT-ATTTTGAAAATAAAGTCGGGGTTGAAGTATCCCCGATT
1 AAAATTGGTGATTTTGAAAATAAAATCAGAGTTGAAGTATCCCCGATT
9949 GTGGAAAATC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
52 32 0.78
53 9 0.22
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (53 bp):
AAAATTGGTGATTTTGAAAATAAAATCAGAGTTGAAGTATCCCCGATTAAAGG
Found at i:10020 original size:79 final size:80
Alignment explanation
Indices: 9927--10106 Score: 240
Period size: 80 Copynumber: 2.3 Consensus size: 80
9917 AAAATAAAGT
* * * *
9927 CGGGGTTGAAGTATCCCCGATTGTG-GAAAATCGATGA-GTTGGAAATAAAACC-GGGGTTGGAG
1 CGGGGTTGGAGTATCCCCGATTATGAG-AAATCAAT-ATGTTAGAAATAAAACCGGGGGTTGGAG
* *
9989 TATCCCCTCGGAGATAA
64 TATCCCCTCGAAAATAA
* * *
10006 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAGCCGGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATGTTAGAAATAAAACCGGGGGTTGGAGTA
10071 TCCCCTCGAAAATAA
66 TCCCCTCGAAAATAA
10086 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
10107 GATTAACGGG
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
78 1 0.01
79 41 0.46
80 47 0.53
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (80 bp):
CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATGTTAGAAATAAAACCGGGGGTTGGAGTA
TCCCCTCGAAAATAA
Found at i:10121 original size:27 final size:27
Alignment explanation
Indices: 10059--10136 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
10049 AATAAAGCCG
*
10059 GGGGTTGGAGTATCCCCTCGA-AAATAAC
1 GGGGTTGGAGTAT-CCC-CGATGAATAAC
*
10087 GGGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCGATGAATAAC
*
10114 GGGGTTGGAGTATCCTCGATGAA
1 GGGGTTGGAGTATCCCCGATGAA
10137 AAATTGATGT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
26 3 0.07
27 29 0.64
28 13 0.29
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.24
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATGAATAAC
Found at i:10172 original size:48 final size:50
Alignment explanation
Indices: 10117--10232 Score: 136
Period size: 50 Copynumber: 2.3 Consensus size: 50
10107 GATTAACGGG
10117 GTTGGAGTATCCTCGA-T-GA-AAAATT-GATGTTTT-AGAAATAAAATCGGA
1 GTTGGAGTATCC-CGATTAGAGAAAATTAG-TGTTTTGA-AAATAAAATCGGA
*
10165 GTTGGAGTATCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCGATTAGAGAAAATTAGTGTTTTGAAAATAAAATCGGA
10215 GTTGG-GATATCCCCGATT
1 GTTGGAG-TAT-CCCGATT
10233 GCGGAGAATC
Statistics
Matches: 60, Mismatches: 1, Indels: 11
0.83 0.01 0.15
Matches are distributed among these distances:
47 3 0.05
48 13 0.22
49 2 0.03
50 33 0.55
51 9 0.15
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.32
Consensus pattern (50 bp):
GTTGGAGTATCCCGATTAGAGAAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:10190 original size:107 final size:106
Alignment explanation
Indices: 9978--10177 Score: 248
Period size: 104 Copynumber: 1.9 Consensus size: 106
9968 GAAATAAAAC
*
9978 CGGGGTTGGAGTATCCCCTCGGAGATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATAT
1 CGGGGTTGGAGTATCCCCTCGGAGATAACGGGGTTGGAGTATCCCCG--TATGAAAAATTAATAT
* * * *
10043 TTTAGAAATAAAGCCGGGGGTTGGAGTATCCCCTCGAAAATAA
64 TTTAGAAATAAAACCGGGAGTTGGAGTATCCCATAGAAAATAA
* * *
10086 CGGGGTTGGAGTAT-CCC-C-GATGATTAACGGGGTTGGAGTATCCTCG-ATGAAAAATTGATGT
1 CGGGGTTGGAGTATCCCCTCGGA-GA-TAACGGGGTTGGAGTATCCCCGTATGAAAAATTAATAT
*
10147 TTTAGAAATAAAATC-GGAGTTGGAGTATCCC
64 TTTAGAAATAAAACCGGGAGTTGGAGTATCCC
10178 GATTATAGAA
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
103 15 0.18
104 25 0.30
105 2 0.02
106 3 0.04
107 24 0.29
108 14 0.17
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (106 bp):
CGGGGTTGGAGTATCCCCTCGGAGATAACGGGGTTGGAGTATCCCCGTATGAAAAATTAATATTT
TAGAAATAAAACCGGGAGTTGGAGTATCCCATAGAAAATAA
Found at i:10199 original size:50 final size:51
Alignment explanation
Indices: 10136--10232 Score: 139
Period size: 50 Copynumber: 1.9 Consensus size: 51
10126 TCCTCGATGA
10136 AAAATTGATGTTTT-AGAAATAAAATCGGAGTT-GGAGTAT-CCCGATTATAG
1 AAAATTGATGTTTTGA-AAATAAAATCGGAGTTGGGA-TATCCCCGATTATAG
10186 AAAATT-AGTGTTTTGAAAATAAAATCGGAGTTGGGATATCCCCGATT
1 AAAATTGA-TGTTTTGAAAATAAAATCGGAGTTGGGATATCCCCGATT
10233 GCGGAGAATC
Statistics
Matches: 43, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
49 1 0.02
50 31 0.72
51 11 0.26
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (51 bp):
AAAATTGATGTTTTGAAAATAAAATCGGAGTTGGGATATCCCCGATTATAG
Found at i:12683 original size:13 final size:13
Alignment explanation
Indices: 12661--12750 Score: 63
Period size: 13 Copynumber: 6.0 Consensus size: 13
12651 GGCAGTAGCT
*
12661 TTGTAGCGATACA
1 TTGTATCGATACA
12674 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
12690 CTTATGTATCGATACA
1 --T-TGTATCGATACA
12706 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
12722 CTTATGTATCGATACA
1 --T-TGTATCGATACA
12738 TTGTATCGATACA
1 TTGTATCGATACA
12751 ATACTTATGT
Statistics
Matches: 64, Mismatches: 1, Indels: 24
0.72 0.01 0.27
Matches are distributed among these distances:
13 30 0.47
14 2 0.03
16 12 0.19
18 2 0.03
19 18 0.28
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.34
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:12699 original size:19 final size:19
Alignment explanation
Indices: 12675--12770 Score: 99
Period size: 19 Copynumber: 5.7 Consensus size: 19
12665 AGCGATACAT
12675 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
12694 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
12707 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
12726 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
12739 TGTATCGATACAATACTTA
1 TGTATCGATACAACACTTA
12758 TGTATCGATACAA
1 TGTATCGATACAA
12771 ATCGCTGAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 24
0.72 0.01 0.27
Matches are distributed among these distances:
13 18 0.28
14 2 0.03
16 11 0.17
18 2 0.03
19 31 0.48
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:12708 original size:32 final size:32
Alignment explanation
Indices: 12662--12769 Score: 198
Period size: 32 Copynumber: 3.4 Consensus size: 32
12652 GCAGTAGCTT
*
12662 TGTAGCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
12694 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
*
12726 TGTATCGATACATTGTATCGATACAATACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
12758 TGTATCGATACA
1 TGTATCGATACA
12770 AATCGCTGAA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 74 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:12833 original size:21 final size:21
Alignment explanation
Indices: 12807--12848 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
12797 GTTGGGACCT
*
12807 TGTATCGATACATTTGTATAA
1 TGTATCGATACATTTGGATAA
12828 TGTATCGATACATTTGGATAA
1 TGTATCGATACATTTGGATAA
12849 ATTTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTTGGATAA
Found at i:13632 original size:55 final size:54
Alignment explanation
Indices: 13548--13912 Score: 500
Period size: 55 Copynumber: 6.6 Consensus size: 54
13538 ATAAAGTGTA
* * * *
13548 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTAGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
13603 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
13658 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAATTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
13713 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AGGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGA-AAGGTG
* * *
13768 TCCTGCTCTTTAAGGACTGGAAAATGCTACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
13823 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGGG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
13878 TCCTGCTCTTTGGGGATTGAAAGGTGCCACCAACT
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACT
13913 CTGAGTTCCT
Statistics
Matches: 280, Mismatches: 21, Indels: 18
0.88 0.07 0.06
Matches are distributed among these distances:
54 14 0.05
55 255 0.91
56 11 0.04
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:13824 original size:165 final size:165
Alignment explanation
Indices: 13548--13913 Score: 567
Period size: 165 Copynumber: 2.2 Consensus size: 165
13538 ATAAAGTGTA
* * *
13548 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTAGGCTTTGAAAGGCGTCCTGCTCTT
1 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTCGTGTAGGCTTTGAAAGGCGTCCTGCTCTT
* *
13613 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGG
66 TAAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGG
* *
13678 AAAATGCCACCAATTTGTGTGGGCTTTGAAAGGTG
131 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGGG
* * * *
13713 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AGGAGGTGTCCTGCTCT
1 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTCGTGTAGGCTTTGA-AAGGCGTCCTGCTCT
*
13777 TTAAGGACTGGAAA-ATGCTACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGAC
65 TTAAGGACT-GAAAGATGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGAC
13840 TGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGGG
128 TGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGGG
*
13878 TCCTGCTCTTTGGGGATTGAAAGGTGCCACCAACTC
1 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTC
13914 TGAGTTCCTC
Statistics
Matches: 184, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
164 1 0.01
165 177 0.96
166 6 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (165 bp):
TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTCGTGTAGGCTTTGAAAGGCGTCCTGCTCTT
TAAGGACTGAAAGATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGG
AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGGG
Found at i:22005 original size:79 final size:79
Alignment explanation
Indices: 21905--22106 Score: 237
Period size: 79 Copynumber: 2.6 Consensus size: 79
21895 TAATAACAGT
* * * *
21905 TTGGAGTATCCCCTT-GAAAATAATGGGGTTGGAGTATCCCCGGTTGTGAGAAATCGATGATTAG
1 TTGGAGTAT-CCCTTCGGAAATAATGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTAG
**
21969 GA-AATAAAATTGGGA
64 GAGAATAAAACCGGGA
* * **
21984 TTTGAGTATCCCTTCGGAAATAATGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGA
1 TTGGAGTATCCCTTCGGAAATAATGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTAGGA
* *
22049 GAATAAAGCCGGGG
66 GAATAAAACCGGGA
* **
22063 TTGGAGTATCCCCTCGGAGGTAATGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCTTCGGAAATAATGGGGTTGGAGTATCCCCGAT
22107 GAAATAATGA
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
78 10 0.10
79 94 0.90
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (79 bp):
TTGGAGTATCCCTTCGGAAATAATGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTAGGA
GAATAAAACCGGGA
Found at i:22114 original size:28 final size:28
Alignment explanation
Indices: 22059--22134 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
22049 GAATAAAGCC
*** **
22059 GGGGTTGGAGTATCCCCTCGGAGGTAAT
1 GGGGTTGGAGTATCCCCGATGAAATAAT
22087 GGGGTTGGAGTATCCCCGATGAAATAAT
1 GGGGTTGGAGTATCCCCGATGAAATAAT
* *
22115 GAGGTTGGAGTATCCTCGAT
1 GGGGTTGGAGTATCCCCGAT
22135 TGTGAAAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAT
Found at i:22187 original size:52 final size:51
Alignment explanation
Indices: 22122--22250 Score: 159
Period size: 52 Copynumber: 2.5 Consensus size: 51
22112 AATGAGGTTG
* * * *
