Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 28 of 352
Found at i:9014303 original size:18 final size:18
Alignment explanation
Indices: 9014280--9014324 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
9014270 TATAACTCCC
*
9014280 ATATTTTCTGTCTCTATA
1 ATATTTCCTGTCTCTATA
9014298 ATATTTCCTGTCTCTATA
1 ATATTTCCTGTCTCTATA
9014316 ATATTTCCT
1 ATATTTCCT
9014325 ATTACTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (18 bp):
ATATTTCCTGTCTCTATA
Found at i:9016055 original size:11 final size:11
Alignment explanation
Indices: 9016039--9016063 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9016029 ATATCTAGAA
9016039 TTCTCTTCATT
1 TTCTCTTCATT
9016050 TTCTCTTCATT
1 TTCTCTTCATT
9016061 TTC
1 TTC
9016064 ATCAGTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:9020872 original size:13 final size:13
Alignment explanation
Indices: 9020854--9020878 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9020844 GTTGGAAGGT
9020854 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
9020867 TTTTTCTTTTTT
1 TTTTTCTTTTTT
9020879 AACTTTACTC
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:9024419 original size:18 final size:18
Alignment explanation
Indices: 9024396--9024431 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9024386 AAAATTAGAT
9024396 GATTTGAATAAAAATATA
1 GATTTGAATAAAAATATA
**
9024414 GATTTGTGTAAAAATATA
1 GATTTGAATAAAAATATA
9024432 ATATTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (18 bp):
GATTTGAATAAAAATATA
Found at i:9027369 original size:13 final size:13
Alignment explanation
Indices: 9027351--9027375 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9027341 TTTTTTTATA
9027351 TTTTTAATTAATG
1 TTTTTAATTAATG
9027364 TTTTTAATTAAT
1 TTTTTAATTAAT
9027376 AAATATATTG
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:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:9027407 original size:16 final size:15
Alignment explanation
Indices: 9027386--9027434 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
9027376 AAATATATTG
9027386 TTTTTAATTATTAAAA
1 TTTTTAATTA-TAAAA
**
9027402 TTTTTAATTAATAACT
1 TTTTTAATT-ATAAAA
*
9027418 TTTTTATTTATAAAA
1 TTTTTAATTATAAAA
9027433 TT
1 TT
9027435 AAATAATAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
15 6 0.22
16 20 0.74
17 1 0.04
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTTAATTATAAAA
Found at i:9027659 original size:18 final size:18
Alignment explanation
Indices: 9027638--9027673 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9027628 TAATATTATA
9027638 AAATAAAATAATTATTTT
1 AAATAAAATAATTATTTT
* *
9027656 AAATACAATTATTATTTT
1 AAATAAAATAATTATTTT
9027674 TATATGTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATAAAATAATTATTTT
Found at i:9027713 original size:12 final size:13
Alignment explanation
Indices: 9027685--9027713 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9027675 ATATGTAAAA
9027685 TATTTCAAATAAT
1 TATTTCAAATAAT
9027698 TATTTCAAAT-AT
1 TATTTCAAATAAT
9027710 TATT
1 TATT
9027714 ATGTTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (13 bp):
TATTTCAAATAAT
Found at i:9027731 original size:45 final size:46
Alignment explanation
Indices: 9027643--9027740 Score: 126
Period size: 45 Copynumber: 2.1 Consensus size: 46
9027633 TTATAAAATA
* * *
9027643 AAATAATTATTTTAAATACAATTATTATTTTTATATGTAAAATATTTC
1 AAATAATTATTTCAAAT--AATTATTATGTTTATATATAAAATATTTC
* *
9027691 AAATAATTATTTCAAAT-ATTATTATGTTTATTTATGAAATATTTC
1 AAATAATTATTTCAAATAATTATTATGTTTATATATAAAATATTTC
9027736 AAATA
1 AAATA
9027741 CACATACAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
45 29 0.64
48 16 0.36
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (46 bp):
AAATAATTATTTCAAATAATTATTATGTTTATATATAAAATATTTC
Found at i:9039432 original size:40 final size:40
Alignment explanation
Indices: 9039377--9039456 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
9039367 TTTTAAAATC
9039377 AGAGATTCTCCAGGACTATTGAAACACAATCCAGTTCTTT
1 AGAGATTCTCCAGGACTATTGAAACACAATCCAGTTCTTT
9039417 AGAGATTCTCCAGGACTATTGAAACACAATCCAGTTCTTT
1 AGAGATTCTCCAGGACTATTGAAACACAATCCAGTTCTTT
9039457 CCCCAGATGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (40 bp):
AGAGATTCTCCAGGACTATTGAAACACAATCCAGTTCTTT
Found at i:9044155 original size:63 final size:63
Alignment explanation
Indices: 9044056--9044180 Score: 232
Period size: 63 Copynumber: 2.0 Consensus size: 63
9044046 CAGTCTGAGG
9044056 TGTTAAGTACTTCTAGTTCTATGAGAAAGGTCATGTCCCTCGAGCCAGCGGAGCATAAATCTA
1 TGTTAAGTACTTCTAGTTCTATGAGAAAGGTCATGTCCCTCGAGCCAGCGGAGCATAAATCTA
* *
9044119 TGTTAAGTACTTCTAGTTCTATGAGAAAGGTCATGTCTCTTGAGCCAGCGGAGCATAAATCT
1 TGTTAAGTACTTCTAGTTCTATGAGAAAGGTCATGTCCCTCGAGCCAGCGGAGCATAAATCT
9044181 GACATTCTTA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.30
Consensus pattern (63 bp):
TGTTAAGTACTTCTAGTTCTATGAGAAAGGTCATGTCCCTCGAGCCAGCGGAGCATAAATCTA
Found at i:9054433 original size:47 final size:47
Alignment explanation
Indices: 9054364--9054484 Score: 163
Period size: 47 Copynumber: 2.6 Consensus size: 47
9054354 TTCGGAGAAA
* * *
9054364 TGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 TGTGATATGTGCTACCGTATAAGACCATATACGGGATATGGCATCAG
* *
9054411 TGTGATATGTGCTACTGTATAAGACCATATATGGGATATGGCATCAG
1 TGTGATATGTGCTACCGTATAAGACCATATACGGGATATGGCATCAG
* * *
9054458 TGTGATATATGAT-CCGTGTAAGACCAT
1 TGTGATATGTGCTACCGTATAAGACCAT
9054485 GGCTGGGCTA
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
46 12 0.18
47 53 0.82
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (47 bp):
TGTGATATGTGCTACCGTATAAGACCATATACGGGATATGGCATCAG
Found at i:9057857 original size:78 final size:77
Alignment explanation
Indices: 9057724--9057953 Score: 370
Period size: 78 Copynumber: 2.9 Consensus size: 77
9057714 GAGTCACATC
* * *
9057724 TCATGTAACTATAGTGATTCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
1 TCATGTAACTGTAGTGAATCAGGATTA-CTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
*
9057789 AATGAATCATATA
65 AGTGAATCATATA
*
9057802 TCATGTAACTGTAGTGAATCAGGATTATCTTTTCAGGTCAAATCCTATCCTCCTTAAGTTACCAT
1 TCATGTAACTGTAGTGAATCAGGATTA-CTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
9057867 AGTGAATCATATA
65 AGTGAATCATATA
* *
9057880 TCATGTAACTGTAGCGAATCAAGATTACTTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
1 TCATGTAACTGTAGTGAATCAGGATTAC-TTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
9057945 AGTGAATCA
65 AGTGAATCA
9057954 GGAATAAATC
Statistics
Matches: 142, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
77 1 0.01
78 141 0.99
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.34
Consensus pattern (77 bp):
TCATGTAACTGTAGTGAATCAGGATTACTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATA
