Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1954
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: 32318
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Found at i:646 original size:34 final size:33
Alignment explanation
Indices: 602--718 Score: 124
Period size: 34 Copynumber: 3.7 Consensus size: 33
592 TATTTATAGT
602 GTATCGATACATGAATAGTGATGAACAGTGATTA
1 GTATCGATACATGAATAGTGATGAACAGTGA-TA
*
636 TTATCGATACATGAATAGTGAT--AC-GTGAATA
1 GTATCGATACATGAATAGTGATGAACAGTG-ATA
* *
667 GTAT-GA-ACA-GTAACAATGATGAACAGTGAT-
1 GTATCGATACATG-AATAGTGATGAACAGTGATA
697 GTATCGATACATGAA-AGTGATG
1 GTATCGATACATGAATAGTGATG
719 TATCGATACA
Statistics
Matches: 70, Mismatches: 5, Indels: 19
0.74 0.05 0.20
Matches are distributed among these distances:
28 1 0.01
29 10 0.14
30 6 0.09
31 20 0.29
32 11 0.16
33 1 0.01
34 21 0.30
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.28
Consensus pattern (33 bp):
GTATCGATACATGAATAGTGATGAACAGTGATA
Found at i:716 original size:21 final size:22
Alignment explanation
Indices: 685--740 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
675 AGTAACAATG
685 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
707 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
728 ATGAACAGTGATG
1 ATGAACAGTGATG
741 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:747 original size:10 final size:10
Alignment explanation
Indices: 728--758 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
718 GTATCGATAC
728 ATGAACAGTG
1 ATGAACAGTG
*
738 ATGAATAGTG
1 ATGAACAGTG
748 ATGAACAGTG
1 ATGAACAGTG
758 A
1 A
759 AAAATGAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:750 original size:63 final size:66
Alignment explanation
Indices: 612--758 Score: 159
Period size: 63 Copynumber: 2.3 Consensus size: 66
602 GTATCGATAC
* * *
612 ATGAATAGTGATGAACAGTGATTATTATCGATACATGAATAGTGATACGTGAATAGTATGAACAG
1 ATGAATAGTGATGAACAGTGATTAGTATCGATACATGAATAGTGATACATGAATAGCATGAACAG
677 T
66 T
**
678 A--ACA-A-TGATGAACAGTGA-T-GTATCGATACATGAA-AGTGATGTATCG-ATA-CATGAAC
1 ATGA-ATAGTGATGAACAGTGATTAGTATCGATACATGAATAGTGATACAT-GAATAGCATGAAC
734 AGT
64 AGT
737 GATGAATAGTGATGAACAGTGA
1 -ATGAATAGTGATGAACAGTGA
759 AAAATGAGAT
Statistics
Matches: 69, Mismatches: 5, Indels: 17
0.76 0.05 0.19
Matches are distributed among these distances:
59 9 0.13
60 11 0.16
61 16 0.23
62 3 0.04
63 26 0.38
64 2 0.03
65 1 0.01
66 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (66 bp):
ATGAATAGTGATGAACAGTGATTAGTATCGATACATGAATAGTGATACATGAATAGCATGAACAG
T
Found at i:1643 original size:29 final size:29
Alignment explanation
Indices: 1601--1679 Score: 158
Period size: 29 Copynumber: 2.7 Consensus size: 29
1591 AGTTCCAATG
1601 TTTTAGTTGACTTTTAATTCCTTTTTGCA
1 TTTTAGTTGACTTTTAATTCCTTTTTGCA
1630 TTTTAGTTGACTTTTAATTCCTTTTTGCA
1 TTTTAGTTGACTTTTAATTCCTTTTTGCA
1659 TTTTAGTTGACTTTTAATTCC
1 TTTTAGTTGACTTTTAATTCC
1680 ATTATATTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.18, C:0.14, G:0.10, T:0.58
Consensus pattern (29 bp):
TTTTAGTTGACTTTTAATTCCTTTTTGCA
Found at i:3733 original size:159 final size:155
Alignment explanation
Indices: 3555--4792 Score: 510
Period size: 159 Copynumber: 7.9 Consensus size: 155
3545 TTGTGGGACA
* * * ** *
3555 AACTTTGATTTTAAGGAAAATAGGT-CAACA-AAAAGCTTTTCTTGGGAAGCCAAAACATCAACA
1 AACTTTGA-TTTAAAGAAAAT-GGTGGAA-AGAAAACCTTTTCTTGAAAAGCCAAAACATCAATA
* *
3618 TCATGTATCCCAATGAGAAGAACATGTTTATGGTGCCCAATCACGAAAAGATAGAGATTATTCTG
63 TCATGTATCCCAATGAGTAGAACATGTTTATGGTGCCCAATCACGAAAAGATAGAGATTATTATG
*
3683 AGAATCTAAGTTTATGTCATTTGACAAAAGG
128 AGAATCTAAGTTTATCTCATTTG---AAAGG
* * *
3714 AACTTTGATTGTAAAGAAAATGGTGAAAAGAAATCCTTTTCTTGCAAAAG-CAAAGA-ATTAATA
1 AACTTTGATT-TAAAGAAAATGGTGGAAAGAAAACCTTTTCTTG-AAAAGCCAAA-ACATCAATA
* * * * * * *
3777 TCATGTATTCCAATCA-TAGAACGTGTTTATGGAGCCCAATCATGAAAAGAATGGAGATTTTTAT
63 TCATGTATCCCAATGAGTAGAACATGTTTATGGTGCCCAATCACGAAAAG-ATAGAGATTATTAT
* * *
3841 GAGAATCCAAGTTTGTCTCACTTG--AGG
127 GAGAATCTAAGTTTATCTCATTTGAAAGG
** * * * * * * *
3868 AA--TAAATTTTAAGAAAATGGTGGAAAGAGAAGCTTTTTTTGTAAAA-TCGAAGCATCAATATC
1 AACTTTGATTTAAAGAAAATGGTGGAAAGAAAACCTTTTCTTG-AAAAGCCAAAACATCAATATC
* * * * *
3930 ATGTATCCTAATGAGTAGAACATGTTTATGGTGCCAAATTAGGAAATGA-ATGATGATTATTATG
65 ATGTATCCCAATGAGTAGAACATGTTTATGGTGCCCAATCACGAAAAGATA-GA-GATTATTATG
** *
3994 AGAATCTAAGTTCCTTTCATTTGATAGAGG
128 AGAATCTAAGTTTATCTCATTTGA-A-AGG
* * * * * *
4024 AACTTTGATTATAAAGAAAATAGTGGAAAGAAATCCTTTTCTTGCAAACCCAAAGCATCAATATT