22122 GAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAAAATTGGTG-TTTTGAAAATAAAACCGGAGTTA
* * * *
22174 GAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTG
1 GAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGAAAATAAAACCGGAGTTA
*
22226 GAGTATCCCCGATTATGAACAATTG
1 GAGTATCCCCGATTATGAAAAATTG
22251 AGAAACTTAA
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
51 8 0.12
52 46 0.71
53 11 0.17
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
GAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAACCGGAGTTA
Found at i:24628 original size:13 final size:13
Alignment explanation
Indices: 24610--24635 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24600 ACAAAGATCG
24610 ATGTATCGATACA
1 ATGTATCGATACA
24623 ATGTATCGATACA
1 ATGTATCGATACA
24636 TTTCCTTAAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:24646 original size:21 final size:21
Alignment explanation
Indices: 24622--24663 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
24612 GTATCGATAC
24622 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
24643 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
24664 GGTAGTAGCT
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:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:24698 original size:13 final size:13
Alignment explanation
Indices: 24680--24731 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
24670 AGCTTCGTAG
24680 CGATACATTGTAT
1 CGATACATTGTAT
24693 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
24712 CGATACATTGTAT
1 CGATACATTGTAT
24725 CGATACA
1 CGATACA
24732 ACACTTATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:24712 original size:19 final size:18
Alignment explanation
Indices: 24688--24750 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
24678 AGCGATACAT
24688 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
24707 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
24720 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
24739 TATATCGATACA
1 TGTATCGATACA
24751 TTTACGGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
16 2 0.05
18 1 0.03
19 22 0.59
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:24721 original size:32 final size:32
Alignment explanation
Indices: 24680--24752 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
24670 AGCTTCGTAG
*
24680 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATATAT
*
24712 CGATACATTGTATCGATACAACACTTATATAT
1 CGATACATTGTATCGATACAAAACTTATATAT
24744 CGATACATT
1 CGATACATT
24753 TACGGTTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATATAT
Found at i:29277 original size:88 final size:85
Alignment explanation
Indices: 29171--29526 Score: 295
Period size: 88 Copynumber: 4.0 Consensus size: 85
29161 TTTTTTATGA
* * *
29171 AGAACGAGGTTGGAGTATCCTTTCGGAATAATGGGGATCGAAGTTTCCCCAAGGATAAAATTATA
1 AGAACG-GG-TGGAGTATCCCTTCAGAATAATGGGGAT-GGAGTTTCCCCAAGGATAAAATTATA
29236 TAAAGGAAAATTTGAAATTTTGTT
63 TAAA-GAAAATTTGAAATTTTGTT
** * * * * ** *
29260 AGAACGGAGTAAAGTATCCCCTCAAAATAGTGGGGATGGAGGTTCCTTAAGAATAAAATTATATG
1 AGAACGG-GTGGAGTATCCCTTCAGAATAATGGGGATGGAGTTTCCCCAAGGATAAAATTATAT-
*
29325 AAAGAAAATTTAAAATTTTGTT
64 AAAGAAAATTTGAAATTTTGTT
* * * * * ** *
29347 AAAACAAGGTTGGAGTATCCCTT-GGAAAAAGTGGCGATGGAGTTTCCTTAAGGATAGAATTATA
1 AGAAC--GGGTGGAGTATCCCTTCAGAATAA-TGGGGATGGAGTTTCCCCAAGGATAAAATTATA
*
29411 CGAAAGAAAATTTGAAATTTTGTT
63 -TAAAGAAAATTTGAAATTTTGTT
* * * * *
29435 AGAATGGGGTTGGAGT-GCCCTTTCAGAATAGTAGGGATGGCA-TTTCCCCAAGGATATAATTAT
1 AGAA-CGGG-TGGAGTATCCC-TTCAGAATAATGGGGATGG-AGTTTCCCCAAGGATAAAATTAT
* *
29498 ACAAAGAAGAATTTGAAATCTTGTT
62 ATAAAGAA-AATTTGAAATTTTGTT
29523 AGAA
1 AGAA
29527 TAGGGTTGCA
Statistics
Matches: 213, Mismatches: 42, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
87 58 0.27
88 141 0.66
89 14 0.07
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.29
Consensus pattern (85 bp):
AGAACGGGTGGAGTATCCCTTCAGAATAATGGGGATGGAGTTTCCCCAAGGATAAAATTATATAA
AGAAAATTTGAAATTTTGTT
Found at i:35529 original size:18 final size:19
Alignment explanation
Indices: 35506--35550 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
35496 TTTGAGGATA
*
35506 ATACATTTGA-GGTAGGGG
1 ATACATTTGATGGTAGAGG
35524 ATACATTT-ATGGTAGAGG
1 ATACATTTGATGGTAGAGG
*
35542 ATATATTTG
1 ATACATTTG
35551 GGATTGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.31, C:0.04, G:0.29, T:0.36
Consensus pattern (19 bp):
ATACATTTGATGGTAGAGG
Found at i:37552 original size:25 final size:25
Alignment explanation
Indices: 37524--37574 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
37514 CTTTTGCAGC
37524 ACTTTGCTTCTTCCTAATATTCTTA
1 ACTTTGCTTCTTCCTAATATTCTTA
37549 ACTTTGCTTCTTCCTAATATTCTTA
1 ACTTTGCTTCTTCCTAATATTCTTA
37574 A
1 A
37575 GGCACAAGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.22, C:0.24, G:0.04, T:0.51
Consensus pattern (25 bp):
ACTTTGCTTCTTCCTAATATTCTTA
Found at i:38468 original size:13 final size:13
Alignment explanation
Indices: 38450--38475 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38440 CAATTTTTTG
38450 TGTATCGATACAT
1 TGTATCGATACAT
38463 TGTATCGATACAT
1 TGTATCGATACAT
38476 ACTTGCTGTA
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:40875 original size:21 final size:21
Alignment explanation
Indices: 40851--40897 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
40841 TTTGATGCTG
40851 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
40871 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
40892 ATTTTG
1 ATTTTG
40898 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:41042 original size:20 final size:20
Alignment explanation
Indices: 41017--41093 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
41007 ATAATCACCC
41017 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
* *
41037 TGTATCGATACATAGAATTTCCAGA
1 TGTATCGATACAAAGAA-----AAA
* *
41062 TGTATCGATACACAGAAACA
1 TGTATCGATACAAAGAAAAA
41082 TGTATCGATACA
1 TGTATCGATACA
41094 TTTTGGACAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
20 30 0.62
25 18 0.38
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:43128 original size:15 final size:15
Alignment explanation
Indices: 43108--43138 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
43098 ATTTCGTTTG
*
43108 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
43123 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
43138 G
1 G
43139 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:44971 original size:21 final size:21
Alignment explanation
Indices: 44942--44986 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
44932 AAGTTTTCAT
*
44942 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
44962 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
44984 TTT
1 TTT
44987 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:47220 original size:13 final size:13
Alignment explanation
Indices: 47202--47227 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47192 CAATTTTTTG
47202 TGTATCGATACAT
1 TGTATCGATACAT
47215 TGTATCGATACAT
1 TGTATCGATACAT
47228 ACTTGCTGTA
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:49093 original size:3 final size:3
Alignment explanation
Indices: 49085--49126 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
49075 TATGTATTAC
49085 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
49127 TAAAAATTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:49490 original size:19 final size:19
Alignment explanation
Indices: 49457--49507 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
49447 AAATTCAAAT
*
49457 ATAAATTATAAAATAATAAA
1 ATAAA-TATATAATAATAAA
*
49477 ATAAATATATAATAATTAA
1 ATAAATATATAATAATAAA
*
49496 ATACATAT-TAAT
1 ATAAATATATAAT
49508 TCCTTCTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 4 0.14
19 19 0.68
20 5 0.18
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAAATATATAATAATAAA
Found at i:49636 original size:16 final size:16
Alignment explanation
Indices: 49612--49645 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
49602 TATCACCATT
*
49612 ATTTCTAAAAAAATTA
1 ATTTATAAAAAAATTA
49628 ATTTATAAAAAAATTA
1 ATTTATAAAAAAATTA
49644 AT
1 AT
49646 AAAATTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTTATAAAAAAATTA
Found at i:49670 original size:24 final size:25
Alignment explanation
Indices: 49621--49694 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 25
49611 TATTTCTAAA
*
49621 AAAATTAATTTATAAAAAAATTAAT
1 AAAATTAATTCATAAAAAAATTAAT
49646 AAAATT-ATTCAT-AAAAAATTGAAT
1 AAAATTAATTCATAAAAAAATT-AAT
* * *
49670 AAAATTTTATTTATCAAAAAATTAA
1 AAAA-TTAATTCATAAAAAAATTAA
49695 AAATTTATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.19
24 12 0.28
25 8 0.19
26 7 0.16
27 8 0.19
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.36
Consensus pattern (25 bp):
AAAATTAATTCATAAAAAAATTAAT
Found at i:49704 original size:23 final size:22
Alignment explanation
Indices: 49620--49706 Score: 84
Period size: 23 Copynumber: 3.6 Consensus size: 22
49610 TTATTTCTAA
*
49620 AAAAATTAATTTATAAAAAAATT
1 AAAAATTTATTTAT-AAAAAATT
* *
49643 AATAAAATTATTCATAAAAAATT
1 AA-AAATTTATTTATAAAAAATT
49666 GAATAAAATTTTATTTATCAAAAAATT
1 --A-AAAA-TTTATTTAT-AAAAAATT
49693 AAAAATTTATTTAT
1 AAAAATTTATTTAT
49707 TCACCTCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
23 19 0.36
24 13 0.25
25 5 0.09
26 8 0.15
27 8 0.15
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.39
Consensus pattern (22 bp):
AAAAATTTATTTATAAAAAATT
Found at i:50315 original size:14 final size:15
Alignment explanation
Indices: 50296--50325 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
50286 CTAGATTGGA
50296 TTTTGTTTTT-TTTT
1 TTTTGTTTTTGTTTT
50310 TTTTGTTTTTGTTTT
1 TTTTGTTTTTGTTTT
50325 T
1 T
50326 GTTCTTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (15 bp):
TTTTGTTTTTGTTTT
Found at i:53501 original size:21 final size:21
Alignment explanation
Indices: 53453--53497 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
53443 AATTTGTATC
53453 TTTCTATCCAACAAATGCATTA
1 TTTC-ATCCAACAAATGCATTA
53475 TTTCATCCAATC-AATGCA-TA
1 TTTCATCCAA-CAAATGCATTA
53495 TTT
1 TTT
53498 TCATTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.23
21 12 0.55
22 5 0.23
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.40
Consensus pattern (21 bp):
TTTCATCCAACAAATGCATTA
Found at i:58929 original size:106 final size:105
Alignment explanation
Indices: 58745--58943 Score: 362
Period size: 106 Copynumber: 1.9 Consensus size: 105
58735 GTATTGTTAA
* *
58745 ATTACCTTTAAAACCCTCAAAATATGATCATTGGAGGACAAGGTGTCAATACATTAAAATATTGC
1 ATTACCTTTAAAACCCTCAAAATATGATCATTAGAGGACAAGGTGTCAATACATTAAAAGATTGC
58810 ATCGATACATGACTCAAGGTATTTTACAAGGTGTTAATAC
66 ATCGATACATGACTCAAGGTATTTTACAAGGTGTTAATAC
58850 ATTACCTTTAAAACCCTCAAAATTATGATCATTAGAGGACAAGGTGTCAATACATTAAAAGATTG
1 ATTACCTTTAAAACCCTCAAAA-TATGATCATTAGAGGACAAGGTGTCAATACATTAAAAGATTG
*
58915 CATCGATACATGACTCAAGGTTTTTTACA
65 CATCGATACATGACTCAAGGTATTTTACA
58944 TTATGCTTGT
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
105 22 0.24
106 68 0.76
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.31