GTGAATCATATA
Found at i:9058054 original size:40 final size:40
Alignment explanation
Indices: 9057918--9058055 Score: 168
Period size: 40 Copynumber: 3.5 Consensus size: 40
9057908 TTTTTCAGGT
*
9057918 CAAATCCTATCCACCTTAAGTTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
* * * *
9057958 TAAATCATATTCACTTTAAATTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
* * * * **
9057998 CAAATTCTATCTACTTTGAGGTATTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
*
9058038 CGAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
9058056 TATTCTCGAG
Statistics
Matches: 79, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
Found at i:9060494 original size:31 final size:30
Alignment explanation
Indices: 9060459--9060528 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
9060449 ATACACAAAT
9060459 AATTTTATGTGTATGACTGAATCAAAATCAA
1 AATTTTATGTGTATGACTGAA-CAAAATCAA
* * * * *
9060490 AATTTTATATTTATGATTGCACCAAATCAA
1 AATTTTATGTGTATGACTGAACAAAATCAA
9060520 AA-TTTATGT
1 AATTTTATGT
9060529 ATCAAATTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 6 0.18
30 10 0.30
31 17 0.52
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (30 bp):
AATTTTATGTGTATGACTGAACAAAATCAA
Found at i:9061328 original size:3 final size:3
Alignment explanation
Indices: 9061320--9061345 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9061310 GAAAGGAGCA
9061320 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
9061346 GGCAAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9062734 original size:30 final size:30
Alignment explanation
Indices: 9062698--9062757 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
9062688 ACTTAACAAG
9062698 CAAATGCCTCAAAAATAATAAAAAAATTAA
1 CAAATGCCTCAAAAATAATAAAAAAATTAA
** *
9062728 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCAAAAATAATAAAAAAATTAA
9062758 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.60, C:0.13, G:0.03, T:0.23
Consensus pattern (30 bp):
CAAATGCCTCAAAAATAATAAAAAAATTAA
Found at i:9063701 original size:46 final size:46
Alignment explanation
Indices: 9063630--9063724 Score: 154
Period size: 46 Copynumber: 2.1 Consensus size: 46
9063620 TACGAAACTG
* * * *
9063630 TATTTTTTTCATGAATCTTAGTCGAAGTTTGTTAAAATGGATATAT
1 TATTTTTCTCATGAATCTGAATCGAAGTTTATTAAAATGGATATAT
9063676 TATTTTTCTCATGAATCTGAATCGAAGTTTATTAAAATGGATATAT
1 TATTTTTCTCATGAATCTGAATCGAAGTTTATTAAAATGGATATAT
9063722 TAT
1 TAT
9063725 CAAAATAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.46
Consensus pattern (46 bp):
TATTTTTCTCATGAATCTGAATCGAAGTTTATTAAAATGGATATAT
Found at i:9064824 original size:21 final size:21
Alignment explanation
Indices: 9064798--9064838 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9064788 ATAAATGTTA
* * *
9064798 AAAATCTTAAATTTTAAACTT
1 AAAATCCTAAACTTAAAACTT
9064819 AAAATCCTAAACTTAAAACT
1 AAAATCCTAAACTTAAAACT
9064839 CAAGATGTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAATCCTAAACTTAAAACTT
Found at i:9065829 original size:18 final size:18
Alignment explanation
Indices: 9065808--9065850 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
9065798 CATTTATAAA
*
9065808 TTTATAAATTTTTA-ATTT
1 TTTATAAATTTATATA-TT
*
9065826 TTTATATATTTATATATT
1 TTTATAAATTTATATATT
9065844 TTTATAA
1 TTTATAA
9065851 TAAATGGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATAAATTTATATATT
Found at i:9066634 original size:16 final size:17
Alignment explanation
Indices: 9066596--9066634 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
9066586 TAAGTAAATA
9066596 ATATT-ATATTATAATT
1 ATATTAATATTATAATT
9066612 ATATTAATATTATAA-T
1 ATATTAATATTATAATT
9066628 ATATTAA
1 ATATTAA
9066635 GTAAATAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTAATATTATAATT
Found at i:9071806 original size:17 final size:17
Alignment explanation
Indices: 9071784--9071817 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9071774 AAAATTATAT
9071784 AAAATAATAGAAAATTA
1 AAAATAATAGAAAATTA
9071801 AAAATAATAGAAAATTA
1 AAAATAATAGAAAATTA
9071818 TTTTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (17 bp):
AAAATAATAGAAAATTA
Found at i:9072007 original size:8 final size:8
Alignment explanation
Indices: 9071996--9072020 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
9071986 CTTTTCATAT
9071996 TTTTGAAA
1 TTTTGAAA
9072004 TTTTGAAA
1 TTTTGAAA
9072012 TTTTGAAA
1 TTTTGAAA
9072020 T
1 T
9072021 ATTCTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (8 bp):
TTTTGAAA
Found at i:9072436 original size:16 final size:16
Alignment explanation
Indices: 9072415--9072482 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
9072405 TTTGGTTCGC
9072415 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9072431 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
9072447 TGTAATGAATTAGAGG
1 TGTATTGGATTAGAGG
9072463 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
9072479 TGTA
1 TGTA
9072483 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:9072845 original size:15 final size:15
Alignment explanation
Indices: 9072817--9072875 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
9072807 ATAAAATATA
9072817 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
9072832 TATTAAATATATTAT
1 AATTAAATATATTAT
9072847 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
9072860 AATTTAATAATATTAT
1 AATTAAAT-ATATTAT
9072876 TAATAATCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 9 0.24
14 6 0.16
15 19 0.51
16 3 0.08
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:9072876 original size:44 final size:43
Alignment explanation
Indices: 9072794--9072878 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
9072784 CTCAAATCAT
* *
9072794 AATATATGATACTATAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATATAAAATATAAATTAAAATAATTATTATTA
* *
9072837 AATATATTATAAT-TAAAATATATAATT-TAATAA-TATTATTA
1 AATATATGATAATATAAAATATA-AATTAAAATAATTATTATTA
9072878 A
1 A
9072879 TAATCAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 9 0.24
42 13 0.35
43 15 0.41
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (43 bp):
AATATATGATAATATAAAATATAAATTAAAATAATTATTATTA
Found at i:9072914 original size:120 final size:120
Alignment explanation
Indices: 9072701--9073182 Score: 718
Period size: 120 Copynumber: 4.0 Consensus size: 120
9072691 ATCATATTTA
* * *
9072701 AACATAATAATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAA-TACTTAATAATC
1 AACATAATTATTATTAAATATAATT-TAATAAAAATATATAATTTAATAAAATTA-TTAATAATA
* * *
9072764 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
64 AATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
* * *
9072821 AACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAATATTATTAATAATCA
1 AACATAATTATTATTAAATATAATT-TAATAAAAATATATAATTTAATAAAATTATTAATAATAA
* * * *
9072885 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT
65 ATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
* *
9072941 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTATTAATAATAAA
* *
9073006 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAATTT
66 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
* * *
9073061 AAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTATTAATAATAAA
* *
9073126 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAGATT
66 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
9073181 AA
1 AA
9073183 TAATGTAGAT
Statistics
Matches: 345, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
120 340 0.99
121 5 0.01
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTATTAATAATAAA
TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
Found at i:9073022 original size:38 final size:37
Alignment explanation
Indices: 9072975--9073158 Score: 140
Period size: 37 Copynumber: 4.7 Consensus size: 37
9072965 TTAATAAAAA
*
9072975 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTAT
*
9073012 TATATGAATTTAATAAAA-TCATAATA-TATAATACTATAT
1 TATAT-AATTTAATAAAATTCTTAATATTA-AATA-T-TAT
* * * * ** *
9073051 AATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAA
1 TATATAATTT--AATAA-AATTCTT--A-AT-ATTAAATATTAT
*
9073095 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTAT
*
9073132 TATATGAATTTAATAAAA-TCATAATAT
1 TATAT-AATTTAATAAAATTCTTAATAT
9073159 ATAATACTAT
Statistics
Matches: 114, Mismatches: 19, Indels: 28
0.71 0.12 0.17
Matches are distributed among these distances:
36 2 0.02
37 36 0.32
38 32 0.28
39 7 0.06
40 5 0.04
41 6 0.05
42 7 0.06
44 11 0.10
45 2 0.02
46 5 0.04
47 1 0.01
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (37 bp):
TATATAATTTAATAAAATTCTTAATATTAAATATTAT
Found at i:9073124 original size:18 final size:18
Alignment explanation
Indices: 9072958--9073111 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
9072948 TTATTATTAA
9072958 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
9072976 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
* ****
9072994 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAAAT
9073013 ATATGAATTTAAT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
9073031 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
* *
9073047 ATATAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
9073066 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
9073078 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
9073096 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
9073112 TTCTTAATAT
Statistics
Matches: 99, Mismatches: 23, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 2 0.02
15 5 0.05
16 8 0.08
17 16 0.16
18 41 0.41
19 15 0.15
20 3 0.03
21 3 0.03
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:9083135 original size:89 final size:89
Alignment explanation
Indices: 9082984--9083159 Score: 334
Period size: 89 Copynumber: 2.0 Consensus size: 89
9082974 TGAAAATTTT
*
9082984 TGTATATAATTGCATTAAATCGGTGTTCCATATCATGTTGCAAATTCAATTAAAGTTAGTGAAAT
1 TGTATACAATTGCATTAAATCGGTGTTCCATATCATGTTGCAAATTCAATTAAAGTTAGTGAAAT
9083049 GTTGGGATTTATCCCTTGAATTCA
66 GTTGGGATTTATCCCTTGAATTCA
*
9083073 TGTATACAATTGCATTAAATCGGTGTTCCATATCATGTTGCAAATTCAATTAAAGTTTGTGAAAT
1 TGTATACAATTGCATTAAATCGGTGTTCCATATCATGTTGCAAATTCAATTAAAGTTAGTGAAAT
9083138 GTTGGGATTTATCCCTTGAATT
66 GTTGGGATTTATCCCTTGAATT
9083160 GATATTCATG
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 85 1.00
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (89 bp):
TGTATACAATTGCATTAAATCGGTGTTCCATATCATGTTGCAAATTCAATTAAAGTTAGTGAAAT
GTTGGGATTTATCCCTTGAATTCA
Found at i:9110766 original size:30 final size:30
Alignment explanation
Indices: 9110730--9110792 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
9110720 TCACCTGCTA
9110730 CAAAATTTAGAATATTGATATTGTATTCAC
1 CAAAATTTAGAATATTGATATTGTATTCAC
9110760 CAAAATTTAGAATATTGATATTGTATTCAC
1 CAAAATTTAGAATATTGATATTGTATTCAC
9110790 CAA
1 CAA
9110793 TTATAGGAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (30 bp):
CAAAATTTAGAATATTGATATTGTATTCAC
Found at i:9111004 original size:27 final size:27
Alignment explanation
Indices: 9110950--9111004 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
9110940 TGGGCCCCAC
**
9110950 CACAACCATTTGCGCCTCTGAGGTAGG
1 CACAACCATTTGCGCCTCTGAGAAAGG
*
9110977 CACAATCATTTGCGCCT-TAGAGAAAGG
1 CACAACCATTTGCGCCTCT-GAGAAAGG
9111004 C
1 C
9111005 TCGATTAGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (27 bp):
CACAACCATTTGCGCCTCTGAGAAAGG
Found at i:9117963 original size:34 final size:34
Alignment explanation
Indices: 9117925--9117991 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
9117915 ATTGCCATTT
* * *
9117925 AACCCATACTCCTCACAGCTCACCATCAACCAGC
1 AACCCATAATCCTAACAACTCACCATCAACCAGC
*
9117959 AACCCATAATCCTAACAACTCACTATCAACCAG
1 AACCCATAATCCTAACAACTCACCATCAACCAG
9117992 TAAGCCCCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.37, C:0.42, G:0.04, T:0.16
Consensus pattern (34 bp):
AACCCATAATCCTAACAACTCACCATCAACCAGC
Found at i:9133274 original size:14 final size:14
Alignment explanation
Indices: 9133255--9133301 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
9133245 TTAAGTAAAA
*
9133255 ATAATATAATATTT
1 ATAATATAAAATTT
9133269 ATAATATATAAATTT
1 ATAATATA-AAATTT
*
9133284 ATAA-ATAAGATTTT
1 ATAATATAA-AATTT
9133298 ATAA
1 ATAA
9133302 ATTGTCTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 1 0.03
14 19 0.66
15 9 0.31
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
ATAATATAAAATTT
Found at i:9133285 original size:15 final size:16
Alignment explanation
Indices: 9133258--9133287 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9133248 AGTAAAAATA
9133258 ATATAATATTTATAAT
1 ATATAATATTTATAAT
9133274 ATATAA-ATTTATAA
1 ATATAATATTTATAA
9133288 ATAAGATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATAATATTTATAAT
Found at i:9133290 original size:16 final size:17
Alignment explanation
Indices: 9133253--9133290 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
9133243 AATTAAGTAA
9133253 AAATAATATAATATTTAT
1 AAAT-ATATAATATTTAT
9133271 -AATATATAA-ATTTAT
1 AAATATATAATATTTAT
9133286 AAATA
1 AAATA
9133291 AGATTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.32
16 10 0.53
17 3 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATATATAATATTTAT
Found at i:9133438 original size:20 final size:20
Alignment explanation
Indices: 9133398--9133438 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9133388 ATATATAACA
* * *
9133398 TTTTTTATGAATAACTGTAT
1 TTTTTTATAAATAAATATAT