1 AACTTTGATT-TAAAGAAAATGGTGGAAAGAAAACCTTTTCTTGAAAAGCCAAAACATCAATATC
* * * * * * * *
4089 GTGTATCCGAATGAGGATAACATATTTATGGTGCCCAATAAC-AAAAAACATGCAGA-T-TTATG
65 ATGTATCCCAATGAGTAGAACATGTTTATGGTGCCCAATCACGAAAAGATA-G-AGATTATTATG
* * *
4151 ACAATCTAAATTTATCTCATTTG-AGGG
128 AGAATCTAAGTTTATCTCATTTGAAAGG
* ** * * * * * * * *
4178 ACGAGCTTCGATTCT-AAGAAAAATACTAGAAAAAAAAGCTTTTTTTCATGAAA-TCAAAGCAAC
1 A--A-CTTTGATT-TAAAG-AAAATGGTGGAAAGAAAACCTTTTCTTGA--AAAGCCAAAACATC
* * * * * *
4241 AATATCATTTA-CCAGCAATAAAG-AGAACTTGTTAATGGTGCCTAATCGTA-GAAAAGATGGAG
59 AATATCATGTATCC--CAAT-GAGTAGAACATGTTTATGGTGCCCAATC--ACGAAAAGATAGAG
* * * * * *
4303 ATTGTTATGACAATCTAGGTTTGTCTCA-TTCAAGGG
119 ATTATTATGAGAATCTAAGTTTATCTCATTTGAAAGG
** * * * * *
4339 ACAAACTTTGATTCTATTGAAAATGGTGCAAAGAAAAGCTTTTTTTGTGACAA-CCAAAGCATCA
1 ---AACTTTGATT-TAAAGAAAATGGTGGAAAGAAAA-CCTTTTCT-TGAAAAGCCAAAACATCA
* * * * ** ** * * * * *
4403 ATGTCATTTAGTCTCAAAGAGGGGAATGTGTTTTTGGTTCCCAATCTCGAAAAGAATGGAGACTA
60 ATATCATGTA-TCCCAATGAGTAGAACATGTTTATGGTGCCCAATCACGAAAAG-ATAGAGATTA
* * ** *
4468 TTATGAGAAACTATGTTTGA-CTCATTTAGGGGATG
123 TTATGAGAATCTAAGTTT-ATCTCATTT--GAAAGG
* * ** *
4503 AACTTTGATTTTAAGGATAATGG-GGCAAAGAAAAGATTTTCTTGCAAAAG-CAAAACATTAATA
1 AACTTTGA-TTTAAAGAAAATGGTGG-AAAGAAAACCTTTTCTTG-AAAAGCCAAAACATCAATA
* * ** * *
4566 TCATGTATCCTAAGGAAG-AGAACGGGTTTATGGTGCCCAATCTC-AAAAGA-ATGAAGATCATT
63 TCATGTATCCCAATG-AGTAGAACATGTTTATGGTGCCCAATCACGAAAAGATA-G-AGATTATT
* * * * * *
4628 ACT-AAAATCCAGGTTTGTCTCATTTGATGCATG
125 A-TGAGAATCTAAGTTTATCTCATTTGA--AAGG
* * * * * * *
4661 AA-TTTAGACTCT-ATGAAAAGTGGTGGGAAGAAAAGCC-TTTCTTGCAAA-TCAAAGCATCACT
1 AACTTT-GA-TTTAAAGAAAA-TGGTGGAAAGAAAA-CCTTTTCTTGAAAAGCCAAAACATCAAT
* * ** * ** * *
4722 ATCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAATCTTG-AAAGAATGGGGATTATTA
62 ATCATGTATCCCAATGAGTAGAACATGTTTATGGTGCCCAATCACGAAAAG-ATAGAGATTATTA
4786 TGAGAAT
126 TGAGAAT
4793 TCATGTTCGT
Statistics
Matches: 813, Mismatches: 194, Indels: 146
0.71 0.17 0.13
Matches are distributed among these distances:
151 56 0.07
152 58 0.07
154 8 0.01
155 1 0.00
156 13 0.02
157 128 0.16
158 119 0.15
159 222 0.27
160 46 0.06
161 145 0.18
162 12 0.01
163 3 0.00
164 2 0.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.30
Consensus pattern (155 bp):
AACTTTGATTTAAAGAAAATGGTGGAAAGAAAACCTTTTCTTGAAAAGCCAAAACATCAATATCA
TGTATCCCAATGAGTAGAACATGTTTATGGTGCCCAATCACGAAAAGATAGAGATTATTATGAGA
ATCTAAGTTTATCTCATTTGAAAGG
Found at i:3935 original size:151 final size:152
Alignment explanation
Indices: 3611--4005 Score: 352
Period size: 152 Copynumber: 2.6 Consensus size: 152
3601 AAGCCAAAAC
* * * * * * *
3611 ATCAACATCATGTATCCCAATGAGAAGAACATGTTTATGGTGCCCAATCACGAAAAG-ATAGA-G
1 ATCAATATCATGTATCCTAATCAGTAGAACATGTTTATGGAGCCAAATCAGGAAAAGAAT-GATG
* * * * * ** *
3674 ATTATTCTGAGAATCTAAGTTTATGTCATTTGACAAAAGGAACTTTGATTGTAAAGAAAATGGTG
65 ATTATTATGAGAATCCAAGTTTGTCTCACTTG-----AGGAA--TAAATT-TTAAGAAAATGGTG
3739 AAAAGAAATCCTTTTCTTGCAAAAGCAAAGA
122 AAAAGAAATCCTTTTCTTGCAAAAGCAAAGA
* * * *
3770 ATTAATATCATGTATTCC-AATCA-TAGAACGTGTTTATGGAGCCCAATCATGAAAAGAATGGA-
1 ATCAATATCATGTA-TCCTAATCAGTAGAACATGTTTATGGAGCCAAATCAGGAAAAGAAT-GAT
* *
3832 GATTTTTATGAGAATCCAAGTTTGTCTCACTTGAGGAATAAATTTTAAGAAAATGGTGGAAAGAG
64 GATTATTATGAGAATCCAAGTTTGTCTCACTTGAGGAATAAATTTTAAGAAAATGGTGAAAAGA-
* * * * * *
3897 AA-GCTTTTTTTGTAAAATCGAAGC
128 AATCCTTTTCTTGCAAAAGCAAAGA
* * * *
3921 ATCAATATCATGTATCCTAATGAGTAGAACATGTTTATGGTGCCAAATTAGGAAATGAATGATGA
1 ATCAATATCATGTATCCTAATCAGTAGAACATGTTTATGGAGCCAAATCAGGAAAAGAATGATGA
*
3986 TTATTATGAGAATCTAAGTT
66 TTATTATGAGAATCCAAGTT
4006 CCTTTCATTT
Statistics
Matches: 196, Mismatches: 34, Indels: 19
0.79 0.14 0.08
Matches are distributed among these distances:
150 3 0.02
151 53 0.27
152 56 0.29
154 5 0.03
158 29 0.15
159 47 0.24
160 3 0.02
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (152 bp):
ATCAATATCATGTATCCTAATCAGTAGAACATGTTTATGGAGCCAAATCAGGAAAAGAATGATGA
TTATTATGAGAATCCAAGTTTGTCTCACTTGAGGAATAAATTTTAAGAAAATGGTGAAAAGAAAT
CCTTTTCTTGCAAAAGCAAAGA
Found at i:7529 original size:159 final size:155
Alignment explanation
Indices: 6853--10104 Score: 1115
Period size: 159 Copynumber: 20.8 Consensus size: 155
6843 TAAGGATTTT
* * * * *
6853 TGGTGCCCAATCATGAAAAGAATGA-A-GA-TA--AGATTGCATGTTTGTCTCATTTGAAGGACG
1 TGGTGCCCAATCTTGAAAAGAATGAGATTATTATGAGAATCCATGTTTGTCTCATTT-AAGGATG
* * * * * *
6913 AACTTTGATTTTAAGGAAAATAGGT-TAAAGAAAAGATTT-CTTGTGAAGCCAAAGCATCATTAT