Consensus pattern (105 bp):
ATTACCTTTAAAACCCTCAAAATATGATCATTAGAGGACAAGGTGTCAATACATTAAAAGATTGC
ATCGATACATGACTCAAGGTATTTTACAAGGTGTTAATAC
Found at i:60034 original size:20 final size:19
Alignment explanation
Indices: 60009--60065 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
59999 TTACCAGTTT
*
60009 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAA
*
60029 CATGTATTTGATACAATGAA
1 CATGTA-TCGATACAATGAA
*
60049 CATGTATCGATAAAATG
1 CATGTATCGATACAATG
60066 TATCAATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 9 0.28
20 15 0.47
21 8 0.25
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:60726 original size:21 final size:21
Alignment explanation
Indices: 60702--60743 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
60692 TTCAATAAAA
60702 CTCCCTCTTAATAAAATAATT
1 CTCCCTCTTAATAAAATAATT
*
60723 CTCCCTCTTGATAAAATAATT
1 CTCCCTCTTAATAAAATAATT
60744 AAAGGTGTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (21 bp):
CTCCCTCTTAATAAAATAATT
Found at i:62459 original size:21 final size:20
Alignment explanation
Indices: 62414--62461 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
62404 TTTGATGAAG
62414 ATTTTGATGAAAAATAGATA
1 ATTTTGATGAAAAATAGATA
* *
62434 GTTTTGATGTGAAAA-AGATGA
1 ATTTTGATG-AAAAATAGAT-A
62455 ATTTTGA
1 ATTTTGA
62462 AAAGGATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.38
Consensus pattern (20 bp):
ATTTTGATGAAAAATAGATA
Found at i:72167 original size:16 final size:16
Alignment explanation
Indices: 72142--72175 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
72132 GATACTTTTT
72142 ATAATATATCGATACA
1 ATAATATATCGATACA
*
72158 ATAATGTATCGATACA
1 ATAATATATCGATACA
72174 AT
1 AT
72176 GTCCCATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (16 bp):
ATAATATATCGATACA
Found at i:72266 original size:19 final size:20
Alignment explanation
Indices: 72223--72274 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
72213 TGCCAGTTTC
* *
72223 ATGTATCGATACAATTGAGT
1 ATGTATCGATACAATTAAAT
72243 ATGTATCGATACAA-TAAAT
1 ATGTATCGATACAATTAAAT
72262 ATGTATCGATACA
1 ATGTATCGATACA
72275 TTGTATCGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATTAAAT
Found at i:72281 original size:13 final size:13
Alignment explanation
Indices: 72263--72287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72253 ACAATAAATA
72263 TGTATCGATACAT
1 TGTATCGATACAT
72276 TGTATCGATACA
1 TGTATCGATACA
72288 AAGTATCATG
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:72306 original size:33 final size:32
Alignment explanation
Indices: 72244--72308 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
72234 CAATTGAGTA
*
72244 TGTATCGATACAATAAATATGTATCGATACAT
1 TGTATCGATACAATAAATATGTATAGATACAT
*
72276 TGTATCGATACAA-AGTATCATGTATAGATACAT
1 TGTATCGATACAATA-AAT-ATGTATAGATACAT
72309 CTAGATATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 1 0.03
32 15 0.52
33 13 0.45
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (32 bp):
TGTATCGATACAATAAATATGTATAGATACAT
Found at i:75823 original size:51 final size:50
Alignment explanation
Indices: 75763--75908 Score: 186
Period size: 51 Copynumber: 2.9 Consensus size: 50
75753 AATTTTCTAG
75763 ATGTATCGATACATTGAAAAATGTATCAATACATCTGGGTAAAAAG-ATAGA
1 ATGTATCGATACATTGAAAAATGTATCAATACATCTGGGTAAAAAGCA-A-A
* * * * * *
75814 ATGTATCGATACAGTAAAAAATTTATCGATACATTTGGGTAAAAGGCAAA
1 ATGTATCGATACATTGAAAAATGTATCAATACATCTGGGTAAAAAGCAAA
* * *
75864 ATGTATCGATACGTTGAAAAATGTATCAATGCACCTGGGTAAAAA
1 ATGTATCGATACATTGAAAAATGTATCAATACATCTGGGTAAAAA
75909 TGTGATTTTT
Statistics
Matches: 79, Mismatches: 15, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
50 37 0.47
51 41 0.52
52 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.27
Consensus pattern (50 bp):
ATGTATCGATACATTGAAAAATGTATCAATACATCTGGGTAAAAAGCAAA
Found at i:78683 original size:33 final size:33
Alignment explanation
Indices: 78646--78727 Score: 146
Period size: 33 Copynumber: 2.5 Consensus size: 33
78636 GTTTTACCCA
*
78646 AATGTATCGATACATTGTTCACTATATCGATAC
1 AATGTATCGATACATTGTTCACTATATCAATAC
*
78679 AATGTATCGATACATTGTTCACTGTATCAATAC
1 AATGTATCGATACATTGTTCACTATATCAATAC
78712 AATGTATCGATACATT
1 AATGTATCGATACATT
78728 CAGGTATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (33 bp):
AATGTATCGATACATTGTTCACTATATCAATAC
Found at i:78688 original size:13 final size:13
Alignment explanation
Indices: 78670--78725 Score: 52
Period size: 13 Copynumber: 4.8 Consensus size: 13
78660 TTGTTCACTA
78670 TATCGATACAATG
1 TATCGATACAATG
*
78683 TATCGATACATTG
1 TATCGATACAATG
78696 T-TC---AC--TG
1 TATCGATACAATG
*
78703 TATCAATACAATG
1 TATCGATACAATG
78716 TATCGATACA
1 TATCGATACA
78726 TTCAGGTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
7 3 0.09
8 2 0.06
9 2 0.06
11 2 0.06
12 2 0.06
13 24 0.69
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:78706 original size:20 final size:20
Alignment explanation
Indices: 78648--78712 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 20
78638 TTTACCCAAA
78648 TGTATCGATACATTGTTCAC
1 TGTATCGATACATTGTTCAC
*
78668 TATATCGATACA------A-
1 TGTATCGATACATTGTTCAC
78681 TGTATCGATACATTGTTCAC
1 TGTATCGATACATTGTTCAC
*
78701 TGTATCAATACA
1 TGTATCGATACA
78713 ATGTATCGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
13 11 0.31
14 1 0.03
19 1 0.03
20 22 0.63
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATTGTTCAC
Found at i:81128 original size:50 final size:50
Alignment explanation
Indices: 81012--81133 Score: 147
Period size: 50 Copynumber: 2.4 Consensus size: 50
81002 GAATTTCTAG
* * * * **
81012 ATTTTTCATCTCGAGGATACTCTAACCCCGGCTTTATTTCTAAAATATTG
1 ATTTTTCATCTCGGGGATACTCTAACCCCGGATTTATTTCCAAAACATCA
* *
81062 ATTTTTCATCTAGGGGATACTCTAACCCC-GATTTTTTTCCAAAACATCA
1 ATTTTTCATCTCGGGGATACTCTAACCCCGGATTTATTTCCAAAACATCA
*
81111 ATTTTTCATAATCGGGGATACTC
1 ATTTTTCAT-CTCGGGGATACTC
81134 CAATCCCGTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
49 23 0.38
50 38 0.62
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (50 bp):
ATTTTTCATCTCGGGGATACTCTAACCCCGGATTTATTTCCAAAACATCA
Found at i:81221 original size:79 final size:78
Alignment explanation
Indices: 81073--81460 Score: 354
Period size: 79 Copynumber: 4.9 Consensus size: 78
81063 TTTTTCATCT
* * * * *
81073 AGGGGATACTCTAACCCC-GATTTTTTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAA
1 AGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCGA-TTTTCATAATCGGGGATACTCCAA
*
81137 TCCCGTTA-TTTCTG
65 CCCCGTTATTTTC-G
* * * *
81151 AGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTATCACAATTGGGGATACTCCAA
1 AGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCGATTT-TCATAATCGGGGATACTCCAA
*
81216 CCCCGTTATTTTGG
65 CCCCGTTATTTTCG
* * * * *
81230 TGGGGATACTCC-ACACTCGGCCTTATTTCTAAAAGCATCGATTTTCCACAATCGGGGATACTCA
1 AGGGGATACTCCAAC-CCCGGCTTTATTTCTAAAA-CATCGATTTT-CATAATCGGGGATACTCC
*
81294 AACCTCGTTATTTTCG
63 AACCCCGTTATTTTCG
* ** ** * ** *
81310 AGGGGATACTCCAACCTCGATTTTATTT-TCAAAACGCCAATTTTCTATAATCAAGGATACTCTA
1 AGGGGATACTCCAACCCCGGCTTTATTTCT-AAAACATCGATTTTC-ATAATCGGGGATACTCCA
* *
81374 ACCCTGTTATTTCCG
64 ACCCCGTTATTTTCG
* * ** *
81389 AGGGGATACTCCAACGCTGATTTTATTTCCAAAACA-CTGATTTTTCATAATCGGGGATACTCCA
1 AGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATC-GA-TTTTCATAATCGGGGATACTCCA
81453 ACCCCGTT
64 ACCCCGTT
81461 GTTATCCCCA
Statistics
Matches: 254, Mismatches: 44, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
78 24 0.09
79 158 0.62
80 70 0.28
81 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (78 bp):
AGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCGATTTTCATAATCGGGGATACTCCAAC
CCCGTTATTTTCG
Found at i:81415 original size:159 final size:157
Alignment explanation
Indices: 81073--81456 Score: 384
Period size: 159 Copynumber: 2.4 Consensus size: 157
81063 TTTTTCATCT
* * * *
81073 AGGGGATACTCTAACCCCGATTTT-TTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAA
1 AGGGGATACTCCAACACTGATTTTATTTCCAAAACATCGATTTTTCATAATCGGGGATACT-CAA
* * * ***
81137 TCCCGTTATTTCTGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTATCACAAT
65 ACCCGTTATTTCTGAGGGGATACTCCAACCCCGACTTTATTTCTAAAACACCAATTTATCACAAT
*** **
81202 TGGGGATACTCCAACCCCGTTATTTTGG
130 CAAGGATACTCCAACCCCGTTATTTCCG
* *** * * *
81230 TGGGGATACTCC-ACACTCGGCCTTATTTCTAAAAGCATCGATTTTCCACAATCGGGGATACTCA
1 AGGGGATACTCCAACACT-GATTTTATTTCCAAAA-CATCGATTTTTCATAATCGGGGATACTCA
* * *
81294 AACCTCGTTATTT-TCGAGGGGATACTCCAACCTCGATTTTATTT-TCAAAACGCCAATTT-TCT
64 AACC-CGTTATTTCT-GAGGGGATACTCCAACCCCGACTTTATTTCT-AAAACACCAATTTATC-
* * *
81356 ATAATCAAGGATACTCTAACCCTGTTATTTCCG
125 ACAATCAAGGATACTCCAACCCCGTTATTTCCG
* *
81389 AGGGGATACTCCAACGCTGATTTTATTTCCAAAACA-CTGATTTTTCATAATCGGGGATACTCCA
1 AGGGGATACTCCAACACTGATTTTATTTCCAAAACATC-GATTTTTCATAATCGGGGATACTCAA
81453 ACCC
65 ACCC
81457 CGTTGTTATC
Statistics
Matches: 181, Mismatches: 37, Indels: 18
0.77 0.16 0.08
Matches are distributed among these distances:
156 3 0.02
157 15 0.08
158 45 0.25
159 114 0.63
160 4 0.02
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (157 bp):
AGGGGATACTCCAACACTGATTTTATTTCCAAAACATCGATTTTTCATAATCGGGGATACTCAAA
CCCGTTATTTCTGAGGGGATACTCCAACCCCGACTTTATTTCTAAAACACCAATTTATCACAATC
AAGGATACTCCAACCCCGTTATTTCCG
Found at i:83540 original size:4 final size:4
Alignment explanation
Indices: 83531--83569 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
83521 TTGTGAGGTG
* * *
83531 TTTA TTTA TTTG TTTA TTTA TTTA TTTG TTTT TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
83570 TGTACAGTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (4 bp):
TTTA
Found at i:83552 original size:16 final size:16
Alignment explanation
Indices: 83531--83569 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
83521 TTGTGAGGTG
83531 TTTATTTATTTGTTTA
1 TTTATTTATTTGTTTA
*
83547 TTTATTTATTTGTTTT
1 TTTATTTATTTGTTTA
83563 TTTATTT
1 TTTATTT
83570 TGTACAGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (16 bp):
TTTATTTATTTGTTTA
Found at i:84585 original size:27 final size:27
Alignment explanation
Indices: 84547--84612 Score: 123
Period size: 27 Copynumber: 2.4 Consensus size: 27
84537 CAAAGCTGTT
84547 GAAAAGGAATGGCTTCAAGACAAGTCC
1 GAAAAGGAATGGCTTCAAGACAAGTCC
84574 GAAAAGGAATGGCTTCAAGACAAGTCC
1 GAAAAGGAATGGCTTCAAGACAAGTCC
*
84601 GAAAAGCAATGG
1 GAAAAGGAATGG
84613 GTCCAGAGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.42, C:0.17, G:0.27, T:0.14
Consensus pattern (27 bp):
GAAAAGGAATGGCTTCAAGACAAGTCC
Found at i:85657 original size:50 final size:50
Alignment explanation
Indices: 85571--85702 Score: 140
Period size: 50 Copynumber: 2.6 Consensus size: 50
85561 TGAATTTCTA
* * * * *
85571 GATTTTTCATCTAGGGATGCTCCAACCCCGGCTTTATTT-CTAAAATATT
1 GATTTTTCATCTCGGGATACTCCAACCCCGGCTTTATTTCCAAAAACATC
* *
85620 GATTTTTCATCTCGAGGATACTCCAACCTCGGTTTTATTTCCAAAAACATC
1 GATTTTTCATCTCG-GGATACTCCAACCCCGGCTTTATTTCCAAAAACATC
* * *
85671 AATTTTTCATAATCGGGGATACTCCAATCCCG
1 GATTTTTCAT-CTC-GGGATACTCCAACCCCG
85703 TTATTTCTGA
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
49 13 0.19
50 22 0.32
51 16 0.24
52 16 0.24