9133418 TTTTTTATAAATAAATATAT
1 TTTTTTATAAATAAATATAT
9133438 T
1 T
9133439 ATAATATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTTTTATAAATAAATATAT
Found at i:9134877 original size:107 final size:109
Alignment explanation
Indices: 9134738--9134946 Score: 332
Period size: 111 Copynumber: 1.9 Consensus size: 109
9134728 ATAAATATAT
* *
9134738 AATATTAGATTTTGAAAACTTGATATTAAAATAAAATTTAT-A-AAAATTAGCAATTGAATTAAA
1 AATAATAGATTTTGAAAACTTGATATTAAAATAAAATTTATAAGAAAATTAACAATTGAATTAAA
9134801 ATAGGTAGAATGATAAAGATACATATAAATAAATCCTCCAAATG
66 ATAGGTAGAATGATAAAGATACATATAAATAAATCCTCCAAATG
* *
9134845 AATAATAGATTTTGTAAACTTGATATTGAAATAAAATTTATAAAAGAAAATTAACAATTGAATTA
1 AATAATAGATTTTGAAAACTTGATATTAAAATAAAATTTAT--AAGAAAATTAACAATTGAATTA
* *
9134910 AATTAGGTAGAATGATAAAGATGCATATAAATAAATC
64 AAATAGGTAGAATGATAAAGATACATATAAATAAATC
9134947 TTCATTTGTC
Statistics
Matches: 92, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
107 38 0.41
110 1 0.01
111 53 0.58
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (109 bp):
AATAATAGATTTTGAAAACTTGATATTAAAATAAAATTTATAAGAAAATTAACAATTGAATTAAA
ATAGGTAGAATGATAAAGATACATATAAATAAATCCTCCAAATG
Found at i:9138269 original size:35 final size:35
Alignment explanation
Indices: 9138228--9138299 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
9138218 TTAAATATCA
9138228 TTTTAGAGGGAGTAGCTTTTAATGACACGTGTGAT
1 TTTTAGAGGGAGTAGCTTTTAATGACACGTGTGAT
9138263 TTTTAGAGGGAGTAGCTTTTAATGACACGTGTGAT
1 TTTTAGAGGGAGTAGCTTTTAATGACACGTGTGAT
9138298 TT
1 TT
9138300 GAATCGCTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.25, C:0.08, G:0.28, T:0.39
Consensus pattern (35 bp):
TTTTAGAGGGAGTAGCTTTTAATGACACGTGTGAT
Found at i:9138339 original size:21 final size:21
Alignment explanation
Indices: 9138319--9138357 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
9138309 AACATTTAAT
9138319 TAATTTTTAATT-AATTATAA
1 TAATTTTTAATTAAATTATAA
* *
9138339 TATTTTTTATTTAAATTAT
1 TAATTTTTAATTAAATTAT
9138358 TAAATATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TAATTTTTAATTAAATTATAA
Found at i:9146162 original size:16 final size:16
Alignment explanation
Indices: 9146141--9146171 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9146131 AGGCACTGTC
9146141 AAAACACAAAAAAAAT
1 AAAACACAAAAAAAAT
9146157 AAAACACAAAAAAAA
1 AAAACACAAAAAAAA
9146172 AATCCCCCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.13, G:0.00, T:0.03
Consensus pattern (16 bp):
AAAACACAAAAAAAAT
Found at i:9150548 original size:23 final size:22
Alignment explanation
Indices: 9150522--9150570 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
9150512 TTAATTTTTT
9150522 AAAT-CTAAAAATTAAAAATACTA
1 AAATCCTAAAAA-TAAAAATAC-A
*
9150545 AAATCCTAAAAATAGAAATACA
1 AAATCCTAAAAATAAAAATACA
9150567 AAAT
1 AAAT
9150571 TAATTTTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 5 0.21
23 12 0.50
24 7 0.29
ACGTcount: A:0.65, C:0.10, G:0.02, T:0.22
Consensus pattern (22 bp):
AAATCCTAAAAATAAAAATACA
Found at i:9158296 original size:18 final size:17
Alignment explanation
Indices: 9158275--9158309 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9158265 TTATTATTAA
*
9158275 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
9158293 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
9158310 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:9158455 original size:157 final size:157
Alignment explanation
Indices: 9158169--9158476 Score: 562
Period size: 157 Copynumber: 2.0 Consensus size: 157
9158159 CCCTTAGCAT
*
9158169 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* * *
9158234 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAAAACATTTTAATTAAAATATATAA
9158299 TTTAATAAAATTCTTAATAATTACCAG
131 TTTAATAAAATTCTTAATAATTACCAG
*
9158326 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
*
9158391 TAATAAATAATTTAATCATATTTTAACATAATTATTATTAAAAACATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAAAACATTTTAATTAAAATATATAA
9158456 TTTAATAAAATTCTTAATAAT
131 TTTAATAAAATTCTTAATAAT
9158477 CAATATTCTT
Statistics
Matches: 145, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 145 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.48
Consensus pattern (157 bp):
AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAAAACATTTTAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAG
Found at i:9158548 original size:120 final size:120
Alignment explanation
Indices: 9158412--9158729 Score: 627
Period size: 120 Copynumber: 2.6 Consensus size: 120
9158402 TTAATCATAT
9158412 TTTAACATAATTATTATTAAAAACATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAAAACATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
9158477 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
9158532 TTTAACATAATTATTATTAAAAACATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAAAACATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
9158597 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
*
9158652 TTTAACATAATTATTATTAAAAATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAAAACATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
9158717 CAATATTCTTATA
66 CAATATTCTTATA
9158730 ACAAAAATTC
Statistics
Matches: 197, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 197 1.00
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAAAACATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
Found at i:9158584 original size:59 final size:55
Alignment explanation
Indices: 9158392--9158712 Score: 206
Period size: 55 Copynumber: 5.5 Consensus size: 55
9158382 TAATATCAAT
* * *
9158392 AATAAATAATTTAATCATA-TTTTAACATAATTATTATTAAAAACATTTTAATTAA
1 AATATATAATTTAATAAAATTTTTAACATAATTATTATTAAAAA-ATTTTAATTAA
* * * * *
9158447 AATATATAATTTAATAAAATTCTTAATAATCAA-TATTCTTATATAAA-TTT-ACTAA
1 AATATATAATTTAATAAAATTTTTAA-CAT-AATTATTATTA-AAAAATTTTAATTAA
*
9158502 AATCATAATATATGATACTATAAAATATAATTTAACATAATTATTATTAAAAACATTTTAATTAA
1 AAT-AT-ATA-AT-TTA--ATAAAAT-T--TTTAACATAATTATTATTAAAAA-ATTTTAATTAA
* * * * *
9158567 AATATATAATTTAATAAAATTCTTAATAATCAA-TATTCTTATATAAA-TTT-ACTAA
1 AATATATAATTTAATAAAATTTTTAA-CAT-AATTATTATTA-AAAAATTTTAATTAA
*
9158622 AATCATAATATATGATACTATAAAATATAATTTAACATAATTATTATTAAAAATATTTTAATTAA
1 AAT-AT-ATA-AT-TTA--ATAAAAT-T--TTTAACATAATTATTATTAAAAA-ATTTTAATTAA
*
9158687 AATATATAATTTAATAAAATTCTTAA
1 AATATATAATTTAATAAAATTTTTAA
9158713 TAATCAATAT
Statistics
Matches: 205, Mismatches: 28, Indels: 65
0.69 0.09 0.22
Matches are distributed among these distances:
55 30 0.15
56 23 0.11
57 26 0.13
58 16 0.08
59 18 0.09
61 18 0.09
62 16 0.08
63 26 0.13
64 18 0.09
65 14 0.07
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (55 bp):
AATATATAATTTAATAAAATTTTTAACATAATTATTATTAAAAAATTTTAATTAA