65 AACTTTGACTTTAA-GAAAAT-GGTGGAAA-AAAAGCTTTCCTTGCGAAACCAAAGCATCAATAT
* * * *
6976 CGTATATCCTAATGAGGAGAACGTGTTTT
127 CATGTATCCTAATGAGAAGAACGTGTTTA
** * * * * * *
7005 TGGTGCCCAATC-ACAAAATG-ATGGAGATTGTTATGACAATCAAAGTTTGTCTTATTTGAGGGA
1 TGGTGCCCAATCTTGAAAA-GAAT-GAGATTATTATGAGAATCCATGTTTGTCTCATTT-AAGGA
* *
7068 -CAAGCTTTGA-TTCTATAAAAAATGGTGGAAAGAAAAGCTTTCCTTGC-AACACCAAAGCATCA
63 TGAA-CTTTGACTT-TA-AGAAAATGGTGGAAA-AAAAGCTTTCCTTGCGAA-ACCAAAGCATCA
* * *
7130 ATGA-CATGTGTCCTAATGA-AGGGAACGTGTTTT
123 AT-ATCATGTATCCTAATGAGA-AGAACGTGTTTA
* * * * * *
7163 TGCTTCCTAATCTCGAAAAGAATGGAGACTATTACGAGAATCCATGTTTGTCTCATTTAAGAGAT
1 TGGTGCCCAATCTTGAAAAGAAT-GAGATTATTATGAGAATCCATGTTTGTCTCATTTAAG-GAT
* * * * * * *
7228 GAACTTTGA-TTTAAGGAAAATAGAGCAAAAAAAGCTTTCCTTACGAAAGCAAATCATCAATATT
64 GAACTTTGACTTTAA-GAAAATGGTGGAAAAAAAGCTTTCCTTGCGAAACCAAAGCATCAATATC
* * * * *
7292 GTGTATACTAATAAG-GGAACCATGTTTA
128 ATGTATCCTAATGAGAAGAA-CGTGTTTA
* * *
7320 TGGTGCCCAATCTTGAAAAAAATGACGATCATTAAT-AGAATCCCTGTTTGTCTCATTTAAGGCA
1 TGGTGCCCAATCTTGAAAAGAATGA-GATTATT-ATGAGAATCCATGTTTGTCTCATTTAAGG-A
* * * *
7384 TGAACTTAGACTGTACAGAAAATGGTGTGAAGAAAAACCTTT-CTTGCGAAACCAAAGCACCAAT
63 TGAACTTTGACTTTA-AGAAAATGGTG-GAA-AAAAAGCTTTCCTTGCGAAACCAAAGCATCAAT
*
7448 ATCATGTATCCTAATGAGAAGAATGTGTTTA
125 ATCATGTATCCTAATGAGAAGAACGTGTTTA
* * * * * *
7479 TGATGCCTAATCTTGAAAAGAATAGAGATTATTATGAGAGTCCATATTTGTTTCATTTAAAAGAT
1 TGGTGCCCAATCTTGAAAAGAAT-GAGATTATTATGAGAATCCATGTTTGTCTCATTT-AAGGAT
* * * * * *
7544 GAACGTTGA-TTCTATGGAAAATGGTGGTGAAAAAAGCTTTGCTTGC-AAAGCAAAACCATCAAT
64 GAACTTTGACTT-TA-AGAAAATGGTGG-AAAAAAAGCTTTCCTTGCGAAA-CCAAAGCATCAAT
*
7607 ATCATGTATCCCAATGAG--G-A--T-TTT-
125 ATCATGTATCCTAATGAGAAGAACGTGTTTA
* * * *** ** * *
7631 TGTTGACCAATCATGAAAA-AATTGGAGACCCTTACAAGAATCGATTTTTGTCTCATTTGAAGGA
1 TGGTGCCCAATCTTGAAAAGAA-T-GAGATTATTATGAGAATCCATGTTTGTCTCATTT-AAGGA
* * * * ** * *
7695 TGAACTTTGATTTTAAGGAAAATAAGT-CAAAGGAAAGCTTTTATTAC-AAAGCAAAAGCATCAA
63 TGAACTTTGACTTTAA-GAAAAT-GGTGGAAA-AAAAGCTTTCCTTGCGAAA-CCAAAGCATCAA
* * * ** * *
7758 TATCGTATATCCCAACAAGGAGAACATGTTTA
124 TATCATGTATCCTAATGAGAAGAACGTGTTTA
* * * * * * *
7790 TGGTGCCCAATCATGAAATG-ATAGAGATTGTTATGACAATCCAAGTTTGTCTCATTTGAGCGAC
1 TGGTGCCCAATCTTGAAAAGAAT-GAGATTATTATGAGAATCCATGTTTGTCTCATTTAAG-GAT
* * ** * * * ** *
7854 AAACTTTG-GTTCTGTGGAAAATAGTGAAAAGAAAAGCTTTCCTTGCGACAGTAAAGCATCAATG
64 GAACTTTGACTT-T-AAGAAAATGGTGGAAA-AAAAGCTTTCCTTGCGAAACCAAAGCATCAATA
* ** *
7918 TCATGTA-CCTTAATGA-AGGGAACAAGTTTT
126 TCATGTATCC-TAATGAGA-AGAACGTGTTTA
* * * * *
7948 TGGTTCCCAATCTCGTAAAGAATAGAGACTATTATGAGAATCCATATTTGTCTCATTTAAGAGAT
1 TGGTGCCCAATCTTGAAAAGAAT-GAGATTATTATGAGAATCCATGTTTGTCTCATTTAAG-GAT
* * * * * * *
8013 GAACTTTGATTTTAAGGAAATTTGG-GCAAAGAAAAGCTTTCCTTACGAAAGCAAATCATTAATA
64 GAACTTTGACTTTAA-GAAA-ATGGTGGAAA-AAAAGCTTTCCTTGCGAAACCAAAGCATCAATA
** ** * *
8077 TTGTGTATAATAATGATG-AGAATGTGTTTT
126 TCATGTATCCTAATGA-GAAGAACGTGTTTA
* * * * *
8107 TGGTGCCCAATCATGAAAAAAATGAAGATCATTACT-AGAATCCATGTTTATCTCAGTTAAGGCA
1 TGGTGCCCAATCTTGAAAAGAATG-AGATTATTA-TGAGAATCCATGTTTGTCTCATTTAAGG-A
* * * * *
8171 TGAACTTAGGCTCTATGGAAAATGGTGGGAAGAAAAGCCTTT-CTTGCGAAACCAAAGCATCAAT
63 TGAACTTTGACTTTA-AGAAAATGGT-GGAAAAAAAG-CTTTCCTTGCGAAACCAAAGCATCAAT
*
8235 ATCATGTATCCTAATGA-ATAG-ACTATGTTTA
125 ATCATGTATCCTAATGAGA-AGAAC-GTGTTTA
* * * * * *
8266 TGGAGCCTAATCTTGAAATGAATGGGGTTATTATGAGAAT-CATGTTTGTCTCATTTAAGAGATA
1 TGGTGCCCAATCTTGAAAAGAATGAGATTATTATGAGAATCCATGTTTGTCTCATTTAAG-GATG
* * ** * * * * * *
8330 AATTTTGA-TTCTATGAAAAATTATGGTAAAAAGAGCTTTACTTAC-AAAGCCAAACCATTAATG
65 AACTTTGACTT-TAAG-AAAATGGTGG-AAAAAAAGCTTTCCTTGCGAAA-CCAAAGCATCAATA
* *
8393 TCATATATCCTAAT---AAGGA--T-TTT-
126 TCATGTATCCTAATGAGAAGAACGTGTTTA
* * * * * * * * * *
8416 TAGTGCCCAACCATGAAAATAATGGAGACTGTTA-CAGGAATCC-TAGTTTATCTTATTTGAGAG
1 TGGTGCCCAATCTTGAAAAGAAT-GAGATTATTATGA-GAATCCAT-GTTTGTCTCATTTAAG-G
** * * * *
8479 ACCAACTTTGA-TTAAAAGGAAAATAGGT-TAAAGAAAAGCTTTTCTTGC-AAAGCAAAAGCAAT
62 ATGAACTTTGACTT-TAA-GAAAAT-GGTGGAAA-AAAAGCTTTCCTTGCGAAA-CCAAAGC-AT
* *
8541 -AATA--GTGTAT-CTCAATGAGGAA-AATGTGTTTA
121 CAATATCATGTATCCT-AATGA-GAAGAACGTGTTTA
* * * ** * * * * * *
8573 TGGTGCCTAATCATGAAAAG-ATGAAGATTGTTACAACAACCCAAGTATGTCTCATTTGAGGGAC
1 TGGTGCCCAATCTTGAAAAGAATG-AGATTATTATGAGAATCCATGTTTGTCTCATTT-AAGGAT
* * * * *
8637 AAACTTTGA-TTTCATCGAAAA-AGTGAAAAGAAAAACTTTCCTTGC-AACACCAAAGCATCAAT
64 GAACTTTGACTTT-A-AGAAAATGGTGGAAA-AAAAGCTTTCCTTGCGAA-ACCAAAGCATCAAT
* * * * *
8699 GTCATGTATCCCAATCA-AGGGAACGTGTTTT