53 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (50 bp):
GATTTTTCATCTCGGGATACTCCAACCCCGGCTTTATTTCCAAAAACATC
Found at i:85867 original size:80 final size:78
Alignment explanation
Indices: 85635--85881 Score: 305
Period size: 79 Copynumber: 3.1 Consensus size: 78
85625 TTCATCTCGA
* * * * *
85635 GGATACTCCAACCTCGGTTTTATTTCCAAAAACATCAATTTTTCATAATCGGGGATACTCCAATC
1 GGATACTCCAACCTCGGCTTTATTT-CTAAAACATCGATTTTTCACAATCGGGGATACTCCAACC
85700 CCGTTATTTCTGAAG
65 CCGTTATTT-TGAAG
* * * *
85715 GGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCC
1 GGATACTCCAACCTCGGCTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACCC
*** **
85780 TAATATTTTGGCGG
66 CGTTATTTT-GAAG
*
85794 GGATACTCCAACCTCGGCCTTATTTCTAAAAGCATCGATTTTTCACAATCGGGGATACTCCAACC
1 GGATACTCCAACCTCGGCTTTATTTCTAAAA-CATCGATTTTTCACAATCGGGGATACTCCAACC
*
85859 CCGTTATTTTCAAG
65 CCGTTATTTTGAAG
85873 GAGATACTC
1 G-GATACTC
85882 TAACTCCAAT
Statistics
Matches: 139, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 1 0.01
79 71 0.51
80 67 0.48
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (78 bp):
GGATACTCCAACCTCGGCTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACCC
CGTTATTTTGAAG
Found at i:85897 original size:80 final size:78
Alignment explanation
Indices: 85635--85978 Score: 277
Period size: 79 Copynumber: 4.3 Consensus size: 78
85625 TTCATCTCGA
* * * * * *
85635 GGATACTCCAACCTCGGTTTTATTTCCAAAAACATCAATTTTTCATAATCGGGGATACTCCAATC
1 GGATACTCCAACC-CGATTTTATTTCTAAAAGCATCGATTTTTCACAATCGGGGATACTCCAACC
*
85700 CCGTTATTTCTGAAG
65 CCGTTATTT-TCAAG
** * * *
85715 GGATACTCCAACCCCGGCTTTATTTCTAAAA-TATTGATTTCTCACAATCGGGGATACTCCAACC
1 GGATACTCCAA-CCCGATTTTATTTCTAAAAGCATCGATTTTTCACAATCGGGGATACTCCAACC
*** *
85779 CTAATATTTTGGC-GG
65 CCGTTATTTT--CAAG
***
85794 GGATACTCCAACCTCGGCCTTATTTCTAAAAGCATCGATTTTTCACAATCGGGGATACTCCAACC
1 GGATACTCCAACC-CGATTTTATTTCTAAAAGCATCGATTTTTCACAATCGGGGATACTCCAACC
85859 CCGTTATTTTCAAG
65 CCGTTATTTTCAAG
* * * **
85873 GAGATACTCTAACTCCAATTTTATTT-TCAAAATG--TCGA-TTTTCTATAATCATGGATACTCC
1 G-GATACTCCAAC-CCGATTTTATTTCT-AAAA-GCATCGATTTTTC-ACAATCGGGGATACTCC
* *
85934 AACCCTGTTATTTTCGAG
61 AACCCCGTTATTTTCAAG
* *
85952 GGAATACTCTAACGCTGATTTTATTTC
1 GG-ATACTCCAAC-CCGATTTTATTTC
85979 AGAACACCGA
Statistics
Matches: 217, Mismatches: 34, Indels: 26
0.78 0.12 0.09
Matches are distributed among these distances:
78 10 0.05
79 119 0.55
80 84 0.39
81 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (78 bp):
GGATACTCCAACCCGATTTTATTTCTAAAAGCATCGATTTTTCACAATCGGGGATACTCCAACCC
CGTTATTTTCAAG
Found at i:85947 original size:159 final size:159
Alignment explanation
Indices: 85635--85939 Score: 400
Period size: 159 Copynumber: 1.9 Consensus size: 159
85625 TTCATCTCGA
** * *
85635 GGATACTCCAACCTCGGTTTTATTTCCAAAAACATCAATTTTTCATAATCGGGGATACTCCAATC
1 GGATACTCCAACCTCGGCCTTATTTCCAAAAACATCAATTTTTCACAATCGGGGATACTCCAACC
* ** * *
85700 CCGTTATTTCTGAAGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCG
66 CCGTTATTTCTCAAGGGATACTCCAACCCCAACTTTATTTCTAAAATATCGATTTCTCACAATCA
85765 GGGATACTCCAACCCTAATATTTTGGCGG
131 GGGATACTCCAACCCTAATATTTTGGCGG
* * *
85794 GGATACTCCAACCTCGGCCTTATTTCTAAAAGCATCGATTTTTCACAATCGGGGATACTCCAACC
1 GGATACTCCAACCTCGGCCTTATTTCCAAAAACATCAATTTTTCACAATCGGGGATACTCCAACC
* * * * *
85859 CCGTTATTT-TCAAGGAGATACTCTAACTCCAATTTTATTT-TCAAAATGTCGATTT-TCTATAA
66 CCGTTATTTCTCAAGG-GATACTCCAACCCCAACTTTATTTCT-AAAATATCGATTTCTC-ACAA
*
85921 TCATGGATACTCCAACCCT
128 TCAGGGATACTCCAACCCT
85940 GTTATTTTCG
Statistics
Matches: 125, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
158 8 0.06
159 117 0.94
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (159 bp):
GGATACTCCAACCTCGGCCTTATTTCCAAAAACATCAATTTTTCACAATCGGGGATACTCCAACC
CCGTTATTTCTCAAGGGATACTCCAACCCCAACTTTATTTCTAAAATATCGATTTCTCACAATCA
GGGATACTCCAACCCTAATATTTTGGCGG
Found at i:85976 original size:159 final size:159
Alignment explanation
Indices: 85637--85978 Score: 386
Period size: 159 Copynumber: 2.2 Consensus size: 159
85627 CATCTCGAGG
* * *
85637 ATACTCCAACCTCGGTTTTATTTCCAAAAACATCAATTTTTCATAATCGGGGATACTCCAATCCC
1 ATACTCCAACCTCGATTTTATTTCCAAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCC
* ** * *
85702 GTTATTTCTGAAGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGGG
66 GTTATTTCTCAAGGGATACTCCAACCCCAACTTTATTTCTAAAATATCGATTTCTCACAATCAGG
* * *
85767 GATACTCCAACCCTAATATTTTGGCGGGG
131 GATACTCCAACCCTAATATTTTCGAGGGA
*** * * *
85796 ATACTCCAACCTCGGCCTTATTTCTAAAAGCATCGATTTTTCACAATCGGGGATACTCCAACCCC
1 ATACTCCAACCTCGATTTTATTTCCAAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCC
* * * * *
85861 GTTATTT-TCAAGGAGATACTCTAACTCCAATTTTATTT-TCAAAATGTCGATTT-TCTATAATC
66 GTTATTTCTCAAGG-GATACTCCAACCCCAACTTTATTTCT-AAAATATCGATTTCTC-ACAATC
* **
85923 ATGGATACTCCAACCCTGTTATTTTCGAGGGA
128 AGGGATACTCCAACCCTAATATTTTCGAGGGA
*
85955 ATACTCTAACGCT-GATTTTATTTC
1 ATACTCCAAC-CTCGATTTTATTTC
85979 AGAACACCGA
Statistics
Matches: 152, Mismatches: 27, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
158 8 0.05
159 142 0.93
160 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (159 bp):
ATACTCCAACCTCGATTTTATTTCCAAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCC
GTTATTTCTCAAGGGATACTCCAACCCCAACTTTATTTCTAAAATATCGATTTCTCACAATCAGG
GATACTCCAACCCTAATATTTTCGAGGGA
Found at i:88911 original size:18 final size:19
Alignment explanation
Indices: 88890--88935 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
88880 AAATTACTAA
88890 TTAATAATAAAATAAT-TT
1 TTAATAATAAAATAATATT
*
88908 TTAATACA-AAAATTATATT
1 TTAATA-ATAAAATAATATT
88927 TTAATAATA
1 TTAATAATA
88936 TAATTAGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
TTAATAATAAAATAATATT
Found at i:88940 original size:19 final size:18
Alignment explanation
Indices: 88890--88941 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
88880 AAATTACTAA
*
88890 TTAATAATAAAATAATTT
1 TTAATAATAAAATTATTT
88908 TTAATACA-AAAATTATATT
1 TTAATA-ATAAAATTAT-TT
*
88927 TTAATAATATAATTA
1 TTAATAATAAAATTA
88942 GTAGTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATAATAAAATTATTT
Found at i:89718 original size:28 final size:28
Alignment explanation
Indices: 89658--89727 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
89648 ACAATATAAG
*
89658 AAATAATTAAAATATGATATTATATATA
1 AAATAATTAAAATATGATATTATACATA
89686 AAATAA-TATAAATATGATATTA-ACATA
1 AAATAATTA-AAATATGATATTATACATA
*
89713 CGAATATATTAAAAT
1 -AAATA-ATTAAAAT
89728 TTATATAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
27 6 0.17
28 23 0.64
29 5 0.14
30 2 0.06
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (28 bp):
AAATAATTAAAATATGATATTATACATA
Found at i:90121 original size:20 final size:20
Alignment explanation
Indices: 90075--90117 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
90065 TCTTTTATTT
90075 ATTTATTTAAGCTTATAAAA
1 ATTTATTTAAGCTTATAAAA
* * *
90095 ATATATTTTAG-TTATTAAA
1 ATTTATTTAAGCTTATAAAA
90114 ATTT
1 ATTT
90118 TATTAATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (20 bp):
ATTTATTTAAGCTTATAAAA
Found at i:91697 original size:24 final size:23
Alignment explanation
Indices: 91665--91720 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
91655 GATAGTTTTT
91665 TTTTTAAAAA-AAATAACTAGGTA
1 TTTTTAAAAATAAATAACTA-GTA
**
91688 GTTTTTAAAAATAAATGGCTAGTA
1 -TTTTTAAAAATAAATAACTAGTA
91712 TTTTTAAAA
1 TTTTTAAAA
91721 GTAAGTGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 9 0.31
24 13 0.45
25 7 0.24
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (23 bp):
TTTTTAAAAATAAATAACTAGTA
Found at i:91698 original size:25 final size:23
Alignment explanation
Indices: 91664--91720 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 23
91654 TGATAGTTTT
*
91664 TTTTTTAAAAAAAATAACTAGGTA
1 TTTTTAAAAAAAAATAACTA-GTA
* **
91688 GTTTTTAAAAATAAATGGCTAGTA
1 -TTTTTAAAAAAAAATAACTAGTA
91712 TTTTTAAAA
1 TTTTTAAAA
91721 GTAAGTGGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 9 0.32
24 3 0.11
25 16 0.57
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.40
Consensus pattern (23 bp):
TTTTTAAAAAAAAATAACTAGTA
Found at i:91710 original size:21 final size:22
Alignment explanation
Indices: 91673--91720 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
91663 TTTTTTTAAA
*
91673 AAAAATAACTAGGTAGT-TTTT
1 AAAAATAAATAGGTAGTATTTT
91694 AAAAATAAAT-GGCTAGTATTTT
1 AAAAATAAATAGG-TAGTATTTT
*
91716 TAAAA
1 AAAAA
91721 GTAAGTGGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 2 0.09
21 13 0.57
22 8 0.35
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.35
Consensus pattern (22 bp):
AAAAATAAATAGGTAGTATTTT
Found at i:93803 original size:13 final size:13
Alignment explanation
Indices: 93785--93810 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93775 ATATTTTTTG
93785 TGTATCGATACAT
1 TGTATCGATACAT
93798 TGTATCGATACAT
1 TGTATCGATACAT
93811 ATTTTGTGTA
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:93821 original size:32 final size:33
Alignment explanation
Indices: 93764--93828 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
93754 TACAAGCCAA
93764 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
93798 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
93829 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:93822 original size:19 final size:19
Alignment explanation
Indices: 93764--93828 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
93754 TACAAGCCAA
93764 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
93785 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
93798 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
93817 TGTATCGATACA
1 TGTATCGATACA
93829 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:96375 original size:13 final size:13
Alignment explanation
Indices: 96357--96394 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
96347 ATAATCCCCC
96357 TGTATCGATACAG
1 TGTATCGATACAG
*
96370 TGTATCGATACAT
1 TGTATCGATACAG
96383 TGTATCGATACA
1 TGTATCGATACA
96395 AAGAAAAATG
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:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:98490 original size:15 final size:15
Alignment explanation
Indices: 98470--98500 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
98460 ATTTCGTTTG
*
98470 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
98485 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
98500 G
1 G
98501 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:102603 original size:32 final size:33
Alignment explanation
Indices: 102546--102610 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
102536 TACAAGCCAA
*
102546 TGTATTGATACATATTTTTTGTGTATCGATACAT
1 TGTATGGATACATA-TTTTTGTGTATCGATACAT
102580 TGTATGGATACATA-TTTTGTGTATCGATACA
1 TGTATGGATACATATTTTTGTGTATCGATACA
102611 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 17 0.57
34 13 0.43
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (33 bp):
TGTATGGATACATATTTTTGTGTATCGATACAT
Found at i:117731 original size:88 final size:88
Alignment explanation
Indices: 117632--117809 Score: 340
Period size: 88 Copynumber: 2.0 Consensus size: 88
117622 AAAAATATTA