Found at i:9162254 original size:18 final size:17
Alignment explanation
Indices: 9162231--9162291 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
9162221 ACTCTCCCTA
9162231 TTTACTTTCCCTCAAACT
1 TTTACTTTCCC-CAAACT
* *
9162249 TTTACTCT-CCAAAACAT
1 TTTACTTTCCCCAAAC-T
*
9162266 TTTATTTTCCCCCTAAACT
1 TTTACTTT-CCCC-AAACT
9162285 TTTACTT
1 TTTACTT
9162292 CTCACACTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
16 4 0.12
17 9 0.27
18 7 0.21
19 9 0.27
20 4 0.12
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTACTTTCCCCAAACT
Found at i:9162591 original size:16 final size:18
Alignment explanation
Indices: 9162558--9162593 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
9162548 AAAAATCACA
9162558 TTTTTACATTTAATATAT
1 TTTTTACATTTAATATAT
9162576 TTTTTA-ATTTCAATATAT
1 TTTTTACATTT-AATATAT
9162594 ATAGTGACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTTACATTTAATATAT
Found at i:9164061 original size:23 final size:23
Alignment explanation
Indices: 9164018--9164061 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
9164008 AATATTATAT
* *
9164018 ATATTAAATGAATAAATTAAAAA
1 ATATTAAATCAATAAAATAAAAA
9164041 ATATTAAATC-ATAAAAATAAA
1 ATATTAAATCAAT-AAAATAAA
9164062 TGTGAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 16 0.89
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (23 bp):
ATATTAAATCAATAAAATAAAAA
Found at i:9164446 original size:17 final size:17
Alignment explanation
Indices: 9164424--9164460 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
9164414 ATAAGAGCAT
9164424 AATAAAATATTTAAAAA
1 AATAAAATATTTAAAAA
9164441 AAT-AAATATTTAAAAA
1 AATAAAATATTTAAAAA
9164457 AATA
1 AATA
9164461 TATAGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AATAAAATATTTAAAAA
Found at i:9166084 original size:21 final size:21
Alignment explanation
Indices: 9166035--9166085 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
9166025 CTTAAACCCC
9166035 AAGGTTTAGGGTTTGAGATTT
1 AAGGTTTAGGGTTTGAGATTT
* *
9166056 ATGATTTAGGGTTTGAGATTT
1 AAGGTTTAGGGTTTGAGATTT
9166077 AAGGTTTAG
1 AAGGTTTAG
9166086 ATTTAAGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.43
Consensus pattern (21 bp):
AAGGTTTAGGGTTTGAGATTT
Found at i:9166089 original size:13 final size:13
Alignment explanation
Indices: 9166053--9166097 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
9166043 GGGTTTGAGA
*
9166053 TTTATGATTTAGGG
1 TTTA-GATTTAAGG
9166067 TTTGAGATTTAAGG
1 TTT-AGATTTAAGG
9166081 TTTAGATTTAAGG
1 TTTAGATTTAAGG
9166094 TTTA
1 TTTA
9166098 AGTATTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 14 0.48
14 14 0.48
15 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (13 bp):
TTTAGATTTAAGG
Found at i:9176881 original size:38 final size:38
Alignment explanation
Indices: 9176839--9176912 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
9176829 TCCCCACTAT
* * * *
9176839 TTTAAATTCAAAGCTATTACTATAATTTTTTTTTTTGC
1 TTTAAAATAAAAGCTATTACTATAATATTTATTTTTGC
9176877 TTTAAAATAAAAGCTATTACTATAATATTTATTTTT
1 TTTAAAATAAAAGCTATTACTATAATATTTATTTTT
9176913 AGTAATCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (38 bp):
TTTAAAATAAAAGCTATTACTATAATATTTATTTTTGC
Found at i:9178878 original size:22 final size:21
Alignment explanation
Indices: 9178824--9178879 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
9178814 TTACTGTTGG
9178824 TTTTGTTGTTATTTGCTATCA
1 TTTTGTTGTTATTTGCTATCA
* *
9178845 TTTTATTATTATATTGCTA-CTA
1 TTTTGTTGTTAT-TTGCTATC-A
9178867 TTTTGTTGTTATT
1 TTTTGTTGTTATT
9178880 GTTTTGATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.18, C:0.07, G:0.11, T:0.64
Consensus pattern (21 bp):
TTTTGTTGTTATTTGCTATCA
Found at i:9183373 original size:65 final size:65
Alignment explanation
Indices: 9183236--9183422 Score: 218
Period size: 65 Copynumber: 2.9 Consensus size: 65
9183226 GCAAACATCC
* * * *
9183236 TGATCGGTAGTGATCCTGCATGTGTTGCGGACTAC---CGCAACTCTTTGTGAGCATCCTGTTAT
1 TGATCGGTTGTGATCCTGCATATATTGCGGAC-ACAAACGCAACTCTTTGTGAGCATCCTATTAT
9183298 A
65 A
* * * * * * *
9183299 TGATCGGTTGTGATCTTGCATGTATTGTGGACACAAACGTAGCTCTTTGTGAGCGTCCTATTTTA
1 TGATCGGTTGTGATCCTGCATATATTGCGGACACAAACGCAACTCTTTGTGAGCATCCTATTATA
* * *
9183364 TGATTGGTTGTGATCCTGTATATATTGCGGACACAAACGCAACTCTTTGTGAGTATCCT
1 TGATCGGTTGTGATCCTGCATATATTGCGGACACAAACGCAACTCTTTGTGAGCATCCT
9183423 GATATGGCTC
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
62 2 0.02
63 28 0.27
65 73 0.71
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (65 bp):
TGATCGGTTGTGATCCTGCATATATTGCGGACACAAACGCAACTCTTTGTGAGCATCCTATTATA
Found at i:9184215 original size:20 final size:20
Alignment explanation
Indices: 9184187--9184225 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9184177 GTATGGCAAA
9184187 AATAAAATACATGTGTAATT
1 AATAAAATACATGTGTAATT
* *
9184207 AATATAATACATTTGTAAT
1 AATAAAATACATGTGTAAT
9184226 ACATGTATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (20 bp):
AATAAAATACATGTGTAATT
Found at i:9188483 original size:19 final size:19
Alignment explanation
Indices: 9188456--9188500 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9188446 TTTGATCAAA
* *
9188456 ATAATAACA-TAATTTTTT
1 ATAAAAACACTAATTTTAT
9188474 CATAAAAACACTAATTTTAT
1 -ATAAAAACACTAATTTTAT
9188494 ATAAAAA
1 ATAAAAA
9188501 AATTTATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAAAACACTAATTTTAT
Found at i:9194222 original size:16 final size:16
Alignment explanation
Indices: 9194189--9194222 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9194179 GGAGATTGTT
*
9194189 AACATTAATGGGAGAC
1 AACATTAATGGCAGAC
*
9194205 AACATTAATGGCATAC
1 AACATTAATGGCAGAC
9194221 AA
1 AA
9194223 AGTGGTGCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.21
Consensus pattern (16 bp):
AACATTAATGGCAGAC
Found at i:9202410 original size:24 final size:25
Alignment explanation
Indices: 9202360--9202411 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
9202350 ATAAATTTTG
* *
9202360 AATTATGCAAATTGATAGTTATTTA
1 AATTATGCAAATTAATAGTTATGTA
**
9202385 AATTATGCAAA-TAATTTTTATGTA
1 AATTATGCAAATTAATAGTTATGTA
9202409 AAT
1 AAT
9202412 CATTTATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (25 bp):
AATTATGCAAATTAATAGTTATGTA
Found at i:9207550 original size:9 final size:8
Alignment explanation
Indices: 9207519--9207549 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
9207509 GTGTGAGTTC
*
9207519 AAAAAAGG
1 AAAAAAAG
9207527 AAAAAAAG
1 AAAAAAAG
9207535 AAAAAAAG
1 AAAAAAAG
9207543 AAAAAAA
1 AAAAAAA
9207550 AAAGAAGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:9213198 original size:23 final size:23
Alignment explanation
Indices: 9213171--9213218 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