125 ATCATGTATCCTAATGAGA-AGAACGTGTTTA
* * * * * *
8730 TGGTTCCCAATC-TCAAAATGAATGGAGACTATTACGAGAATCCATATTTATCTCATTTAAAGGA
1 TGGTGCCCAATCTTGAAAA-GAAT-GAGATTATTATGAGAATCCATGTTTGTCTCATTT-AAGGA
* * * * * * * * * *
8794 TGAACTTTTATTTTAAGGAAAATTGG-GCAGAGAAAGCATTCCTTACAAAAACAAATCATCAATA
63 TGAACTTTGACTTTAA-GAAAA-TGGTGGAAAAAAAGCTTTCCTTGCGAAACCAAAGCATCAATA
* * *
8858 TCGTGTA-CACTAAAGAGGAGAACGTGTTTA
126 TCATGTATC-CTAATGAGAAGAACGTGTTTA
** * *
8888 TACTGCCCAATCATT--AAA-AATGAAGATCATTACT-AGAATCAATGTTTGTCTCATTTAAGGC
1 TGGTGCCCAATC-TTGAAAAGAATG-AGATTATTA-TGAGAATCCATGTTTGTCTCATTTAAGG-
* * * * * * *
8949 ACGAA-TTTAGGCATTATGGAAAATGGTGGGAAGAAAGGCCTATT--TTGTGAAACCAAAGCATC
62 ATGAACTTT-GACTTTA-AGAAAATGGT-GGAAAAAAAG-CT-TTCCTTGCGAAACCAAAGCATC
*
9011 AATATCATGTATCCTAATGAGTAA-AATGTGTTTA
122 AATATCATGTATCCTAATGAG-AAGAACGTGTTTA
* * * * * * * * *
9045 TAGTGCCTAATCTTGAAAATAATGGGCAATATTATGAGAATTCGTGTTTTTTTTTTCATTTAAGA
1 TGGTGCCCAATCTTGAAAAGAATGAG-ATTATTATGAGAATCCATG---TTTGTCTCATTTAAG-
* * * * * * *
9110 GATGAACTTTGATTTTATAAAAAATTGTGGTAAAAAAGCTTTCCTTGC-AAAGCCAAACCGTTAA
61 GATGAACTTTGACTTTA-AGAAAATGGTGGAAAAAAAGCTTTCCTTGCGAAA-CCAAAGCATCAA
** * * * *
9174 CGTAAAGCATTGC-AATGAG--G-A--T-TTT-
124 TATCATGTA-TCCTAATGAGAAGAACGTGTTTA
*** * ** * *
9199 TGGTGCCCAATCACAAAAAGAATGAAGACTATTACAAGAATCCAAGCTTGTCTCATTTAAGAGAT
1 TGGTGCCCAATCTTGAAAAGAATG-AGATTATTATGAGAATCCATGTTTGTCTCATTTAAG-GAT
* * * * *
9264 GAACTTTGATTTTAAGGAAAAT-ATGTCAAAGAAAAGCTTTTCCTAG-GAAGCCAAAGCATCAAT
64 GAACTTTGACTTTAA-GAAAATGGTG-GAAA-AAAAGC-TTTCCTTGCGAAACCAAAGCATCAAT
*
9327 AT-ATTGTATCCCAATGAG--G-A-GTGTTTA
125 ATCA-TGTATCCTAATGAGAAGAACGTGTTTA
* * * ** * * * *
9354 TGGTACCCAATCATGAAAAG-ATAGAGATTGTTACAACAATCCAAGTTTGTCTCATTTGAGCGAC
1 TGGTGCCCAATCTTGAAAAGAAT-GAGATTATTATGAGAATCCATGTTTGTCTCATTTAAG-GAT
* * * * ** * * *
9418 AAACTTTGA-TTGTATCG-AAATTGTGGAAAGAAAAGCTTTTCTTATGACACCAAAACATCAATG
64 GAACTTTGACTT-TA-AGAAAATGGTGGAAA-AAAAGCTTTCCTTGCGAAACCAAAGCATCAATA
* * * * *
9481 TCTTGTATCCCAA-CAAAAGGAACGTGTTTT
126 TCATGTATCCTAATGAGAA-GAACGTGTTTA
**** * * * * * * *
9511 TGGTTTGTAATCATGAAAA-AGTGAAAAGTGTTA-AAGAATCCATATTTGTCTCATTTAAGCGAT
1 TGGTGCCCAATCTTGAAAAGAATG-AGATTATTATGAGAATCCATGTTTGTCTCATTTAAG-GAT
* ** ** * * *
9574 AAACTTTGTTTTTAAGGAAAATGG-GGTAGAAAAAAATTTTCCTTGCAAAAGCAAATCATCAATA
64 GAACTTTGACTTTAA-GAAAATGGTGG-A-AAAAAAGCTTTCCTTGCGAAACCAAAGCATCAATA
* *
9638 TCATGTATTCTAATGAGAA-TA--TGTTTA
126 TCATGTATCCTAATGAGAAGAACGTGTTTA
* ** * * * * *
9665 TGGTGCCCAATCATGAAAAGAAAAAAGATCT-TTA-GTAGAGTCCATGTCTGCCTTATTTGAGGC
1 TGGTGCCCAATCTTGAAAAG-AATGAGAT-TATTATG-AGAATCCATGTTTGTCTCATTTAAGG-
** * * * ** *
9728 ATGAACTAAGACTCTACAAAAAATGGTGGGAAGAAAAGCCTTT-CTTATGAAACCAAAGTATCAA
62 ATGAACTTTGACTTTA-AGAAAATGGT-GGAAAAAAAG-CTTTCCTTGCGAAACCAAAGCATCAA
* ** * *
9792 TATCAAGTATTTTAATGAAAAAGAATGTGTTTA
124 TATCATGTATCCTAATG-AGAAGAACGTGTTTA
* * * * * *
9825 TGGGGCCTAATCTTGAAAATAATAGGGATTATTATGAGAATCCATATTTGTCTCATTTAAGAGAC
1 TGGTGCCCAATCTTGAAAAGAAT-GAGATTATTATGAGAATCCATGTTTGTCTCATTTAAG-GAT
* * ** * * * *
9890 GAACTATGA-TTCTATGAAAAATTATGGTAAAAAAAGTTTTCCTCGC-AAAGCCAAATCATCAAG
64 GAACTTTGACTT-TAAG-AAAATGGTGG-AAAAAAAGCTTTCCTTGCGAAA-CCAAAGCATCAAT
* *
9953 GTCATGCATCGC-AATGAG--G-A--T-TTT-
125 ATCATGTATC-CTAATGAGAAGAACGTGTTTA
* * * * * * **
9977 TTGTGCCCAATCATT-AAAATAATTGAGACTATTATAAGCATCCATGTTTATCTCATTTGTGGGA
1 TGGTGCCCAATC-TTGAAAAGAA-TGAGATTATTATGAGAATCCATGTTTGTCTCATTT-AAGGA
* * * * * * * * *
10041 TAAACTTTAACTCTAGGAAAATAGGT-CAATAAAA-CTTTTCTTGTGCAACCAAAGCATCAATAT
63 TGAACTTTGACTTTAAGAAAAT-GGTGGAAAAAAAGCTTTCCTTGCGAAACCAAAGCATCAATAT
10104 C
127 C
10105 GATGAGGAGA
Statistics
Matches: 2293, Mismatches: 595, Indels: 427
0.69 0.18 0.13
Matches are distributed among these distances:
149 21 0.01
150 35 0.02
151 72 0.03
152 263 0.11
153 72 0.03
154 113 0.05
155 76 0.03
156 238 0.10
157 406 0.18
158 331 0.14
159 469 0.20
160 131 0.06
161 31 0.01
162 31 0.01
163 4 0.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (155 bp):
TGGTGCCCAATCTTGAAAAGAATGAGATTATTATGAGAATCCATGTTTGTCTCATTTAAGGATGA
ACTTTGACTTTAAGAAAATGGTGGAAAAAAAGCTTTCCTTGCGAAACCAAAGCATCAATATCATG
TATCCTAATGAGAAGAACGTGTTTA
Found at i:8488 original size:785 final size:783
Alignment explanation
Indices: 5699--10105 Score: 4375
Period size: 785 Copynumber: 5.7 Consensus size: 783
5689 AAGGACGAAT
* * * * * * * *
5699 TTTGATTTTAAAGAAAATAGGTCAAAGAAAAACTTTTCTTGTC--AAGCCAAAGCATCAATATCT
1 TTTGATTTTAAGGAAAATTGGGCAAAGAAAAGCTTTCCTT-ACAAAAG-CAAATCATCAATATCG