117632 AATAAAATATGAATTTTAAATTTCATTTTTCATAAAAATAAAGAAAGAAAACAATATTATCTTAT
1 AATAAAATATGAATTTTAAATTTCATTTTTCATAAAAATAAAGAAAGAAAACAATATTATCTTAT
117697 AATTGATAAAC-ATCATTTGAAAC
66 AATTGATAAACAAT-ATTTGAAAC
117720 AATAAAATATGAATTTTAAATTTCATTTTTCATAAAAATAAAGAAAGAAAACAATATTATCTTAT
1 AATAAAATATGAATTTTAAATTTCATTTTTCATAAAAATAAAGAAAGAAAACAATATTATCTTAT
117785 AATTGATAAACAATATTTGAAAC
66 AATTGATAAACAATATTTGAAAC
117808 AA
1 AA
117810 ATATTTCTAG
Statistics
Matches: 89, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
88 87 0.98
89 2 0.02
ACGTcount: A:0.52, C:0.07, G:0.06, T:0.35
Consensus pattern (88 bp):
AATAAAATATGAATTTTAAATTTCATTTTTCATAAAAATAAAGAAAGAAAACAATATTATCTTAT
AATTGATAAACAATATTTGAAAC
Found at i:126992 original size:88 final size:88
Alignment explanation
Indices: 126893--127070 Score: 320
Period size: 88 Copynumber: 2.0 Consensus size: 88
126883 AAAATTATTA
*
126893 AATAAAATATGAATTTTAAATTTCATTTTTCATAAAAATAAAGAAAGAAGACAATATTATCTTAT
1 AATAAAATATGAATTTTAAATTTCATTTTTCATAAAAATAAAGAAAGAAAACAATATTATCTTAT
126958 AATTGACAAACAACATTTGAAAC
66 AATTGACAAACAACATTTGAAAC
*
126981 AATAAAATATGAATTTTAAATTTCATTTTTCATAAAAATAAAGATAGAAAACAATATTATCTTAT
1 AATAAAATATGAATTTTAAATTTCATTTTTCATAAAAATAAAGAAAGAAAACAATATTATCTTAT
* *
127046 AATTGATAAACAATATTTGAAAC
66 AATTGACAAACAACATTTGAAAC
127069 AA
1 AA
127071 ATATCTAATG
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.34
Consensus pattern (88 bp):
AATAAAATATGAATTTTAAATTTCATTTTTCATAAAAATAAAGAAAGAAAACAATATTATCTTAT
AATTGACAAACAACATTTGAAAC
Found at i:128212 original size:17 final size:17
Alignment explanation
Indices: 128190--128223 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
128180 GACTTATTTG
*
128190 AAAAAATACAAAAAAAT
1 AAAAAATAAAAAAAAAT
128207 AAAAAATAAAAAAAAAT
1 AAAAAATAAAAAAAAAT
128224 GAATGGCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAAATAAAAAAAAAT
Found at i:128882 original size:49 final size:50
Alignment explanation
Indices: 128826--128924 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 50
128816 AAATATCAAA
*
128826 ACAATTCTTTTAAGCCATTATTTAACTAAATGATTGC-AAGTTGAATGGC
1 ACAATTCTTTTAAGCCATTATTTAACTAAATGATTGCAAAATTGAATGGC
* *
128875 ACAATTCTTTTAAGCCATTATTTCAGTAAATGATTGCAAAATTGAATGGC
1 ACAATTCTTTTAAGCCATTATTTAACTAAATGATTGCAAAATTGAATGGC
128925 CTGGGTTTCG
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 35 0.76
50 11 0.24
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
Consensus pattern (50 bp):
ACAATTCTTTTAAGCCATTATTTAACTAAATGATTGCAAAATTGAATGGC
Found at i:136171 original size:52 final size:52
Alignment explanation
Indices: 136031--136159 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
136021 CGAAATATGA
136031 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
136083 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
136135 AAATTTGCCTGCATGTATTGATACA
1 AAATTTGCCTGCATGTATCGATACA
136160 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:136215 original size:19 final size:19
Alignment explanation
Indices: 136191--136253 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
136181 CGATACATTA
136191 TATCGATACAAAACTTATG
1 TATCGATACAAAACTTATG
136210 TATCGATAC---A--T-TG
1 TATCGATACAAAACTTATG
*
136223 TATCGATACAACACTTATG
1 TATCGATACAAAACTTATG
*
136242 TATGGATACAAA
1 TATCGATACAAA
136254 TCGTTGAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 11 0.31
14 1 0.03
16 2 0.06
18 1 0.03
19 21 0.58
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.32
Consensus pattern (19 bp):
TATCGATACAAAACTTATG
Found at i:136227 original size:32 final size:32
Alignment explanation
Indices: 136176--136251 Score: 116
Period size: 32 Copynumber: 2.4 Consensus size: 32
136166 AGTGTAGCTT
*
136176 TGTAGCGATACATTATATCGATACAAAACTTA
1 TGTATCGATACATTATATCGATACAAAACTTA
* *
136208 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTATATCGATACAAAACTTA
*
136240 TGTATGGATACA
1 TGTATCGATACA
136252 AATCGTTGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATTATATCGATACAAAACTTA
Found at i:136983 original size:49 final size:49
Alignment explanation
Indices: 136814--137436 Score: 655
Period size: 49 Copynumber: 12.8 Consensus size: 49
136804 AAAAAAATGT
* ** * * * *
136814 CAATGTGCTGATTCACGGTTAGCAACATTAGACTTGAAGATGAGAAGAATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT--GAAG-GTGC
* * ** *
136866 CAATGTGCTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGACGAAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGAT---GAAGGTGC
* * *
136919 CAGTATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
136968 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * * *
137020 CAATATGCTGATTCAAGGCCAGCGATATCGGATTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
137069 CAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
137118 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * ** * *
137167 CAATATGCTGATTCAAGGCCAGTGATACCGGACTTAAAAATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
137216 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AA-A-G-A--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
137259 CAATGTGCTGATTCAAGGCCAGCGACATTAGTCTTAAAGA-CAAGGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA-GGTGC
* *
137308 CAATATGCTGATTCAA-GCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
137350 CAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGA-CAAGGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA-GGTGC
* * *
137399 CAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA
137437 AGAAGATGCC
Statistics
Matches: 486, Mismatches: 67, Indels: 39
0.82 0.11 0.07
Matches are distributed among these distances:
42 20 0.04
43 53 0.11
44 3 0.01
45 2 0.00
46 2 0.00
47 2 0.00
48 19 0.04
49 269 0.55
52 78 0.16
53 34 0.07
54 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:137521 original size:28 final size:28
Alignment explanation
Indices: 137456--137640 Score: 153
Period size: 28 Copynumber: 6.5 Consensus size: 28
137446 CACCAACTTG
137456 TGTGGGCTTTTGAAAGAGTTG-CA-TCAACT
1 TGTGGGCTTTTG-AAG-GTTGCCACT-AACT
*
137485 TGTGTGCTTTTGAAGGTTGCCACTAACT
1 TGTGGGCTTTTGAAGGTTGCCACTAACT
* *
137513 TGTGGGC-TTTGAAAGGGGTGCCACCAACT
1 TGTGGGCTTTTG-AA-GGTTGCCACTAACT
* ** *
137542 TATGGGCTTACGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTAACT
* * ***
137570 TGTGGGCTTTGGAAAAGGGTGCCACTGTTT
1 TGTGGGCTTTTG--AAGGTTGCCACTAACT
*
137600 TGTGGGC-TTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTAACT
*
137627 TGTGAGCTTTTGAA
1 TGTGGGCTTTTGAA
137641 AAAGAGAAAG
Statistics
Matches: 127, Mismatches: 21, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
27 27 0.21
28 43 0.34
29 35 0.28
30 22 0.17
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.33
Consensus pattern (28 bp):
TGTGGGCTTTTGAAGGTTGCCACTAACT
Found at i:137541 original size:57 final size:58
Alignment explanation
Indices: 137456--137641 Score: 216
Period size: 57 Copynumber: 3.3 Consensus size: 58
137446 CACCAACTTG
* * * * *
137456 TGTGGGCTTTTGAAAGAGTTG-CATCAACTTGTGTGCTTTTGAAGGTTGCCACTAACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCAACTTGTGGGCTTTTGAAGGTTGCCACTGACT
* **
137513 TGTGGGC-TTTGAAAGGGGTGCCACCAACTTATGGGCTTACGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCAACTTGTGGGCTTTTGAAGGTTGCCACTGACT
* * ****
137570 TGTGGGCTTTGGAAAAGGGTGCCACTGTTTTGTGGGC-TTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCAACTTGTGGGCTTTTGAAGGTTGCCACTGACT
*
137627 TGTGAGCTTTTGAAA
1 TGTGGGCTTTTGAAA
137642 AAGAGAAAGA
Statistics
Matches: 108, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
56 11 0.10
57 75 0.69
58 22 0.20
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGGGCTTTTGAAAGGGGTGCCACCAACTTGTGGGCTTTTGAAGGTTGCCACTGACT
Found at i:137717 original size:34 final size:34
Alignment explanation
Indices: 137611--137779 Score: 160
Period size: 34 Copynumber: 4.8 Consensus size: 34
137601 GTGGGCTTTG
* * * *
137611 AAGGTTGCCACTGACTTGTGAGCTTTTGAAAAAGAGA
1 AAGG-TGCCACGGAGTTGTGGGC-TTTG-AAAAGAAA
* * * * *
137648 AAGATGCCATGGAGTTGTGGAC-TTAAAAAGGAA
1 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
*
137681 AAGGTGCCACGGAGTGGTGGGCTTTGAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
* *
137715 AAGGTGCCACGGAGTTATGGGCTTCGAAGAAAAGAAA
1 AAGGTGCCACGGAGTTGTGGGCTT---TGAAAAGAAA
*
137752 AAGGTGCCACAGAGTTGTGGGCTTTGAA
1 AAGGTGCCACGGAGTTGTGGGCTTTGAA
137780 GAAAAGATGC
Statistics
Matches: 107, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
33 24 0.22
34 36 0.34
36 13 0.12
37 34 0.32
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (34 bp):
AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA
Found at i:137756 original size:37 final size:36
Alignment explanation
Indices: 137640--137786 Score: 160
Period size: 37 Copynumber: 4.2 Consensus size: 36
137630 GAGCTTTTGA
* * * *
137640 AAAAGAGAAAGATGCCATGGAGTTGTGGACTT--A-
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTGAAG
* * *
137673 AAAAGGAAAAGGTGCCACGGAGTGGTGGGCTT--TG
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTGAAG
*
137707 AAAAGAAAAAGGTGCCACGGAGTTATGGGCTTCGAAG
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTT-GAAG
*
137744 AAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAG
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TTGAAG
137781 AAAAGA
1 AAAAGA
137787 TGCCACTAAG
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
33 26 0.27
34 29 0.30
37 39 0.41
38 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.33, T:0.18
Consensus pattern (36 bp):
AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTGAAG
Found at i:137820 original size:30 final size:31
Alignment explanation
Indices: 137751--138111 Score: 334
Period size: 30 Copynumber: 11.8 Consensus size: 31
137741 AAGAAAAGAA
* * * * *
137751 AAAGGTGCCACAGAGTTGTGGGCTTTGAAGA-
1 AAAGATGCCACTGAGTCGTGGACTTTG-GGAC
* *
137782 AAAGATGCCACTAAGTCGTAGACTTT-GGA-
1 AAAGATGCCACTGAGTCGTGGACTTTGGGAC
137811 AAGAGATGCCACTGAGTCGTGGACTTTGAGGA-
1 AA-AGATGCCACTGAGTCGTGGACTTTG-GGAC
*
137843 AAAGATGCCACTGAGTCATGGACTTTGGGAC
1 AAAGATGCCACTGAGTCGTGGACTTTGGGAC
* * * * **
137874 AAA-ATACCACTAAGTTGTGGGCTTTAAGA-
1 AAAGATGCCACTGAGTCGTGGACTTTGGGAC
137903 AAAGATGCCACTGAGTCGTGGACTTTGGGAC
1 AAAGATGCCACTGAGTCGTGGACTTTGGGAC
* *
137934 AAA-ATGCCACTGAGTCGTGGGCTTTGAGA-
1 AAAGATGCCACTGAGTCGTGGACTTTGGGAC
* *
137963 AGAGATTGGCACTGAGTCGTGGACTTTGGGAC
1 AAAGA-TGCCACTGAGTCGTGGACTTTGGGAC
*
137995 AAA-ATGCCACTGAGTCGT-GAGCTTTGAGA-
1 AAAGATGCCACTGAGTCGTGGA-CTTTGGGAC
*
138024 AGAGATTGCCACTGAGTCGTGGACTTTGGGAC
1 AAAGA-TGCCACTGAGTCGTGGACTTTGGGAC
* * **
138056 AAA-ATGCTACTGAGTCGTGGGCTTTAAGA-
1 AAAGATGCCACTGAGTCGTGGACTTTGGGAC
* *
138085 AGAGATTGCCACTGAGTCATGGACTTT
1 AAAGA-TGCCACTGAGTCGTGGACTTT
138112 AAGAAGGTAT
Statistics
Matches: 271, Mismatches: 43, Indels: 32
0.78 0.12 0.09
Matches are distributed among these distances:
29 15 0.06
30 132 0.49
31 113 0.42
32 11 0.04
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (31 bp):
AAAGATGCCACTGAGTCGTGGACTTTGGGAC
Found at i:137845 original size:61 final size:62
Alignment explanation
Indices: 137756--138111 Score: 478