9213161 TTTTTATAAA
*
9213171 TTTATTCTAGTTAGTTAGTTAAT
1 TTTATTCTAATTAGTTAGTTAAT
* * *
9213194 TTTATTTTAATTATTTATTTAAT
1 TTTATTCTAATTAGTTAGTTAAT
9213217 TT
1 TT
9213219 GAATTAACAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (23 bp):
TTTATTCTAATTAGTTAGTTAAT
Found at i:9222021 original size:35 final size:36
Alignment explanation
Indices: 9221977--9222047 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
9221967 GCATCCCACA
* *
9221977 AAGACTCAA-TTACTGGATTCTTTAACTTCCCAAGT
1 AAGACTCAATTTACCGGATTCTTTAAATTCCCAAGT
*
9222012 AAGACTCAATTTACCGGGTTCTTTAAATTCCCAAGT
1 AAGACTCAATTTACCGGATTCTTTAAATTCCCAAGT
9222048 TTTTTTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 9 0.28
36 23 0.72
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.34
Consensus pattern (36 bp):
AAGACTCAATTTACCGGATTCTTTAAATTCCCAAGT
Found at i:9234154 original size:14 final size:14
Alignment explanation
Indices: 9234137--9234171 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
9234127 TTTATTAGAA
9234137 TAATATTATATTAT
1 TAATATTATATTAT
9234151 TAATATTATATTAT
1 TAATATTATATTAT
9234165 TGAATAT
1 T-AATAT
9234172 AGATTTATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (14 bp):
TAATATTATATTAT
Found at i:9241658 original size:12 final size:12
Alignment explanation
Indices: 9241641--9241666 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9241631 ATATGAAGAA
9241641 TTTTCTTCATCT
1 TTTTCTTCATCT
9241653 TTTTCTTCATCT
1 TTTTCTTCATCT
9241665 TT
1 TT
9241667 CCATGCTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTCTTCATCT
Found at i:9242287 original size:18 final size:20
Alignment explanation
Indices: 9242264--9242303 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
9242254 TATTAGATAA
9242264 GTGAAA-TTATGGAAA-AAT
1 GTGAAATTTATGGAAACAAT
9242282 GTGAAATTTTATGGAAACAAT
1 GTGAAA-TTTATGGAAACAAT
9242303 G
1 G
9242304 ACTAAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
20 9 0.47
21 4 0.21
ACGTcount: A:0.45, C:0.03, G:0.23, T:0.30
Consensus pattern (20 bp):
GTGAAATTTATGGAAACAAT
Found at i:9243306 original size:4 final size:4
Alignment explanation
Indices: 9243299--9243371 Score: 56
Period size: 4 Copynumber: 17.8 Consensus size: 4
9243289 AAGTTAAAAA
* *** * * **
9243299 AAAG AAAG AAAG AAAG AAAG ATAG AAAG AGTT ACAG AGAG CAAACG TGAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG -AAA-G AAAG
9243349 AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAA
9243372 TAGAAAAGGG
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
4 49 0.92
5 3 0.06
6 1 0.02
ACGTcount: A:0.64, C:0.04, G:0.26, T:0.05
Consensus pattern (4 bp):
AAAG
Found at i:9246178 original size:52 final size:49
Alignment explanation
Indices: 9246093--9246459 Score: 449
Period size: 46 Copynumber: 7.6 Consensus size: 49
9246083 TTTGAGTACT
* **
9246093 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
9246139 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
9246191 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
9246237 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
9246283 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
9246335 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
9246387 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
9246433 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
9246460 GCTACACTTA
Statistics
Matches: 294, Mismatches: 13, Indels: 28
0.88 0.04 0.08
Matches are distributed among these distances:
46 156 0.53
48 1 0.00
49 2 0.01
50 1 0.00
52 134 0.46
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:9246213 original size:98 final size:97
Alignment explanation
Indices: 9246093--9246459 Score: 510
Period size: 98 Copynumber: 3.7 Consensus size: 97
9246083 TTTGAGTACT
* *
9246093 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
9246158 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
9246191 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
9246251 AAAGTGATAAGTGATAGCTTCGGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
9246283 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
9246348 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * *
9246387 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
9246452 GATAAGTG
65 GA-AAGTG
9246460 GCTACACTTA
Statistics
Matches: 242, Mismatches: 13, Indels: 27
0.86 0.05 0.10
Matches are distributed among these distances:
92 42 0.17
95 1 0.00
96 1 0.00
98 145 0.60
99 10 0.04
101 1 0.00
104 42 0.17
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:9246441 original size:196 final size:196
Alignment explanation
Indices: 9246107--9246459 Score: 607
Period size: 196 Copynumber: 1.8 Consensus size: 196
9246097 ATCAAGTGAT
* * *
9246107 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * *
9246172 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
9246237 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
9246302 G
196 G
* *
9246303 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
9246368 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
9246433 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTG
9246460 GCTACACTTA
Statistics
Matches: 146, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
196 146 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:9246467 original size:37 final size:37
Alignment explanation
Indices: 9246423--9246531 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
9246413 GATAGCTTTA
9246423 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
9246460 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
9246497 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
9246532 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:9250387 original size:25 final size:25
Alignment explanation
Indices: 9250350--9250415 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
9250340 TGTAAACAGG
* *
9250350 AAGCTCCTTCGAGCTGAATAACGGA
1 AAGCTCATGCGAGCTGAATAACGGA
* * *
9250375 AAGCTCATGCGAGCTGAATTAGGGG
1 AAGCTCATGCGAGCTGAATAACGGA
9250400 AAGCTCATGCGAGCTG
1 AAGCTCATGCGAGCTG
9250416 TGGTGTGTCC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.20
Consensus pattern (25 bp):
AAGCTCATGCGAGCTGAATAACGGA
Found at i:9252235 original size:22 final size:22
Alignment explanation
Indices: 9252207--9252268 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
9252197 TTTCCTATTA
9252207 TTAGCACATTAGTGCTCTTCGT
1 TTAGCACATTAGTGCTCTTCGT
* *
9252229 TTAGCACATTTGTGCTCTTTGT
1 TTAGCACATTAGTGCTCTTCGT
* *
9252251 ATAGCACTTTAGTGCTCT
1 TTAGCACATTAGTGCTCT
9252269 CTGATTAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.44
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTTCGT
Found at i:9262591 original size:13 final size:13