** * * * * * * *
5762 TGTAT-CCCATGAAGAGTATGTGTTTATGGTGCCTAATAATGAAAAGAATAAATATCATTACTAG
64 TGTATACTAATGAAGAGAACGTGTTTATGGTGCCCAATCATGAAAAAAATGAAGATCATTACTAG
* * *
5826 AATCCATGTTTGTCTCATTTAAAAGCATGAA-TGAAGACTCTATGAAAAATGGT-GGAAGAAAAG
129 AATCCATGTTTGTCTCATTT-AAGGCATGAACT-TAGACTCTATGGAAAATGGTGGGAAGAAAAG
* * * * * *
5889 CCTTTCTTGCAAAACC-AAGCATCAATATCGTGTATCCTAAGGAGAAAAAAGTGTTTATAGTGCC
192 CCTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCC
** * * **
5953 TAATCTTGAAATGAACAAGGATTATTAAGAGAATCAAATG--T-T-TCATTTAAGAGACAAACTT
257 TAATCTTGAAATGAA-TGGGATTATTATGAGAATC-CATGTTTGTCTCATTTAAGAGATGAACTT
* * **
6014 TGATGCTATAAAAAATGGTGGTAAAAAAAGCTTTCCTTGCAAAGCCAAACCATTAATGTCATGCA
320 TGATTCTATGAAAAATTATGGT-AAAAAAGCTTTCCTTGCAAAGCCAAACCATTAATGTCAT--A
* * * * * *
6079 T-TGCAATGAGGATTTTGGGTGCCCAATCAAGAAAAGAGTGGAGATTGTTTCAAGAATCCATGTT
382 TATCCAATGAGGATTTTTGGTGCCCAATCATGAAAAGAATGGAGACTGTTACAAGAATCCATGTT
* * * *
6143 TGTCTTATTTGAGGGATAAACTTTGATTTTAAGGAAAATAGGAT-AAAGAAAAACTTTTCTTGCA
447 TGTCTCATTTGAGAGATGAACTTTGATTTTAAGGAAAATAGG-TCAAAGAAAAGCTTTTCTTGCA
* *
6207 AAGCCAAAGCATCAATATCG---------ATGAGGAGAACATGTTTATAGTGCCCAATCATCCAA
511 AAGCCAAAGCATCAATATCGTATATCCCAATGAGGAGAACATGTTTATGGTGCCCAATCAT-GAA
* * * * * *
6263 AAGATGGAGACTATTATGACAATCCAAGTTTGTCTCATTTGAGGGATAAAC-TTGATTATATAAA
575 AAGATAGAGATTGTTATGACAATCCAAGTTTGTCTCATTTGAGGGACAAACTTTGATTCTATAGA
* * ** *
6327 AAATGATTG-AAAGAAAAGTTTTTTTTGCGACACC-AAGCATCAATGTCATGTGTCCCT-ATGAA
640 AAAT-AGTGAAAAGAAAAGCTTTCCTTGCGACACCAAAGCATCAATGTCA--TGTACCTAATGAA
* * * * * * * *
6389 GCGAACATGTTTTTTGGTTTCCAATCTTGAAAAGAATGGAGGCTATTACGAGAATTCGTGTTTGT
702 GGGAACGTG-TTTTTGGTTCCCAATCTCGAAAAGAATGGAGACTATTACGAGAATCCATATTTGT
* * *
6454 CTCATTAAAGGGAAGAAC
766 CTCATTTAAGAGATGAAC
* * * * * *
6472 TTTGATTTCAGGGTAAA-TGGGCAAAGAAAAGCTTTCCTTGCAAAAACAAATC-TCAATATCATG
1 TTTGATTTTAAGGAAAATTGGGCAAAGAAAAGCTTTCCTTACAAAAGCAAATCATCAATATCGTG
* * * * * *
6535 TA-CCTAAT-AGGATAACGTGTTTATGGGGCCCAATCACGAAAAGAATGAAGATCATTACTAGAA
66 TATACTAATGAAGAGAACGTGTTTATGGTGCCCAATCATGAAAAAAATGAAGATCATTACTAGAA
* * ** * *
6598 TCCATGTTTGTCCCATTTGAGGCATGAACTTAGACTCTATGGAAAATACTGAGAAAAAAAGCCTT
131 TCCATGTTTGTCTCATTTAAGGCATGAACTTAGACTCTATGGAAAATGGTGGGAAGAAAAGCCTT
* * * * *
6663 TCTTGTGAAACCAAAGCATTAATTTCATGTATCCTAGTGAGAAAAATGTGTTTATGGTGCCTAAT
196 TCTTGCGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAAT
* * * *
6728 CTTGAAAAG-ATGGGGAATATTATGAGAATCCTTGTTTGTCTCATTTAAAAGATGAACTTTG---
261 CTTGAAATGAAT-GGGATTATTATGAGAATCCATGTTTGTCTCATTTAAGAGATGAACTTTGATT
* * * *
6789 ----G-TAAA--A----AAAAAAGCTTTTCTTCCAAAGCCAAACCATTAATGTCATGTATCCCAA
325 CTATGAAAAATTATGGTAAAAAAGCTTTCCTTGCAAAGCCAAACCATTAATGTCATATAT-CCAA
* * * *
6843 TAAGGATTTTTGGTGCCCAATCATGAAAAGAAT-GA-A--G--ATAAGATTGCATGTTTGTCTCA
389 TGAGGATTTTTGGTGCCCAATCATGAAAAGAATGGAGACTGTTACAAGAATCCATGTTTGTCTCA
* * * **
6902 TTTGA-AGGACGAACTTTGATTTTAAGGAAAATAGGTTAAAGAAAAG-ATTTCTTGTGAAGCCAA
454 TTTGAGA-GATGAACTTTGATTTTAAGGAAAATAGGTCAAAGAAAAGCTTTTCTTGCAAAGCCAA
* * * * * *
6965 AGCATCATTATCGTATATCCTAATGAGGAGAACGTGTTTTTGGTGCCCAATCA-CAAAATGATGG
518 AGCATCAATATCGTATATCCCAATGAGGAGAACATGTTTATGGTGCCCAATCATGAAAA-GATAG
* * * * *
7029 AGATTGTTATGACAATCAAAGTTTGTCTTATTTGAGGGACAAGCTTTGATTCTATAAAAAATGGT
582 AGATTGTTATGACAATCCAAGTTTGTCTCATTTGAGGGACAAACTTTGATTCTATAGAAAATAGT
* * * *
7094 GGAAAGAAAAGCTTTCCTTGCAACACCAAAGCATCAATGACATGTGTCCTAATGAAGGGAACGTG
647 GAAAAGAAAAGCTTTCCTTGCGACACCAAAGCATCAATGTCATGT-ACCTAATGAAGGGAACGTG
* * *
7159 TTTTTGCTTCCTAATCTCGAAAAGAATGGAGACTATTACGAGAATCCATGTTTGTCTCATTTAAG
711 TTTTTGGTTCCCAATCTCGAAAAGAATGGAGACTATTACGAGAATCCATATTTGTCTCATTTAAG
7224 AGATGAAC
776 AGATGAAC
* * * *
7232 TTTGA-TTTAAGGAAAATAGAGCAAA-AAAAGCTTTCCTTACGAAAGCAAATCATCAATATTGTG
1 TTTGATTTTAAGGAAAATTGGGCAAAGAAAAGCTTTCCTTACAAAAGCAAATCATCAATATCGTG
* * * * *
7295 TATACTAAT-AAGGGAACCATGTTTATGGTGCCCAATCTTGAAAAAAATGACGATCATTAATAGA
66 TATACTAATGAAGAGAA-CGTGTTTATGGTGCCCAATCATGAAAAAAATGAAGATCATTACTAGA
* * ** * *
7359 ATCCCTGTTTGTCTCATTTAAGGCATGAACTTAGACTGTACAGAAAATGGTGTGAAGAAAAACCT
130 ATCCATGTTTGTCTCATTTAAGGCATGAACTTAGACTCTATGGAAAATGGTGGGAAGAAAAGCCT
* *
7424 TTCTTGCGAAACCAAAGCACCAATATCATGTATCCTAATGAGAAGAATGTGTTTATGATGCCTAA
195 TTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAA
* * * * * * *
7489 TCTTGAAAAGAATAGAGATTATTATGAGAGTCCATATTTGTTTCATTTAAAAGATGAACGTTGAT
260 TCTTGAAATGAAT-GGGATTATTATGAGAATCCATGTTTGTCTCATTTAAGAGATGAACTTTGAT
* ** * * * * *
7554 TCTATGGAAAATGGTGGTGAAAAAAGCTTTGCTTGCAAAGCAAAACCATCAATATCATGTATCCC