Period size: 61 Copynumber: 5.9 Consensus size: 62
137746 AAGAAAAAGG
* * * *
137756 TGCCACAGAGTTGTGGGCTTTGAAGAAAAGA-TGCCACTAAGTCGTAGACTTT-GGA-AAGAGA
1 TGCCACTGAGTCGTGGGCTTTGAAGAAAAGATTGCCACTGAGTCGTGGACTTTGGGACAA-A-A
* * *
137817 TGCCACTGAGTCGTGGACTTTGAGGAAAAGA-TGCCACTGAGTCATGGACTTTGGGACAAAA
1 TGCCACTGAGTCGTGGGCTTTGAAGAAAAGATTGCCACTGAGTCGTGGACTTTGGGACAAAA
* * *
137878 TACCACTAAGTTGTGGGCTTT-AAGAAAAGA-TGCCACTGAGTCGTGGACTTTGGGACAAAA
1 TGCCACTGAGTCGTGGGCTTTGAAGAAAAGATTGCCACTGAGTCGTGGACTTTGGGACAAAA
* *
137938 TGCCACTGAGTCGTGGGCTTTG-AGAAGAGATTGGCACTGAGTCGTGGACTTTGGGACAAAA
1 TGCCACTGAGTCGTGGGCTTTGAAGAAAAGATTGCCACTGAGTCGTGGACTTTGGGACAAAA
* *
137999 TGCCACTGAGTCGTGAGCTTTG-AGAAGAGATTGCCACTGAGTCGTGGACTTTGGGACAAAA
1 TGCCACTGAGTCGTGGGCTTTGAAGAAAAGATTGCCACTGAGTCGTGGACTTTGGGACAAAA
* * *
138060 TGCTACTGAGTCGTGGGCTTT-AAGAAGAGATTGCCACTGAGTCATGGACTTT
1 TGCCACTGAGTCGTGGGCTTTGAAGAAAAGATTGCCACTGAGTCGTGGACTTT
138112 AAGAAGGTAT
Statistics
Matches: 267, Mismatches: 23, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
60 62 0.23
61 199 0.75
62 4 0.01
63 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (62 bp):
TGCCACTGAGTCGTGGGCTTTGAAGAAAAGATTGCCACTGAGTCGTGGACTTTGGGACAAAA
Found at i:137992 original size:121 final size:121
Alignment explanation
Indices: 137764--138111 Score: 504
Period size: 121 Copynumber: 2.9 Consensus size: 121
137754 GGTGCCACAG
* *
137764 AGTTGTGGGCTTTGAAGAAAAGATGCCACTAAGTCGTAGACTTT-GGA-AAGAGATGCCACTGAG
1 AGTTGTGGGCTTT-AAGAAAAGATGCCACTGAGTCGTGGACTTTGGGACAA-A-ATGCCACTGAG
* *
137827 TCGTGGACTTTGAGGAAAAGA-TGCCACTGAGTCATGGACTTTGGGACAAAATACCACTA
63 TCGTGGGCTTTGA-GAAGAGATTGCCACTGAGTCATGGACTTTGGGACAAAATACCACTA
137886 AGTTGTGGGCTTTAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGACAAAATGCCACTGAGTCG
1 AGTTGTGGGCTTTAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGACAAAATGCCACTGAGTCG
* * * *
137951 TGGGCTTTGAGAAGAGATTGGCACTGAGTCGTGGACTTTGGGACAAAATGCCACTG
66 TGGGCTTTGAGAAGAGATTGCCACTGAGTCATGGACTTTGGGACAAAATACCACTA
* * * * *
138007 AGTCGTGAGCTTTGAGAAGAGATTGCCACTGAGTCGTGGACTTTGGGACAAAATGCTACTGAGTC
1 AGTTGTGGGCTTTAAGAAAAGA-TGCCACTGAGTCGTGGACTTTGGGACAAAATGCCACTGAGTC
*
138072 GTGGGCTTTAAGAAGAGATTGCCACTGAGTCATGGACTTT
65 GTGGGCTTTGAGAAGAGATTGCCACTGAGTCATGGACTTT
138112 AAGAAGGTAT
Statistics
Matches: 206, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
120 6 0.03
121 103 0.50
122 95 0.46
123 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.25
Consensus pattern (121 bp):
AGTTGTGGGCTTTAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGACAAAATGCCACTGAGTCG
TGGGCTTTGAGAAGAGATTGCCACTGAGTCATGGACTTTGGGACAAAATACCACTA
Found at i:138078 original size:182 final size:183
Alignment explanation
Indices: 137756--138111 Score: 499
Period size: 182 Copynumber: 2.0 Consensus size: 183
137746 AAGAAAAAGG
*
137756 TGCCACAGAGTTGTGGGCTTTGAAGAAAAGATGCCACTAAGTCGTAGACTTTGGAAAGAGATGCC
1 TGCCACAGAGTCGTGGGCTTTGAAGAAAAGATGCCACTAAGTCGTAGACTTTGGAAAGAGATGCC
137821 ACTGAGTCGTGGACTTTGAGGAAAAGATGCCACTGAGTCATGGACTTTGGGACAAAATACCACTA
66 ACTGAGTCGTGGACTTTGAGGAAAAGATGCCACTGAGTCATGGACTTTGGGACAAAATACCACTA
* *
137886 AGTTGTGGGCTTTAAGAAAAGA-TGCCACTGAGTCGTGGACTTTGGGACAAAA
131 AGTCGTGGGCTTTAAGAAAAGATTGCCACTGAGTCATGGACTTTGGGACAAAA
* * * * *
137938 TGCCACTGAGTCGTGGGCTTTG-AGAAGAGATTGGCACTGAGTCGTGGACTTTGGGACAA-A-AT
1 TGCCACAGAGTCGTGGGCTTTGAAGAAAAGA-TGCCACTAAGTCGTAGACTTT-GGA-AAGAGAT
* * *
138000 GCCACTGAGTCGT-GAGCTTTGA-GAAGAGATTGCCACTGAGTCGTGGACTTTGGGACAAAATGC
63 GCCACTGAGTCGTGGA-CTTTGAGGAAAAGA-TGCCACTGAGTCATGGACTTTGGGACAAAATAC
* * *
138063 TACTGAGTCGTGGGCTTTAAGAAGAGATTGCCACTGAGTCATGGACTTT
126 CACTAAGTCGTGGGCTTTAAGAAAAGATTGCCACTGAGTCATGGACTTT
138112 AAGAAGGTAT
Statistics
Matches: 154, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
181 15 0.10
182 113 0.73
183 24 0.16
184 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (183 bp):
TGCCACAGAGTCGTGGGCTTTGAAGAAAAGATGCCACTAAGTCGTAGACTTTGGAAAGAGATGCC
ACTGAGTCGTGGACTTTGAGGAAAAGATGCCACTGAGTCATGGACTTTGGGACAAAATACCACTA
AGTCGTGGGCTTTAAGAAAAGATTGCCACTGAGTCATGGACTTTGGGACAAAA
Found at i:139414 original size:6 final size:6
Alignment explanation
Indices: 139403--139461 Score: 66
Period size: 6 Copynumber: 9.5 Consensus size: 6
139393 TTTTGTGTAT
*
139403 TTTTTG TTTTTG TTTTTG TTTTTG TTTTT- TTGTGTTG TTTTTT TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TT-T-TTG TTTTTG TTTTTG
*
139452 ACTTTTG TTT
1 -TTTTTG TTT
139462 GTGTGTTTAC
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 2 0.04
6 33 0.73
7 8 0.18
8 2 0.04
ACGTcount: A:0.02, C:0.02, G:0.15, T:0.81
Consensus pattern (6 bp):
TTTTTG
Found at i:139424 original size:19 final size:19
Alignment explanation
Indices: 139402--139461 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
139392 TTTTTGTGTA
139402 TTTTTTGTTTTTGTTTTTG
1 TTTTTTGTTTTTGTTTTTG
139421 -TTTTTGTTTTT-TTGTGTTG
1 TTTTTTGTTTTTGTT-T-TTG
*
139440 TTTTTT-TTTTTGACTTTTG
1 TTTTTTGTTTTTG-TTTTTG
139459 TTT
1 TTT
139462 GTGTGTTTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
17 2 0.06
18 12 0.34
19 14 0.40
20 6 0.17
21 1 0.03
ACGTcount: A:0.02, C:0.02, G:0.15, T:0.82
Consensus pattern (19 bp):
TTTTTTGTTTTTGTTTTTG
Found at i:139444 original size:38 final size:37
Alignment explanation
Indices: 139390--139461 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
139380 TCCTCTCTCT
*
139390 TTTTTTTGTGTATTTTTTGTTTTTG-TTTTTGTTTTTG
1 TTTTTTTGTGTATTTTTT-TTTTTGACTTTTGTTTTTG
*
139427 TTTTTTTGTGTTGTTTTTTTTTTTGACTTTTGTTT
1 TTTTTTTGTG-TATTTTTTTTTTTGACTTTTGTTT
139462 GTGTGTTTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.03, C:0.01, G:0.15, T:0.81
Consensus pattern (37 bp):
TTTTTTTGTGTATTTTTTTTTTTGACTTTTGTTTTTG
Found at i:145352 original size:21 final size:21
Alignment explanation
Indices: 145319--145368 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
145309 TTGCAAGTTG
*
145319 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
145341 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
145362 AAATAAA
1 AAATAAA
145369 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:151163 original size:39 final size:40
Alignment explanation
Indices: 151119--151199 Score: 103
Period size: 39 Copynumber: 2.0 Consensus size: 40
151109 TTTAGTAAAA
*
151119 GGGGAGAATGCATAAATTTGCTAAAATTA-TCTT-ATTAAG
1 GGGGAGAATGCACAAATTTGCTAAAATTACT-TTAATTAAG
* * *
151158 GGGGAGAATGTACGAATTTGTTAAAATTACTTTAATTAAG
1 GGGGAGAATGCACAAATTTGCTAAAATTACTTTAATTAAG
151198 GG
1 GG
151200 AGAAAGAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 27 0.75
40 9 0.25
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.33
Consensus pattern (40 bp):
GGGGAGAATGCACAAATTTGCTAAAATTACTTTAATTAAG
Found at i:151765 original size:20 final size:21
Alignment explanation
Indices: 151742--151798 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
151732 ACAATTCAAA
**
151742 GTATCGATACATGTTGCA-AT
1 GTATCGATACATGTTAAAGAT
**
151762 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTAAAGAT
151783 GTATCGATACATGTTA
1 GTATCGATACATGTTA
151799 TTGGGATTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (21 bp):
GTATCGATACATGTTAAAGAT
Found at i:151862 original size:13 final size:13
Alignment explanation
Indices: 151844--151870 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
151834 TACACAAAGT
151844 ATGTATCGATACA
1 ATGTATCGATACA
151857 ATGTATCGATACA
1 ATGTATCGATACA
151870 A
1 A
151871 AAAAAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:156545 original size:52 final size:52
Alignment explanation
Indices: 156396--156524 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
156386 CGAAATATGA
156396 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* *
156448 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTAGGT
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
*
156500 AAATTTGCCTGCATGTATTGATACA
1 AAATTTGCCTGCATGTATCGATACA
156525 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:156625 original size:19 final size:19
Alignment explanation
Indices: 156598--156646 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
156588 GCGATACATG
*
156598 GTATAGATACAAAACTTAT
1 GTATCGATACAAAACTTAT
*
156617 GTATCGATACAACACTTAT
1 GTATCGATACAAAACTTAT
156636 GTATCGATACA
1 GTATCGATACA
156647 TTGTATCGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (19 bp):
GTATCGATACAAAACTTAT
Found at i:156653 original size:13 final size:13
Alignment explanation
Indices: 156635--156659 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
156625 ACAACACTTA
156635 TGTATCGATACAT
1 TGTATCGATACAT
156648 TGTATCGATACA
1 TGTATCGATACA
156660 AATCGTTGAA
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:161004 original size:27 final size:27
Alignment explanation
Indices: 160970--161799 Score: 414
Period size: 27 Copynumber: 29.9 Consensus size: 27
160960 TCCACGATTA
*
160970 GTGGCATCCTTTTAAGTCCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* *
160997 GTGGCATCCTTTTAAAGTCCATAACTCC
1 GTGGCACCCTTTT-AAGTCCACAACTCC
* *
161025 GTGCCATCCTTTTAAGTCCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
** * * *
161052 GTGGCATCTTTTTTAAGCCCACAAGTCA
1 GTGGCA-CCCTTTTAAGTCCACAACTCC
* ** * * **
161080 GTGGCACACTTCCAAAGCCCACAAGTTA
1 GTGGCACCCTT-TTAAGTCCACAACTCC
* * *
161108 GT-GCTACCCCTTTTTAAGCCCACAAGTCA
1 GTGGC-A-CCC-TTTTAAGTCCACAACTCC
* * * * *
161137 ATGGCA-CCTTTCCAAAG-CTCATAAGTCA
1 GTGGCACCCTTT--TAAGTC-CACAACTCC
* * ** *
161165 ATGGCACCCATTTCAAAG-CCTACATGTCA
1 GTGGCACCC-TTT-TAAGTCC-ACAACTCC
** * * * *
161194 GTGGCATCTTTTTTGAGCCCACAAGTCA
1 GTGGCA-CCCTTTTAAGTCCACAACTCC
* * * *
161222 ATGCCATGCCTTTTTAAGCCCACAACTCC
1 GTGGCA--CCCTTTTAAGTCCACAACTCC
* * *
161251 GTGGCACCCTTTAAAGTCTACAACTCT
1 GTGGCACCCTTTTAAGTCCACAACTCC
* *
161278 GTGGCAGCTTTTTAAGTCCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* * *
161305 GTGGCATCCTTTTAAAGTCCACAATTCT
1 GTGGCACCCTTTT-AAGTCCACAACTCC
* *
161333 GTGGCAGCCTTTTAAGTCCACAAATCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* * * *
161360 GTGGCATCCTTTTAAGTCTATAACGCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* * * *
161387 GTGGCATCCTGTTTAAGCCCACAAGTCA
1 GTGGCACCCT-TTTAAGTCCACAACTCC
** * * **
161415 GTGGCACCCTTCCAAAGCCCACAAGTTA
1 GTGGCACCCTT-TTAAGTCCACAACTCC
* * * *
161443 GTGGTACCCCTTTTTAAGCCCACAAGTCA
1 GTGGCA-CCC-TTTTAAGTCCACAACTCC
* ** * *
161472 ATGGCACCCTTCCAAAG-CTCACAAGTCA
1 GTGGCACCCTT-TTAAGTC-CACAACTCC
* ** *
161500 GTGGCACCCATTTCAAAG-CCTACATGTCA
1 GTGGCACCC-TTT-TAAGTCC-ACAACTCC
* ** * * *
161529 ATGGCATCTTTTTTAAGCCCACAAGTCA
1 GTGGCA-CCCTTTTAAGTCCACAACTCC
* * *
161557 ATGCCACGCCTTTTTAAGCCCACAACTCC
1 GTGGCAC-CC-TTTTAAGTCCACAACTCC
* *
161586 GTGGCACCCTTTAAAGTCCACAACTCT
1 GTGGCACCCTTTTAAGTCCACAACTCC
*
161613 ATGGCACCCTTTTAAGTCCACAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* * *
161640 ATGGCACCCTTTTAGGTCCACAACTTC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* * * *
161667 ATGCCACCCTTTTAAAGTCCATAGCTCC
1 GTGGCACCCTTTT-AAGTCCACAACTCC
* *
161695 ATGGCACCCTTTTAAGTCCACAATTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
161722 GTGGCACCCTTTTAAAGTCCAGC-ACTCC
1 GTGGCACCCTTTT-AAGTCCA-CAACTCC
* *