Alignment explanation
Indices: 9262573--9262597 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9262563 TGCATAATTT
9262573 TTAAAAATTAAAA
1 TTAAAAATTAAAA
9262586 TTAAAAATTAAA
1 TTAAAAATTAAA
9262598 TAAAAAAGAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTAAAAATTAAAA
Found at i:9276035 original size:5 final size:6
Alignment explanation
Indices: 9275999--9276039 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
9275989 GAGACAATGG
* * *
9275999 AATAAA AATAGA AACAAA GATAAA AATAAA AATAAA AATAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAA
9276040 TAGTAAAACA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:9278996 original size:20 final size:22
Alignment explanation
Indices: 9278957--9278998 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
9278947 TAAAAACCTG
9278957 ATTTGAGGATTTTATGTGCAGT
1 ATTTGAGGATTTTATGTGCAGT
9278979 ATTTGAGGA-TTT-TGTGCAGT
1 ATTTGAGGATTTTATGTGCAGT
9278999 CTTATTTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 8 0.40
21 3 0.15
22 9 0.45
ACGTcount: A:0.21, C:0.05, G:0.29, T:0.45
Consensus pattern (22 bp):
ATTTGAGGATTTTATGTGCAGT
Found at i:9294506 original size:19 final size:19
Alignment explanation
Indices: 9294473--9294523 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
9294463 TCGAAACTGG
*
9294473 TCGGTT-AATCGAATTTTT
1 TCGGTTCAACCGAATTTTT
9294491 TCGGTTCAACCGAATTTTT
1 TCGGTTCAACCGAATTTTT
9294510 TCGGTTCAACCGAA
1 TCGGTTCAACCGAA
9294524 AAAATTAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 6 0.19
19 25 0.81
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.39
Consensus pattern (19 bp):
TCGGTTCAACCGAATTTTT
Found at i:9294751 original size:9 final size:9
Alignment explanation
Indices: 9294737--9294794 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
9294727 TTATATAAAC
9294737 AATTCGGTT
1 AATTCGGTT
9294746 AATTCGGTT
1 AATTCGGTT
* *
9294755 AATTTGGGT
1 AATTCGGTT
*
9294764 AATTCGGGT
1 AATTCGGTT
*
9294773 AATTCAGTT
1 AATTCGGTT
9294782 AATTCGGTT
1 AATTCGGTT
9294791 AATT
1 AATT
9294795 TTATACTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:9295459 original size:3 final size:3
Alignment explanation
Indices: 9295437--9295616 Score: 173
Period size: 3 Copynumber: 59.3 Consensus size: 3
9295427 TAATTTAATA
* * * * *
9295437 TAT TAT TGT TAT TAC CAT TAT TAT TAT T-T TAC TAT TAT TATT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
* * *
9295482 TAT GAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
9295530 TATT TAT TAT TAC CAT TAT TAT TAC TGT TAA TAT TAT TTT TAT TAC
1 TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
9295576 TAT TAC TAT TCTT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9295617 GTCATTTGTA
Statistics
Matches: 139, Mismatches: 34, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
2 2 0.01
3 129 0.93
4 8 0.06
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:9295565 original size:55 final size:55
Alignment explanation
Indices: 9295453--9295614 Score: 189
Period size: 55 Copynumber: 2.9 Consensus size: 55
9295443 TGTTATTACC
* * * * *
9295453 ATTATTATTATTTTACTATTATTATTTACTATGATTATTATTATTATTATTATTATT
1 ATTATTATTATTTT--TACTATTATTTATTATTATTATTATTATTACTATTAATATT
** *
9295510 ATTATTATTATTTTTACTATTATTTATTATTACCATTATTATTACTGTTAATATT
1 ATTATTATTATTTTTACTATTATTTATTATTATTATTATTATTACTATTAATATT
* * * * *
9295565 ATTTTTATTACTATTACTATTCTTTATTATTATTATTATTATTATTATTA
1 ATTATTATTATTTTTACTATTATTTATTATTATTATTATTATTACTATTA
9295615 TTGTCATTTG
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
55 75 0.84
57 14 0.16
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (55 bp):
ATTATTATTATTTTTACTATTATTTATTATTATTATTATTATTACTATTAATATT
Found at i:9303729 original size:6 final size:6
Alignment explanation
Indices: 9303644--9303727 Score: 129
Period size: 6 Copynumber: 14.5 Consensus size: 6
9303634 GTTTTCTAAA
9303644 AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG
1 AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG
* *
9303692 AAGGAG AAGGAG -A--AG AAGGAG AAGAAG AAGAAG AAG
1 AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAGGAG AAG
9303728 AAAATGGAGA
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
3 2 0.03
4 1 0.01
5 1 0.01
6 70 0.95
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (6 bp):
AAGGAG
Found at i:9304679 original size:44 final size:44
Alignment explanation
Indices: 9304551--9305224 Score: 470
Period size: 44 Copynumber: 15.1 Consensus size: 44
9304541 GAAGATTGGT
* * * *
9304551 AAATTCACAAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTA
1 AAATT-ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTA
** * * * * *
9304596 AAGATGGCGAATCTTATCTCTCTAAAATTACAATGGAGCAGATTA
1 AA-ATTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTA
** * * * *
9304641 AAATCGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTG
1 AAATTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTA
* * * * * *
9304685 AAGTTACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTG
1 AAATTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTA
* * * * *
9304729 AAATTACAAGTCTTATCTCCCTGCAGTTGCAGTGGAGCAAACTGA
1 AAATTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TTA
* * * * * * *
9304774 AGA-TAGCGAATCTTATTTCCCTGAAGTTGCTGTGGAACGGATTGAA
1 AAATTA-CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT--A
* * *
9304820 GCTATAATTACAAATCTTATCCCTCTGAAGTTGCAGTAGAGCAGATCA
1 ---A-AATTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTA
* *
9304868 AAA-T--AAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTA
1 AAATTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTA
* * * * * *
9304909 AAATTACAAACCTTATCTC-CTTAAAGTTGTAGTGGAGTAGGTTG
1 AAATTACAAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTA
* * *
9304953 AAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA
1 AAATTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TTA
* * * * *
9304998 AGA-TAGCAAATCTTATTTCCCTGAAGTTGCTGTGGAACAGATTGAA
1 AAATTA-CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT--A
* * *
9305044 GCTATAATTACAAATCTTATCCCTCTGAAGTTGCAGTAGAGCAGATCA
1 ---A-AATTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTA
* *
9305092 AAA-T--AAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTA
1 AAATTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTA
* * * *
9305133 AAATTACAAACCTTATCTC-CTTAAAGTTGTAGTGGAGCAGACTGA
1 AAATTACAAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGA-TTA
* * * *
9305178 AGA-TAGCTAATCCTATCTCTCTGAAGTTGCAGTAGAGCAGATTA
1 AAATTA-CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTA
9305222 AAA
1 AAA
9305225 CAACGAGTCC
Statistics
Matches: 493, Mismatches: 105, Indels: 63
0.75 0.16 0.10