324 TCTATGAAAAATTATGGT-AAAAAAGCTTTCCTTGCAAAGCCAAACCATTAATGTCATATAT-CC
* * ** * *
7619 AATGAGGATTTTTGTTGACCAATCATGAAAA-AATTGGAGACCCTTACAAGAATCGATTTTTGTC
387 AATGAGGATTTTTGGTGCCCAATCATGAAAAGAA-TGGAGACTGTTACAAGAATCCATGTTTGTC
* * * *
7683 TCATTTGA-AGGATGAACTTTGATTTTAAGGAAAATAAGTCAAAGGAAAGCTTTTATTACAAAGC
451 TCATTTGAGA-GATGAACTTTGATTTTAAGGAAAATAGGTCAAAGAAAAGCTTTTCTTGCAAAGC
* ** *
7747 AAAAGCATCAATATCGTATATCCCAACAAGGAGAACATGTTTATGGTGCCCAATCATGAAATGAT
515 CAAAGCATCAATATCGTATATCCCAATGAGGAGAACATGTTTATGGTGCCCAATCATGAAAAGAT
* * * *
7812 AGAGATTGTTATGACAATCCAAGTTTGTCTCATTTGAGCGACAAACTTTGGTTCTGTGGAAAATA
580 AGAGATTGTTATGACAATCCAAGTTTGTCTCATTTGAGGGACAAACTTTGATTCTATAGAAAATA
** *
7877 GTGAAAAGAAAAGCTTTCCTTGCGACAGTAAAGCATCAATGTCATGTACCTTAATGAAGGGAACA
645 GTGAAAAGAAAAGCTTTCCTTGCGACACCAAAGCATCAATGTCATGTACC-TAATGAAGGGAACG
* * * *
7942 AGTTTTTGGTTCCCAATCTCGTAAAGAATAGAGACTATTATGAGAATCCATATTTGTCTCATTTA
709 TGTTTTTGGTTCCCAATCTCGAAAAGAATGGAGACTATTACGAGAATCCATATTTGTCTCATTTA
8007 AGAGATGAAC
774 AGAGATGAAC
* * * *
8017 TTTGATTTTAAGGAAATTTGGGCAAAGAAAAGCTTTCCTTACGAAAGCAAATCATTAATATTGTG
1 TTTGATTTTAAGGAAAATTGGGCAAAGAAAAGCTTTCCTTACAAAAGCAAATCATCAATATCGTG
* * * *
8082 TATAATAATGATGAGAATGTGTTTTTGGTGCCCAATCATGAAAAAAATGAAGATCATTACTAGAA
66 TATACTAATGAAGAGAACGTGTTTATGGTGCCCAATCATGAAAAAAATGAAGATCATTACTAGAA
* * *
8147 TCCATGTTTATCTCAGTTAAGGCATGAACTTAGGCTCTATGGAAAATGGTGGGAAGAAAAGCCTT
131 TCCATGTTTGTCTCATTTAAGGCATGAACTTAGACTCTATGGAAAATGGTGGGAAGAAAAGCCTT
* * *
8212 TCTTGCGAAACCAAAGCATCAATATCATGTATCCTAATGA-ATAGACTATGTTTATGGAGCCTAA
196 TCTTGCGAAACCAAAGCATCAATATCATGTATCCTAATGAGA-AGAATGTGTTTATGGTGCCTAA
* * *
8276 TCTTGAAATGAATGGGGTTATTATGAGAAT-CATGTTTGTCTCATTTAAGAGATAAATTTTGATT
260 TCTTGAAATGAATGGGATTATTATGAGAATCCATGTTTGTCTCATTTAAGAGATGAACTTTGATT
* *
8340 CTATGAAAAATTATGGTAAAAAGAGCTTTACTTACAAAGCCAAACCATTAATGTCATATATCCTA
325 CTATGAAAAATTATGGTAAAAA-AGCTTTCCTTGCAAAGCCAAACCATTAATGTCATATATCC-A
* * * * * *
8405 ATAAGGATTTTTAGTGCCCAACCATGAAAATAATGGAGACTGTTACAGGAATCC-TAGTTTATCT
388 ATGAGGATTTTTGGTGCCCAATCATGAAAAGAATGGAGACTGTTACAAGAATCCAT-GTTTGTCT
* ** ** * *
8469 TATTTGAGAGACCAACTTTGATTAAAAGGAAAATAGGTTAAAGAAAAGCTTTTCTTGCAAAGCAA
452 CATTTGAGAGATGAACTTTGATTTTAAGGAAAATAGGTCAAAGAAAAGCTTTTCTTGCAAAGCCA
* * * ** *
8534 AAGCAAT-AATA--GTGTATCTCAATGAGGAAAATGTGTTTATGGTGCCTAATCATGAAAAGAT-
517 AAGC-ATCAATATCGTATATCCCAATGAGGAGAACATGTTTATGGTGCCCAATCATGAAAAGATA
** * * *
8595 GAAGATTGTTACAACAACCCAAGTATGTCTCATTTGAGGGACAAACTTTGATT-TCATCGAAAA-
581 G-AGATTGTTATGACAATCCAAGTTTGTCTCATTTGAGGGACAAACTTTGATTCT-ATAGAAAAT
* * * *
8658 AGTGAAAAGAAAAACTTTCCTTGCAACACCAAAGCATCAATGTCATGTATCCCAATCAAGGGAAC
644 AGTGAAAAGAAAAGCTTTCCTTGCGACACCAAAGCATCAATGTCATGTA-CCTAATGAAGGGAAC
*
8723 GTGTTTTTGGTTCCCAATCTC-AAAATGAATGGAGACTATTACGAGAATCCATATTTATCTCATT
708 GTGTTTTTGGTTCCCAATCTCGAAAA-GAATGGAGACTATTACGAGAATCCATATTTGTCTCATT
8787 TAA-AGGATGAAC
772 TAAGA-GATGAAC
* * * *
8799 TTTTATTTTAAGGAAAATTGGGCAGAG-AAAGCATTCCTTACAAAAACAAATCATCAATATCGTG
1 TTTGATTTTAAGGAAAATTGGGCAAAGAAAAGCTTTCCTTACAAAAGCAAATCATCAATATCGTG
* * * ** *
8863 TACACTAAAGAGGAGAACGTGTTTATACTGCCCAATCAT--TAAAAATGAAGATCATTACTAGAA
66 TATACTAATGAAGAGAACGTGTTTATGGTGCCCAATCATGAAAAAAATGAAGATCATTACTAGAA
* * * * *
8926 TCAATGTTTGTCTCATTTAAGGCACGAATTTAGGCAT-TATGGAAAATGGTGGGAAGAAAGGCCT
131 TCCATGTTTGTCTCATTTAAGGCATGAACTTAGAC-TCTATGGAAAATGGTGGGAAGAAAAGCCT
* *
8990 ATT-TTGTGAAACCAAAGCATCAATATCATGTATCCTAATGAGTAA-AATGTGTTTATAGTGCCT
195 -TTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAATGAG-AAGAATGTGTTTATGGTGCCT
* * * * *
9053 AATCTTGAAAAT-AATGGGCAATATTATGAGAATTCGTGTTTTTTTTTTCATTTAAGAGATGAAC
258 AATCTTG-AAATGAATGGG-ATTATTATGAGAATCCATG---TTTGTCTCATTTAAGAGATGAAC
* * * * * *
9117 TTTGATTTTATAAAAAATTGTGGTAAAAAAGCTTTCCTTGCAAAGCCAAACCGTTAACGT-AAAG
318 TTTGATTCTATGAAAAATTATGGTAAAAAAGCTTTCCTTGCAAAGCCAAACCATTAATGTCATA-
* * ** * * * *
9181 CATTGCAATGAGGATTTTTGGTGCCCAATCACAAAAAGAATGAAGACTATTACAAGAATCCAAGC
382 TA-TCCAATGAGGATTTTTGGTGCCCAATCATGAAAAGAATGGAGACTGTTACAAGAATCCATGT
* * *
9246 TTGTCTCATTTAAGAGATGAACTTTGATTTTAAGGAAAATATGTCAAAGAAAAGCTTTTCCTAG-
446 TTGTCTCATTTGAGAGATGAACTTTGATTTTAAGGAAAATAGGTCAAAGAAAAGCTTTT-CTTGC
* ** * *
9310 GAAGCCAAAGCATCAATATATTGTATCCCAATGAGGAG----TGTTTATGGTACCCAATCATGAA
510 AAAGCCAAAGCATCAATATCGTATATCCCAATGAGGAGAACATGTTTATGGTGCCCAATCATGAA
** * * *
9371 AAGATAGAGATTGTTACAACAATCCAAGTTTGTCTCATTTGAGCGACAAACTTTGATTGTATCG-
575 AAGATAGAGATTGTTATGACAATCCAAGTTTGTCTCATTTGAGGGACAAACTTTGATTCTATAGA
* * * ** * * * ** *