161750 GTGGCACCCTTTTAGGTCCATAACTCC
1 GTGGCACCCTTTTAAGTCCACAACTCC
* *
161777 GTGGCACGCTTTAAAGTCCACAA
1 GTGGCACCCTTTTAAGTCCACAA
161800 GTTCATGGCA
Statistics
Matches: 650, Mismatches: 119, Indels: 68
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.00
27 266 0.41
28 242 0.37
29 128 0.20
30 11 0.02
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.27
Consensus pattern (27 bp):
GTGGCACCCTTTTAAGTCCACAACTCC
Found at i:161023 original size:28 final size:28
Alignment explanation
Indices: 160970--161921 Score: 452
Period size: 28 Copynumber: 34.2 Consensus size: 28
160960 TCCACGATTA
*
160970 GTGGCATCCTTTT-AAGTCCACAACTCC
1 GTGGCACCCTTTTAAAGTCCACAACTCC
* *
160997 GTGGCATCCTTTTAAAGTCCATAACTCC
1 GTGGCACCCTTTTAAAGTCCACAACTCC
* *
161025 GTGCCATCCTTTT-AAGTCCACAACTCC
1 GTGGCACCCTTTTAAAGTCCACAACTCC
* * * * * *
161052 GTGGCATCTTTTTTAAGCCCACAAGTCA
1 GTGGCACCCTTTTAAAGTCCACAACTCC
* ** * * **
161080 GTGGCACACTTCCAAAGCCCACAAGTTA
1 GTGGCACCCTTTTAAAGTCCACAACTCC
* * * *
161108 GT-GCTACCCCTTTTTAAGCCCACAAGTCA
1 GTGGC-A-CCCTTTTAAAGTCCACAACTCC
* * * * *
161137 ATGGCA-CCTTTCCAAAG-CTCATAAGTCA
1 GTGGCACCCTTT-TAAAGTC-CACAACTCC
* * ** *
161165 ATGGCACCCATTTCAAAG-CCTACATGTCA
1 GTGGCACCC-TTTTAAAGTCC-ACAACTCC
* * ** * * *
161194 GTGGCATCTTTTTTGAGCCCACAAGTCA
1 GTGGCACCCTTTTAAAGTCCACAACTCC
* * * * *
161222 ATGCCATGCCTTTTTAAGCCCACAACTCC
1 GTGGCA-CCCTTTTAAAGTCCACAACTCC
* *
161251 GTGGCACCC-TTTAAAGTCTACAACTCT
1 GTGGCACCCTTTTAAAGTCCACAACTCC
* *
161278 GTGGCA-GCTTTTTAAGTCCACAACTCC
1 GTGGCACCCTTTTAAAGTCCACAACTCC
* * *
161305 GTGGCATCCTTTTAAAGTCCACAATTCT
1 GTGGCACCCTTTTAAAGTCCACAACTCC
* *
161333 GTGGCAGCCTTTT-AAGTCCACAAATCC
1 GTGGCACCCTTTTAAAGTCCACAACTCC
* * * *
161360 GTGGCATCCTTTT-AAGTCTATAACGCC
1 GTGGCACCCTTTTAAAGTCCACAACTCC
* * * *
161387 GTGGCATCCTGTTT-AAGCCCACAAGTCA
1 GTGGCACCCT-TTTAAAGTCCACAACTCC
** * * **
161415 GTGGCACCCTTCCAAAGCCCACAAGTTA
1 GTGGCACCCTTTTAAAGTCCACAACTCC
* * * * *
161443 GTGGTACCCCTTTTTAAGCCCACAAGTCA
1 GTGGCA-CCCTTTTAAAGTCCACAACTCC
* ** * *
161472 ATGGCACCCTTCCAAAG-CTCACAAGTCA
1 GTGGCACCCTTTTAAAGTC-CACAACTCC
* ** *
161500 GTGGCACCCATTTCAAAG-CCTACATGTCA
1 GTGGCACCC-TTTTAAAGTCC-ACAACTCC
* * * * * * *
161529 ATGGCATCTTTTTTAAGCCCACAAGTCA
1 GTGGCACCCTTTTAAAGTCCACAACTCC
* * * *
161557 ATGCCACGCCTTTTTAAGCCCACAACTCC
1 GTGGCAC-CCTTTTAAAGTCCACAACTCC
*
161586 GTGGCACCC-TTTAAAGTCCACAACTCT
1 GTGGCACCCTTTTAAAGTCCACAACTCC
*
161613 ATGGCACCCTTTT-AAGTCCACAACTCC
1 GTGGCACCCTTTTAAAGTCCACAACTCC
* * *
161640 ATGGCACCCTTTT-AGGTCCACAACTTC
1 GTGGCACCCTTTTAAAGTCCACAACTCC
* * * *
161667 ATGCCACCCTTTTAAAGTCCATAGCTCC
1 GTGGCACCCTTTTAAAGTCCACAACTCC
* *
161695 ATGGCACCCTTTT-AAGTCCACAATTCC
1 GTGGCACCCTTTTAAAGTCCACAACTCC
161722 GTGGCACCCTTTTAAAGTCCAGC-ACTCC
1 GTGGCACCCTTTTAAAGTCCA-CAACTCC
* *
161750 GTGGCACCCTTTT-AGGTCCATAACTCC
1 GTGGCACCCTTTTAAAGTCCACAACTCC
* * *
161777 GTGGCACGC-TTTAAAGTCCACAAGTTC
1 GTGGCACCCTTTTAAAGTCCACAACTCC
* * * * * * *
161804 ATGGCATCATTTCAAAG-CCTGCAAGTCA
1 GTGGCACCCTTTTAAAGTCC-ACAACTCC
* * * *
161832 GTGGCACCATTTCAAAGCCCACAAGTCC
1 GTGGCACCCTTTTAAAGTCCACAACTCC
* * * * * *
161860 GTGGCATCATTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTTAAAGTCCACAACTCC
* * * * *
161888 GTGGCACCATTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTTAAAGTCCACAACTCC
161916 GTGGCA
1 GTGGCA
161922 TCATTTGAAA
Statistics
Matches: 755, Mismatches: 139, Indels: 61
0.79 0.15 0.06
Matches are distributed among these distances:
26 4 0.01
27 264 0.35
28 349 0.46
29 133 0.18
30 5 0.01
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.26
Consensus pattern (28 bp):
GTGGCACCCTTTTAAAGTCCACAACTCC
Found at i:161129 original size:57 final size:56
Alignment explanation
Indices: 161061--161998 Score: 358
Period size: 57 Copynumber: 16.8 Consensus size: 56
161051 CGTGGCATCT
* *
161061 TTTTTAAGCCCACAAGTCAGTGGCACACTTCCAAAGCCCACAAGTTAGT-GCTACCCC
1 TTTTTAAGCCCACAAGTCAGTGGCAC-CTTCTAAAGCCCACAAGTCAGTGGC-ACCCC
* * * * * *
161118 TTTTTAAGCCCACAAGTCAATGGCACCTTTCCAAAGCTCATAAGTCAATGGCACCCA
1 TTTTTAAGCCCACAAGTCAGTGGCACC-TTCTAAAGCCCACAAGTCAGTGGCACCCC
** * * * * ** * * **
161175 TTTCAAAGCCTACATGTCAGTGGCATCTTTTTTGAGCCCACAAGTCAATGCCATGCC
1 TTTTTAAGCCCACAAGTCAGTGGCA-CCTTCTAAAGCCCACAAGTCAGTGGCACCCC
* * * * * * *
161232 TTTTTAAGCCCACAACTCCGTGGCACCCTT-TAAAGTCTACAACTCTGTGGCA--GC
1 TTTTTAAGCCCACAAGTCAGTGGCA-CCTTCTAAAGCCCACAAGTCAGTGGCACCCC
* * * * * * * *
161286 TTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAATTCTGTGGCA-GCC
1 TTTTTAAGCCCACAAGTCAGTGGCA-CCTTCTAAAGCCCACAAGTCAGTGGCACCCC
* * * * * * * * *
161342 -TTTTAAGTCCACAAATCCGTGGCATCCTT-TTAAGTCTATAACG-CCGTGGCA-TCC
1 TTTTTAAGCCCACAAGTCAGTGGCA-CCTTCTAAAGCCCACAA-GTCAGTGGCACCCC
* * * *
161396 TGTTTAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTTAGTGGTACCCC
1 TTTTTAAGCCCACAAGTCAGTGGCA-CCTTCTAAAGCCCACAAGTCAGTGGCACCCC
* * * *
161453 TTTTTAAGCCCACAAGTCAATGGCACCCTTCCAAAGCTCACAAGTCAGTGGCACCCA
1 TTTTTAAGCCCACAAGTCAGTGGCA-CCTTCTAAAGCCCACAAGTCAGTGGCACCCC
** * * * * * * * * *
161510 TTTCAAAGCCTACATGTCAATGGCATCTTTTTTAAGCCCACAAGTCAATGCCACGCC
1 TTTTTAAGCCCACAAGTCAGTGGCA-CCTTCTAAAGCCCACAAGTCAGTGGCACCCC
* * * *
161567 TTTTTAAGCCCACAACTCCGTGGCACCCTT-TAAAGTCCACAACTCTA-TGGCA-CCC
1 TTTTTAAGCCCACAAGTCAGTGGCA-CCTTCTAAAGCCCACAAGTC-AGTGGCACCCC
* * * * * * *
161622 -TTTTAAGTCCACAACTCCA-TGGCACCCTT-TTAGGTCCACAACTTCA-TGCCA-CCC
1 TTTTTAAGCCCACAAGT-CAGTGGCA-CCTTCTAAAGCCCACAA-GTCAGTGGCACCCC
* * * * * * *
161676 TTTTAAAGTCCA-TAGCTCCA-TGGCACCCTT-TTAAGTCCACAATTCCGTGGCA-CCC
1 TTTTTAAGCCCACAAG-T-CAGTGGCA-CCTTCTAAAGCCCACAAGTCAGTGGCACCCC
* * * * * * * * * * *
161731 TTTTAAAGTCCAGC-ACTCCGTGGCACCCTT-TTAGGTCCATAACTCCGTGGCA-CGC
1 TTTTTAAGCCCA-CAAGTCAGTGGCA-CCTTCTAAAGCCCACAAGTCAGTGGCACCCC
* * * ** *
161786 -TTTAAAGTCCACAAGTTCA-TGGCATCATT-TCAAAGCCTGCAAGTCAGTGGCA-CCA
1 TTTTTAAGCCCACAAG-TCAGTGGCA-CCTTCT-AAAGCCCACAAGTCAGTGGCACCCC
** * * *
161841 TTTCAAAGCCCACAAGTCCGTGGCATCATT-TCAAAGCCCACAAGTCAGTGGCA-CCA
1 TTTTTAAGCCCACAAGTCAGTGGCA-CCTTCT-AAAGCCCACAAGTCAGTGGCACCCC
** * * * *
161897 TTTCAAAGCCCACAAGTCAGTGGCATCATT-TGAAAGCCCATAAGTTAGTGGCA-TCC
1 TTTTTAAGCCCACAAGTCAGTGGCA-CCTTCT-AAAGCCCACAAGTCAGTGGCACCCC
** * *
161953 TTTCAAAGCCCACAAGTCTGTGGCATCATT-TCAAAGCCCACAAGTC
1 TTTTTAAGCCCACAAGTCAGTGGCA-CCTTCT-AAAGCCCACAAGTC
161999 GGTAGCAACT
Statistics
Matches: 711, Mismatches: 146, Indels: 49
0.78 0.16 0.05
Matches are distributed among these distances:
53 1 0.00
54 116 0.16
55 182 0.26
56 184 0.26
57 225 0.32
58 3 0.00
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (56 bp):
TTTTTAAGCCCACAAGTCAGTGGCACCTTCTAAAGCCCACAAGTCAGTGGCACCCC
Found at i:161193 original size:29 final size:28
Alignment explanation
Indices: 161123--161204 Score: 71
Period size: 29 Copynumber: 2.9 Consensus size: 28
161113 ACCCCTTTTT
* *
161123 AAGCCCACAAGTCAATGGCACCTTTCCA
1 AAGCCTACATGTCAATGGCACCTTTCCA
161151 AAG-CT-CATAAGTCAATGGCACCCATTT-CA
1 AAGCCTACAT--GTCAATGGCA-CC-TTTCCA
* *
161180 AAGCCTACATGTCAGTGGCATCTTT
1 AAGCCTACATGTCAATGGCACCTTT
161205 TTTGAGCCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
26 2 0.05
27 4 0.09
28 14 0.32
29 16 0.36
30 5 0.11
31 3 0.07
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (28 bp):
AAGCCTACATGTCAATGGCACCTTTCCA
Found at i:161760 original size:335 final size:334
Alignment explanation
Indices: 160971--161736 Score: 1194
Period size: 335 Copynumber: 2.3 Consensus size: 334
160961 CCACGATTAG
* * *
160971 TGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCATAACTCCGTGCCATCCTT
1 TGGCATCCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAAGTCCATAACTCCGTGGCATCCTT
* *
161036 TTAAGTCCACAACTCCGTGGCATCTTTTTTAAGCCCACAAGTCAGTGGCACACTTCCAAAGCCCA
66 TTAAGTCCACAACTCCGTGGCATC-CTTTTAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCA
* *
161101 CAAGTTAGTGCTACCCCTTTTTAAGCCCACAAGTCAATGGCACCTTTCCAAAGCTCATAAGTCAA
130 CAAGTTAGTGCTACCCCTTTTTAAGCCCACAAGTCAATGGCACCCTTCCAAAGCTCACAAGTCAA
* * *
161166 TGGCACCCATTTCAAAGCCTACATGTCAGTGGCATCTTTTTTGAGCCCACAAGTCAATGCCATGC
195 TGGCACCCATTTCAAAGCCTACATGTCAATGGCATCTTTTTTAAGCCCACAAGTCAATGCCACGC
* * * *
161231 CTTTTTAAGCCCACAACTCCGTGGCACCCTTTAAAGTCTACAACTCTGTGGCAGCTTTTTAAGTC
260 CTTTTTAAGCCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCTATGGCACCCTTTTAAGTC
*
161296 CACAACTCCG
325 CACAACTCCA
* * *
161306 TGGCATCCTTTTAAAGTCCACAA-TTCTGTGGCAGCCTTTT-AAGTCCACAAATCCGTGGCATCC
1 TGGCATCCTTTT-AAGTCCACAACTTC-GTGGCACCCTTTTAAAGTCCATAACTCCGTGGCATCC
* * *
161369 TTTTAAGTCTATAACGCCGTGGCATCCTGTTTAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCC
64 TTTTAAGTCCACAACTCCGTGGCATCCT-TTTAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCC
*
161434 CACAAGTTAGTGGTACCCCTTTTTAAGCCCACAAGTCAATGGCACCCTTCCAAAGCTCACAAGTC
128 CACAAGTTAGTGCTACCCCTTTTTAAGCCCACAAGTCAATGGCACCCTTCCAAAGCTCACAAGTC
*
161499 AGTGGCACCCATTTCAAAGCCTACATGTCAATGGCATCTTTTTTAAGCCCACAAGTCAATGCCAC
193 AATGGCACCCATTTCAAAGCCTACATGTCAATGGCATCTTTTTTAAGCCCACAAGTCAATGCCAC
161564 GCCTTTTTAAGCCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCTATGGCACCCTTTTAAG
258 GCCTTTTTAAGCCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCTATGGCACCCTTTTAAG
161629 TCCACAACTCCA
323 TCCACAACTCCA
* * * * * * *
161641 TGGCACCCTTTTAGGTCCACAACTTCATGCCACCCTTTTAAAGTCCATAGCTCCATGGCACCCTT
1 TGGCATCCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAAGTCCATAACTCCGTGGCATCCTT
* *
161706 TTAAGTCCACAATTCCGTGGCACCCTTTTAA
66 TTAAGTCCACAACTCCGTGGCATCCTTTTAA
161737 AGTCCAGCAC
Statistics
Matches: 389, Mismatches: 37, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
334 25 0.06
335 342 0.88
336 22 0.06
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.28
Consensus pattern (334 bp):
TGGCATCCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAAGTCCATAACTCCGTGGCATCCTT
TTAAGTCCACAACTCCGTGGCATCCTTTTAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCAC
AAGTTAGTGCTACCCCTTTTTAAGCCCACAAGTCAATGGCACCCTTCCAAAGCTCACAAGTCAAT
GGCACCCATTTCAAAGCCTACATGTCAATGGCATCTTTTTTAAGCCCACAAGTCAATGCCACGCC
TTTTTAAGCCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCTATGGCACCCTTTTAAGTCC
ACAACTCCA
Found at i:161899 original size:84 final size:84
Alignment explanation
Indices: 161042--162047 Score: 343
Period size: 82 Copynumber: 12.0 Consensus size: 84
161032 CCTTTTAAGT
* * * ** *
161042 CCACAACTCCGTGGCATCTTTTTTAAGCCCACAAGTCAGTGGCA-CACTTCCAAAGCCCACAAGT
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCA-TTTCAAAGCCCACAAGT
* * **
161106 TAGT-GCTACCCCTTTTTAAGC
65 TAGTGGC-A-TCATTTCAAAGC
* * * * * * *
161127 CCACAAGTCAATGGCA-CCTTTCCAAAGCTCATAAGTCAATGGCACCCATTTCAAAGCCTACATG
1 CCACAAGTCAGTGGCATCATTT-CAAAGCCCACAAGTCAGTGGCA-CCATTTCAAAGCCCACAAG
* * ***
161191 TCAGTGGCATCTTTTTTGAGC
64 TTAGTGGCATCATTTCAAAGC
* * * ** * * * * * *
161212 CCACAAGTCAATGCCATGCCTTTTTAAGCCCACAACTCCGTGGCACCCTTT-AAAGTCTACAACT
1 CCACAAGTCAGTGGCAT-CATTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGT
* ** *
161276 CT-GTGGCAGC-TTTTTAAGT
65 -TAGTGGCATCATTTCAAAGC
* * * * * * * * * *
161295 CCACAACTCCGTGGCATCCTTTTAAAGTCCACAATTCTGTGGCAGCC-TTT-TAAGTCCACAAAT
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCA-CCATTTCAAAGCCCACAAGT