9435 AAATTGTGGAAAGAAAAGCTTTTCTTATGACACCAAAACATCAATGTCTTGTATCCCAACAAAAG
640 AAATAGTGAAAAGAAAAGCTTTCCTTGCGACACCAAAGCATCAATGTCATGTA-CCTAATGAAGG
*** * * * * * *
9500 GAACGTGTTTTTGGTTTGTAATCAT-GAAAA-AGTGAAAAGTGTTA-AAGAATCCATATTTGTCT
704 GAACGTGTTTTTGGTTCCCAATC-TCGAAAAGAATGGAGACTATTACGAGAATCCATATTTGTCT
* *
9562 CATTTAAGCGATAAAC
768 CATTTAAGAGATGAAC
* * * ** * *
9578 TTTGTTTTTAAGGAAAATGGGGTAGAA-AAAAATTTTCCTTGCAAAAGCAAATCATCAATATCAT
1 TTTGATTTTAAGGAAAATTGGGCA-AAGAAAAGCTTTCCTTACAAAAGCAAATCATCAATATCGT
* * * *
9642 GTATTCTAATG-AGA-ATA--TGTTTATGGTGCCCAATCATGAAAAGAAA-AAAGATCTTTAGTA
65 GTATACTAATGAAGAGA-ACGTGTTTATGGTGCCCAATCATGAAAA-AAATGAAGATCATTACTA
* * * * * * ***
9702 GAGTCCATGTCTGCCTTATTTGAGGCATGAACTAAGACTCTACAAAAAATGGTGGGAAGAAAAGC
128 GAATCCATGTTTGTCTCATTTAAGGCATGAACTTAGACTCTATGGAAAATGGTGGGAAGAAAAGC
** * * ** * *
9767 CTTTCTTATGAAACCAAAGTATCAATATCAAGTATTTTAATGAAAAAGAATGTGTTTATGGGGCC
193 CTTTCTTGCGAAACCAAAGCATCAATATCATGTATCCTAATG-AGAAGAATGTGTTTATGGTGCC
* * *
9832 TAATCTTGAAAAT-AATAGGGATTATTATGAGAATCCATATTTGTCTCATTTAAGAGACGAACTA
257 TAATCTTG-AAATGAAT-GGGATTATTATGAGAATCCATGTTTGTCTCATTTAAGAGATGAACTT
* * * * * **
9896 TGATTCTATGAAAAATTATGGTAAAAAAAGTTTTCCTCGCAAAGCCAAATCATCAAGGTCATGCA
320 TGATTCTATGAAAAATTATGGT-AAAAAAGCTTTCCTTGCAAAGCCAAACCATTAATGTCATATA
* * * * * * *
9961 TCGCAATGAGGATTTTTTGTGCCCAATCATTAAAATAATTGAGACTATTATAAGCATCCATGTTT
384 TC-CAATGAGGATTTTTGGTGCCCAATCATGAAAAGAATGGAGACTGTTACAAGAATCCATGTTT
* * * * * * * *
10026 ATCTCATTTGTGGGATAAACTTTAACTCT-AGGAAAATAGGTC-AATAAAA-CTTTTCTTGTGC-
448 GTCTCATTTGAGAGATGAACTTTGATTTTAAGGAAAATAGGTCAAAGAAAAGCTTTTC-T-TGCA
10087 AA-CCAAAGCATCAATATCG
511 AAGCCAAAGCATCAATATCG
10106 ATGAGGAGAA
Statistics
Matches: 3026, Mismatches: 493, Indels: 228
0.81 0.13 0.06
Matches are distributed among these distances:
751 27 0.01
752 56 0.02
754 1 0.00
756 2 0.00
757 3 0.00
758 74 0.02
759 79 0.03
760 153 0.05
761 34 0.01
762 162 0.05
763 44 0.01
765 3 0.00
769 26 0.01
770 102 0.03
771 73 0.02
772 24 0.01
773 33 0.01
774 1 0.00
775 21 0.01
776 9 0.00
777 73 0.02
778 179 0.06
779 296 0.10
780 122 0.04
781 221 0.07
782 157 0.05
783 232 0.08
784 119 0.04
785 443 0.15
786 40 0.01
787 212 0.07
788 5 0.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.30
Consensus pattern (783 bp):
TTTGATTTTAAGGAAAATTGGGCAAAGAAAAGCTTTCCTTACAAAAGCAAATCATCAATATCGTG
TATACTAATGAAGAGAACGTGTTTATGGTGCCCAATCATGAAAAAAATGAAGATCATTACTAGAA
TCCATGTTTGTCTCATTTAAGGCATGAACTTAGACTCTATGGAAAATGGTGGGAAGAAAAGCCTT
TCTTGCGAAACCAAAGCATCAATATCATGTATCCTAATGAGAAGAATGTGTTTATGGTGCCTAAT
CTTGAAATGAATGGGATTATTATGAGAATCCATGTTTGTCTCATTTAAGAGATGAACTTTGATTC
TATGAAAAATTATGGTAAAAAAGCTTTCCTTGCAAAGCCAAACCATTAATGTCATATATCCAATG
AGGATTTTTGGTGCCCAATCATGAAAAGAATGGAGACTGTTACAAGAATCCATGTTTGTCTCATT
TGAGAGATGAACTTTGATTTTAAGGAAAATAGGTCAAAGAAAAGCTTTTCTTGCAAAGCCAAAGC
ATCAATATCGTATATCCCAATGAGGAGAACATGTTTATGGTGCCCAATCATGAAAAGATAGAGAT
TGTTATGACAATCCAAGTTTGTCTCATTTGAGGGACAAACTTTGATTCTATAGAAAATAGTGAAA
AGAAAAGCTTTCCTTGCGACACCAAAGCATCAATGTCATGTACCTAATGAAGGGAACGTGTTTTT
GGTTCCCAATCTCGAAAAGAATGGAGACTATTACGAGAATCCATATTTGTCTCATTTAAGAGATG
AAC
Found at i:15062 original size:160 final size:157
Alignment explanation
Indices: 14777--15117 Score: 368
Period size: 160 Copynumber: 2.1 Consensus size: 157
14767 AGCTTTAAAG
* * *
14777 CAAATCATCAATATCATGTATACTAATAAAAAAACATGTTTATGGTGCCTAATCATGAAAAAAAT
1 CAAACCATCAATATCATGTATCCTAATAAAAAAACATGTTTATGGTGCCTAACCATGAAAAAAAT
*
14842 GAAGAACACTACTAGAATAAATGTTTGTCTCATTTAAGGCATGAACTTAGATTCTATGAAAAATG
66 GAAGAACACTACTAGAATAAATGTTTGTCTCATTTAAGGCA-GAACTTAGATTCTATGAAAAATA
*
14907 GT-GCGAAGAAAAGCCTTT-CTTGCAAAAC
130 GTGGC-AA-AAAAACCTTTGCTTGCAAAAC
* ** * *
14935 CAAAGCATCAATATCATGTATCCTAATATAAAAGAATGTGTTTATGGTGCCTAACCTTGAAAAGA
1 CAAACCATCAATATCATGTATCCTAATA-AAAA-AACATGTTTATGGTGCCTAACCATGAAAAAA
* * *** * *
15000 ATG-GGGACTACTA-TGAGAATTCCTGTTTGTCTCATTTAAGAGACA-AACTTTGATTTTATGAA
64 ATGAAGAAC-ACTACT-AGAATAAATGTTTGTCTCATTTAAG-G-CAGAACTTAGATTCTATGAA
* *
15062 AAATAGTGGCAAAAAAATCTTTGCTTGCAAAGC
125 AAATAGTGGCAAAAAAACCTTTGCTTGCAAAAC
* **
15095 CAAACCATTAACGTCATGTATCC
1 CAAACCATCAATATCATGTATCC
15118 CAAGAAGGAT
Statistics
Matches: 153, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
158 26 0.17
159 16 0.10
160 106 0.69
161 3 0.02
162 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (157 bp):
CAAACCATCAATATCATGTATCCTAATAAAAAAACATGTTTATGGTGCCTAACCATGAAAAAAAT
GAAGAACACTACTAGAATAAATGTTTGTCTCATTTAAGGCAGAACTTAGATTCTATGAAAAATAG