** * * *
161358 CCGTGGCATCCTTT-TAAGT
65 TAGTGGCATCATTTCAAAGC
* * * * * * *
161377 CTATAACG-CCGTGGCATCCTGTT-TAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAG
1 CCACAA-GTCAGTGGCATCAT-TTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAG
* * * **
161440 TTAGTGGTACCCCTTTTTAAGC
64 TTAGTGGCA-TCATTTCAAAGC
* * * * * * *
161462 CCACAAGTCAATGGCACCCTTCCAAAGCTCACAAGTCAGTGGCACCCATTTCAAAGCCTACATGT
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCA-CCATTTCAAAGCCCACAAGT
* * * **
161527 CAATGGCATCTTTTTTAAGC
65 TAGTGGCATCATTTCAAAGC
* * * * ** * * * * *
161547 CCACAAGTCAATGCCACGCCTTTTTAAGCCCACAACTCCGTGGCACCCTTT-AAAGTCCACAACT
1 CCACAAGTCAGTGGCA-TCATTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGT
* * * *
161611 CTA-TGGCACCCTTT-TAAGT
65 -TAGTGGCATCATTTCAAAGC
* * * * * * * * * * * *
161630 CCACAACTCCA-TGGCACCCTTT-TAGGTCCACAACTTCA-TGCCACCCTTTTAAAGTCCA-TAG
1 CCACAAGT-CAGTGGCATCATTTCAAAGCCCACAA-GTCAGTGGCACCATTTCAAAGCCCACAAG
* * * * *
161691 CTCCA-TGGCACCCTTT-TAAGT
64 -T-TAGTGGCATCATTTCAAAGC
* * * * * * * * * * * * * *
161712 CCACAATTCCGTGGCACCCTTTTAAAGTCCAGC-ACTCCGTGGCACCCTTT-TAGGTCCATAACT
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCA-CAAGTCAGTGGCACCATTTCAAAGCCCACAAGT
** * *
161775 CCGTGGCA-CGCTTT-AAAGT
65 TAGTGGCATC-ATTTCAAAGC
**
161794 CCACAAGTTCA-TGGCATCATTTCAAAGCCTGCAAGTCAGTGGCACCATTTCAAAGCCCACAAGT
1 CCACAAG-TCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGT
**
161858 CCGTGGCATCATTTCAAAGC
65 TAGTGGCATCATTTCAAAGC
* * * *
161878 CCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCAGTGGCATCATTTGAAAGCCCATAAGTT
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTT
*
161943 AGTGGCATCCTTTCAAAGC
66 AGTGGCATCATTTCAAAGC
* * *
161962 CCACAAGTCTGTGGCATCATTTCAAAGCCCACAAGTCGGTAGCAACTCATTTCAAAGCCTACACA
1 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGC-AC-CATTTCAAAGCC--CACA
*
162027 AGTTGGTGGCAACTCATTTCA
62 AGTTAGTGGC-A-TCATTTCA
162048 TGCTTGATGC
Statistics
Matches: 722, Mismatches: 155, Indels: 83
0.75 0.16 0.09
Matches are distributed among these distances:
81 26 0.04
82 191 0.26
83 99 0.14
84 164 0.23
85 127 0.18
86 86 0.12
87 9 0.01
88 12 0.02
89 1 0.00
90 7 0.01
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.26
Consensus pattern (84 bp):
CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTT
AGTGGCATCATTTCAAAGC
Found at i:161926 original size:28 final size:28
Alignment explanation
Indices: 161789--162047 Score: 313
Period size: 28 Copynumber: 9.0 Consensus size: 28
161779 GGCACGCTTT
*
161789 AAAGTCCACAAGTTCA-TGGCATCATTTC
1 AAAGCCCACAAG-TCAGTGGCATCATTTC
** *
161817 AAAGCCTGCAAGTCAGTGGCACCATTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
*
161845 AAAGCCCACAAGTCCGTGGCATCATTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
*
161873 AAAGCCCACAAGTCAGTGGCACCATTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
*
161901 AAAGCCCACAAGTCAGTGGCATCATTTG
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* * *
161929 AAAGCCCATAAGTTAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
*
161957 AAAGCCCACAAGTCTGTGGCATCATTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* *
161985 AAAGCCCACAAGTCGGTAGCAACTCATTTC
1 AAAGCCCACAAGTCAGTGGC-A-TCATTTC
**
162015 AAAGCCTACACAAGTTGGTGGCAACTCATTTC
1 AAAGCC--CACAAGTCAGTGGC-A-TCATTTC
162047 A
1 A
162048 TGCTTGATGC
Statistics
Matches: 202, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 3 0.01
28 162 0.80
29 1 0.00
30 13 0.06
32 23 0.11
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCATCATTTC
Found at i:164699 original size:27 final size:27
Alignment explanation
Indices: 164651--164906 Score: 320
Period size: 27 Copynumber: 9.4 Consensus size: 27
164641 GACCTCTTCA
*
164651 AAGTCCACGA-TTCAGTGGCATCCTTTT
1 AAGTCCACAACTTC-GTGGCATCCTTTT
* *
164678 AAGTCCACAACTTCATGCCATCCTTTT
1 AAGTCCACAACTTCGTGGCATCCTTTT
* *
164705 AAGTCCACAACTCCATGGCATCCTTTT
1 AAGTCCACAACTTCGTGGCATCCTTTT
*
164732 AAAGTCCATAAC-TCTGTGGCATCCTTTT
1 -AAGTCCACAACTTC-GTGGCATCCTTTT
* *
164760 AAGTCCATAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTTCGTGGCATCCTTTT
*
164787 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTTCGTGGCATCCTTTT
* *
164814 AAAGTCCACAACTCCGTGGCATCCTTTC
1 -AAGTCCACAACTTCGTGGCATCCTTTT
164842 AAGTCCACAAC-TCTGTGGCATCCTTTT
1 AAGTCCACAACTTC-GTGGCATCCTTTT
*
164869 AAGTCTACAACTTCGTGGCATCCCTTTT
1 AAGTCCACAACTTCGTGGCAT-CCTTTT
*
164897 AAGCCCACAA
1 AAGTCCACAA
164907 GTCAGTGGCA
Statistics
Matches: 205, Mismatches: 16, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
26 1 0.00
27 136 0.66
28 68 0.33
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.31
Consensus pattern (27 bp):
AAGTCCACAACTTCGTGGCATCCTTTT
Found at i:164762 original size:55 final size:54
Alignment explanation
Indices: 164651--164921 Score: 355
Period size: 55 Copynumber: 5.0 Consensus size: 54
164641 GACCTCTTCA
* * * * *
164651 AAGTCCACGATTCAGTGGCATCCTTTTAAGTCCACAACT-TCATGCCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCT-GTGGCATCCTTTT
* *
164705 AAGTCCACAACTCCATGGCATCCTTTTAAAGTCCATAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCTGTGGCATCCTTTT
* *
164760 AAGTCCATAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
*
164814 AAAGTCCACAACTCCGTGGCATCCTTTCAAGTCCACAACTCTGTGGCATCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
* * * * * *
164869 AAGTCTACAACTTCGTGGCATCCCTTTTAAGCCCACAAGTCAGTGGCACCCTT
1 AAGTCCACAACTCCGTGGCAT-CCTTTTAAGTCCACAACTCTGTGGCATCCTT
164922 CCAAAGCCCA
Statistics
Matches: 192, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
54 67 0.35
55 124 0.65
56 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (54 bp):
AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
Found at i:164787 original size:82 final size:82
Alignment explanation
Indices: 164650--164921 Score: 366
Period size: 82 Copynumber: 3.3 Consensus size: 82
164640 TGACCTCTTC
* * * * * *
164650 AAAGTCCACGATTCAGTGGCATCCTTTTAAGTCCACAACTTCATGCCATCCTTTTAAGTCCACAA
1 AAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAA
*
164715 CTCCATGGCATCCTTTT
66 CTCCGTGGCATCCTTTT
* * *
164732 AAAGTCCATAACTCTGTGGCATCCTTTTAAGTCCATAACTCCGTGGCATCCTTTTAAGTCCACAA
1 AAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAA
164797 CTCCGTGGCATCCTTTT
66 CTCCGTGGCATCCTTTT
* * *
164814 AAAGTCCACAACTCCGTGGCATCCTTTCAAGTCCACAACTCTGTGGCATCCTTTTAAGTCTACAA
1 AAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAA
*
164879 CTTCGTGGCATCCCTTTT
66 CTCCGTGGCAT-CCTTTT
* * * *
164897 -AAGCCCACAAGTCAGTGGCACCCTT
1 AAAGTCCACAACTCCGTGGCATCCTT
164922 CCAAAGCCCA
Statistics
Matches: 169, Mismatches: 20, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
82 163 0.96
83 6 0.04
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (82 bp):
AAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAA
CTCCGTGGCATCCTTTT
Found at i:164961 original size:56 final size:56
Alignment explanation
Indices: 164884--165091 Score: 220
Period size: 57 Copynumber: 3.7 Consensus size: 56
164874 TACAACTTCG
*
164884 TGGCATCCC-TTTTAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTTAA
1 TGGCA-CCCTTTTTAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTCAA
* * * *
164940 TGGTACCCTTTTTAAGCCCACAAGTCAATGGCACCCTTCCAAAGCTCACAAGTCAG
1 TGGCACCCTTTTTAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTCAA
** * * *** ***
164996 TGGCACCCATTTCAAAGCCTACATGTCAGTGGCAAATTTTTTAAGCCCACAAGTCAA
1 TGGCACCC-TTTTTAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTCAA
* * *
165053 TGCCACGCCTTTTTAAGCCCACAACTCCGTGGCACCCTT
1 TGGCAC-CCTTTTTAAGCCCACAAGTCAGTGGCACCCTT
165092 TAAAGTCCAC
Statistics
Matches: 120, Mismatches: 29, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
55 3 0.03
56 54 0.45
57 61 0.51
58 2 0.02
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (56 bp):
TGGCACCCTTTTTAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTCAA
Found at i:164963 original size:28 final size:28
Alignment explanation
Indices: 164884--165092 Score: 177
Period size: 28 Copynumber: 7.4 Consensus size: 28
164874 TACAACTTCG
*
164884 TGGCATCCC-TTTTAAGCCCACAAGTCAG
1 TGGCA-CCCTTTTTAAGCCCACAAGTCAA
*** *
164912 TGGCACCCTTCCAAAGCCCACAAGTTAA
1 TGGCACCCTTTTTAAGCCCACAAGTCAA
*
164940 TGGTACCCTTTTTAAGCCCACAAGTCAA
1 TGGCACCCTTTTTAAGCCCACAAGTCAA
*** * *
164968 TGGCACCCTTCCAAAGCTCACAAGTCAG
1 TGGCACCCTTTTTAAGCCCACAAGTCAA
** * * *
164996 TGGCACCCATTTCAAAGCCTACATGTCAG
1 TGGCACCC-TTTTTAAGCCCACAAGTCAA
***
165025 TGGCAAATTTTTTAAGCCCACAAGTCAA
1 TGGCACCCTTTTTAAGCCCACAAGTCAA
* * **
165053 TGCCACGCCTTTTTAAGCCCACAACTCCG
1 TGGCAC-CCTTTTTAAGCCCACAAGTCAA
165082 TGGCACCCTTT
1 TGGCACCCTTT
165093 AAAGTCCACA
Statistics
Matches: 142, Mismatches: 36, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
27 3 0.02
28 96 0.68
29 43 0.30
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (28 bp):
TGGCACCCTTTTTAAGCCCACAAGTCAA
Found at i:165053 original size:85 final size:85
Alignment explanation
Indices: 164897--165091 Score: 230
Period size: 85 Copynumber: 2.3 Consensus size: 85
164887 CATCCCTTTT
* * **
164897 AAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTTAATGGTACCCTTTTTAAGCCCACA
1 AAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTCAATGGCAAACTTTTTAAGCCCACA
*
164962 AGTCAATGGCAC-CCTTCCA
66 AGTCAATGCCACGCCTTCCA
* * * * * *
164981 AAGCTCACAAGTCAGTGGCACCCATTTCAAAGCCTACATGTCAGTGGCAAATTTTTTAAGCCCAC
1 AAGCCCACAAGTCAGTGGCACCC-TTCCAAAGCCCACAAGTCAATGGCAAACTTTTTAAGCCCAC
***
165046 AAGTCAATGCCACGCCTTTTT
65 AAGTCAATGCCACGCCTTCCA
* *
165067 AAGCCCACAACTCCGTGGCACCCTT
1 AAGCCCACAAGTCAGTGGCACCCTT
165092 TAAAGTCCAC
Statistics
Matches: 92, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
84 22 0.24
85 46 0.50
86 24 0.26
ACGTcount: A:0.29, C:0.33, G:0.16, T:0.23
Consensus pattern (85 bp):
AAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTCAATGGCAAACTTTTTAAGCCCACA
AGTCAATGCCACGCCTTCCA
Found at i:165105 original size:27 final size:27
Alignment explanation
Indices: 165063--165119 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
165053 TGCCACGCCT
*
165063 TTTTAAGCCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * *
165090 TTTAAAGTCCACAACTTCGTGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCACCC
165117 TTT
1 TTT
165120 GTAGACACCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.28
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCC
Found at i:165758 original size:21 final size:22
Alignment explanation
Indices: 165722--165764 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
165712 AATTTTGAAT
*
165722 TTCAATAATTTGTATCGATACA
1 TTCAATAATATGTATCGATACA
165744 TTCAATAA-ATGTATCGATACA
1 TTCAATAATATGTATCGATACA
165765 AAAGTAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (22 bp):
TTCAATAATATGTATCGATACA
Found at i:165833 original size:13 final size:13
Alignment explanation
Indices: 165815--165840 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
165805 ACCAAGGAAA
165815 TGTATCGATACAT
1 TGTATCGATACAT
165828 TGTATCGATACAT
1 TGTATCGATACAT
165841 CGATCTTTGT
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
Done.