TGGCAAAAAAACCTTTGCTTGCAAAAC
Found at i:15830 original size:159 final size:158
Alignment explanation
Indices: 15550--15842 Score: 344
Period size: 159 Copynumber: 1.8 Consensus size: 158
15540 CCTACAAAAG
* * * *
15550 CAAATCATCAATATTGTGTATCCTAATGACAGAATGTGTTTATGGTGCCTAATCACAAAACGAAT
1 CAAAGCATCAATATTATGTATCCTAACGAAAGAATGTGTTTATGGTGCCTAATCACAAAACGAAT
* * * *
15615 GAAGATCATTACTAGAATCCATGTTTGTCTCATTGAAGGCACGAACTAAGACTCTATGAAAAATG
66 GAAGATCACTACTAGAATCCATATTTGTCTCATTGAAGGCACGAAATAAGACTCTATGAAAAATA
15680 GTGGGAAGAAAAGCCATTCTTGTGAAAC
131 GTGGGAAGAAAAGCCATTCTTGTGAAAC
* * **
15708 CAAAGCATCAATGTTATGTATCCTAACGAGAAGAATGTGTTTATTGTGCCTAATCTTGAAAA-GA
1 CAAAGCATCAATATTATGTATCCTAACGA-AAGAATGTGTTTATGGTGCCTAATC-ACAAAACGA
* * ** *
15772 AT-AGGGATCACTA-TGAGAATCCATATTTGTCTCATTTG-AGAG-ATGAAATTGGATTCTATGA
64 ATGA-AGATCACTACT-AGAATCCATATTTGTCTCA-TTGAAG-GCACGAAATAAGACTCTATGA
15833 AAAATAGTGG
125 AAAATAGTGG
15843 TAAAAAAACT
Statistics
Matches: 112, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
158 27 0.24
159 77 0.69
160 8 0.07
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (158 bp):
CAAAGCATCAATATTATGTATCCTAACGAAAGAATGTGTTTATGGTGCCTAATCACAAAACGAAT
GAAGATCACTACTAGAATCCATATTTGTCTCATTGAAGGCACGAAATAAGACTCTATGAAAAATA
GTGGGAAGAAAAGCCATTCTTGTGAAAC
Found at i:17674 original size:28 final size:28
Alignment explanation
Indices: 17609--17674 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
17599 TTATTCTTCT
* *
17609 TTATTGATTTCTTTTCCTTTGAAATTTC
1 TTATTGATTTCGTTTCCTTTCAAATTTC
* *
17637 TTGCTT-ATTTCGTTTCCTTTCATATTTC
1 TT-ATTGATTTCGTTTCCTTTCAAATTTC
17665 TTATTGATTT
1 TTATTGATTT
17675 TACTTCCTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
27 2 0.06
28 27 0.87
29 2 0.06
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (28 bp):
TTATTGATTTCGTTTCCTTTCAAATTTC
Found at i:21303 original size:12 final size:11
Alignment explanation
Indices: 21273--21347 Score: 68
Period size: 12 Copynumber: 6.8 Consensus size: 11
21263 AGAGAAAGAA
21273 GAGATAGGAGG
1 GAGATAGGAGG
*
21284 GATAATAGGAGGG
1 GA-GATAGGA-GG
21297 GAGATAGGA--
1 GAGATAGGAGG
*
21306 GAGATAGTA--
1 GAGATAGGAGG
21315 GAGATAGGAGG
1 GAGATAGGAGG
21326 GATGATAGGAGG
1 GA-GATAGGAGG
21338 AGAGATAGGA
1 -GAGATAGGA
21348 TAAATAATAG
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
9 16 0.30
11 4 0.07
12 28 0.52
13 6 0.11
ACGTcount: A:0.40, C:0.00, G:0.47, T:0.13
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:21322 original size:42 final size:42
Alignment explanation
Indices: 21263--21385 Score: 156
Period size: 42 Copynumber: 2.9 Consensus size: 42
21253 TAGCCTTCGA
* * *
21263 AGAGAAAGAAGAGATAGGAGGGATAATAGGAGGGGAGATAGG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGGGAGATAGG
*
21305 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGGGAGATAGG
* * * * *
21347 ATAAATAATAGAGAGAGAAGGGATGATAGGAGGAGGAGA
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGG-GGAGA
21386 GAAGAAGATG
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
42 66 0.94
43 4 0.06
ACGTcount: A:0.45, C:0.00, G:0.43, T:0.12
Consensus pattern (42 bp):
AGAGATAGTAGAGATAGGAGGGATGATAGGAGGGGAGATAGG
Found at i:29895 original size:58 final size:58
Alignment explanation
Indices: 29812--29921 Score: 193
Period size: 58 Copynumber: 1.9 Consensus size: 58
29802 GCTTGGGGCT
*
29812 GCCCAATTCATATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATTCATGGCTTGGA
1 GCCCAATTCACATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATTCATGGCTTGGA
* *
29870 GCCCAATTCACATGTCCAAGAAGAGTGGAGCCCAATTTGCATATATTTATGG
1 GCCCAATTCACATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATTCATGG
29922 GCCTATTGAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (58 bp):
GCCCAATTCACATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATTCATGGCTTGGA
Found at i:29898 original size:29 final size:29
Alignment explanation
Indices: 29812--29906 Score: 95
Period size: 29 Copynumber: 3.3 Consensus size: 29
29802 GCTTGGGGCT
*
29812 GCCCAATTCATATGTCCAAGAAGAGTGAA
1 GCCCAATTCATATGTCCAAGAAGAGTGGA
* * * **
29841 GCCCAATTTGCATATATTCATG--GCTTGGA
1 GCCCAA-TT-CATATGTCCAAGAAGAGTGGA
*
29870 GCCCAATTCACATGTCCAAGAAGAGTGGA
1 GCCCAATTCATATGTCCAAGAAGAGTGGA
29899 GCCCAATT
1 GCCCAATT
29907 TGCATATATT
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
27 8 0.16
28 2 0.04
29 29 0.58
30 2 0.04
31 9 0.18
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (29 bp):
GCCCAATTCATATGTCCAAGAAGAGTGGA
Done.