Matches are distributed among these distances:
41 70 0.14
42 2 0.00
43 4 0.01
44 213 0.43
45 131 0.27
46 5 0.01
48 2 0.00
49 2 0.00
50 60 0.12
51 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
AAATTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTA
Found at i:9305072 original size:50 final size:47
Alignment explanation
Indices: 9304954--9305080 Score: 134
Period size: 45 Copynumber: 2.7 Consensus size: 47
9304944 AGTAGGTTGA
* *
9304954 AATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
1 AATTACAAATCTTATC-CCCTGAAGTTGCAGTGGAACAGACTGAAGAT
* * * *
9305002 -A--GCAAATCTTATTTCCCTGAAGTTGCTGTGGAACAGATTGAAGCTAT
1 AATTACAAATCTTA-TCCCCTGAAGTTGCAGTGGAACAGACTGAAG--AT
9305049 AATTACAAATCTTATCCCTCTGAAGTTGCAGT
1 AATTACAAATCTTATCCC-CTGAAGTTGCAGT
9305081 AGAGCAGATC
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
45 34 0.54
46 1 0.02
47 3 0.05
48 1 0.02
49 3 0.05
50 21 0.33
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (47 bp):
AATTACAAATCTTATCCCCTGAAGTTGCAGTGGAACAGACTGAAGAT
Found at i:9305102 original size:180 final size:182
Alignment explanation
Indices: 9304876--9305207 Score: 472
Period size: 180 Copynumber: 1.8 Consensus size: 182
9304866 CAAAATAAAC
* * * * *
9304876 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTAAAATTACAAACCTTATCTC-CTTAAAGTTGTA
1 CTTATCCCTCTGAAGTTGCAGTAGAGCAGATCAAAATTA-AAACCTTATCTCTC-TAAAGTTGCA
* * ** *
9304940 GTGGAGTAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
64 GTGGAGCAGGTTAAAATTACAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGC
* *
9305005 AAATCTTATTTCCCTGAAGTTGCTGTGGAACAGATTGAAGCTATAATTACAAAT
129 AAATCCTATCTCCCTGAAGTTGCTGTGGAACAGATTGAAGCTATAATTACAAAT
*
9305059 CTTATCCCTCTGAAGTTGCAGTAGAGCAGATCAAAA-T-AAACCTTATCTCTCTGAAGTTGCAGT
1 CTTATCCCTCTGAAGTTGCAGTAGAGCAGATCAAAATTAAAACCTTATCTCTCTAAAGTTGCAGT
* * *
9305122 GGAGCAGGTTAAAATTACAAACCTTATCTCCTTAAAGTTGTAGTGGAGCAGACTGAAGATAGCTA
66 GGAGCAGGTTAAAATTACAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAA
*
9305187 ATCCTATCTCTCTGAAGTTGC
131 ATCCTATCTCCCTGAAGTTGC
9305208 AGTAGAGCAG
Statistics
Matches: 131, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
180 97 0.74
181 1 0.01
182 1 0.01
183 32 0.24
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (182 bp):
CTTATCCCTCTGAAGTTGCAGTAGAGCAGATCAAAATTAAAACCTTATCTCTCTAAAGTTGCAGT
GGAGCAGGTTAAAATTACAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAA
ATCCTATCTCCCTGAAGTTGCTGTGGAACAGATTGAAGCTATAATTACAAAT
Found at i:9305146 original size:268 final size:268
Alignment explanation
Indices: 9304563--9305217 Score: 629
Period size: 268 Copynumber: 2.4 Consensus size: 268
9304553 ATTCACAAGT
* * * * * * * *
9304563 CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAGATGGCGAATCTTATCTCTCTAAAATTACA
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAA-AT-TCAAACCTTATCTCTCTAAAGTTGCA
* * * *
9304628 ATGGAGCAGATTAAAATCGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTTACA
64 GTGGAGCAGATTAAAATCACAAACCTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTGAAATTACA
** * *
9304693 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGCAGTTG
129 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAATTACAAATCTTATCTCCCTGAAGTTG
* * * * * * *
9304758 CAGTGGAGCAAACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCTGTGGAACGGATTGAAGCT
194 CAGTGGAACAAACTGAAGATAACAAATCTTATTCCCCTGAAGTTGCAGTAGAACGCA-TGAAGCT
*
9304823 ATAATTACAAAT
258 ATAA-TACAAAC
* * * *
9304835 CTTATCCCTCTGAAGTTGCAGTAGAGCAGATCAAAA-T-AAACCTTATCTCTCTGAAGTTGCAGT
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATTCAAACCTTATCTCTCTAAAGTTGCAGT
* * * * *
9304898 GGAGCAGGTTAAAATTACAAACCTTATCTC-CTTAAAGTTGTAGTGGAGTAGGTTGAAATTACAA
66 GGAGCAGATTAAAATCACAAACCTTATCTCTC-TAAAGTTGCAGTAGAGCAGGTTGAAATTACAA
* *
9304962 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-TAGCAAATCTTATTTCCCTGAAGTT
130 GTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAA-ATTA-CAAATCTTATCTCCCTGAAGTT
* * *
9305026 GCTGTGGAACAGATTGAAGCTATAATTACAAATCTTA-TCCCTCTGAAGTTGCAGTAG-A-GCA-
193 GCAGTGGAACAAACTGAAG--AT-A--ACAAATCTTATTCCC-CTGAAGTTGCAGTAGAACGCAT
* *
9305087 G-ATC-A-AA-ATAAAC
252 GAAGCTATAATACAAAC
* *
9305100 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTAAAATTACAAACCTTATCTC-CTTAAAGTTGTA
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATT-CAAACCTTATCTCTC-TAAAGTTGCA
* * * *
9305164 GTGGAGCAGACTGAAGAT-AGCTAATCC-TATCTCTCTGAAGTTGCAGTAGAGCAG
64 GTGGAGCAGA-TTAAAATCA-C-AAACCTTATCTCTCTAAAGTTGCAGTAGAGCAG
9305218 ATTAAAACAA
Statistics
Matches: 312, Mismatches: 54, Indels: 37
0.77 0.13 0.09
Matches are distributed among these distances:
265 36 0.12
266 1 0.00
267 4 0.01
268 141 0.45
269 64 0.21
270 6 0.02
271 3 0.01
272 32 0.10
273 4 0.01
274 21 0.07
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (268 bp):
CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAATTCAAACCTTATCTCTCTAAAGTTGCAGT
GGAGCAGATTAAAATCACAAACCTTATCTCTCTAAAGTTGCAGTAGAGCAGGTTGAAATTACAAG
TCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAATTACAAATCTTATCTCCCTGAAGTTGCA
GTGGAACAAACTGAAGATAACAAATCTTATTCCCCTGAAGTTGCAGTAGAACGCATGAAGCTATA
ATACAAAC
Found at i:9305251 original size:224 final size:224
Alignment explanation
Indices: 9304648--9305218 Score: 930
Period size: 224 Copynumber: 2.5 Consensus size: 224
9304638 TTAAAATCGC
* * * ** * *
9304648 AAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTT
1 AAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTAAAATTACAAACCTTATCTCCTTAAAGTT
** * *
9304713 ACAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGCAGTTGCAGTGGAGCAAACTGAAGAT
66 GTAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
*
9304778 AGCGAATCTTATTTCCCTGAAGTTGCTGTGGAACGGATTGAAGCTATAATTACAAATCTTATCCC
131 AGCGAATCTTATTTCCCTGAAGTTGCTGTGGAACAGATTGAAGCTATAATTACAAATCTTATCCC
9304843 TCTGAAGTTGCAGTAGAGCAGATCAAAAT
196 TCTGAAGTTGCAGTAGAGCAGATCAAAAT
9304872 AAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTAAAATTACAAACCTTATCTCCTTAAAGTT
1 AAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTAAAATTACAAACCTTATCTCCTTAAAGTT
*
9304937 GTAGTGGAGTAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
66 GTAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
*
9305002 AGCAAATCTTATTTCCCTGAAGTTGCTGTGGAACAGATTGAAGCTATAATTACAAATCTTATCCC
131 AGCGAATCTTATTTCCCTGAAGTTGCTGTGGAACAGATTGAAGCTATAATTACAAATCTTATCCC
9305067 TCTGAAGTTGCAGTAGAGCAGATCAAAAT
196 TCTGAAGTTGCAGTAGAGCAGATCAAAAT
9305096 AAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTAAAATTACAAACCTTATCTCCTTAAAGTT
1 AAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTAAAATTACAAACCTTATCTCCTTAAAGTT
** * * *
9305161 GTAGTGGAGCAGACTGAAGA-TAGCTAA-TCCTATCTCTCTGAAGTTGCAGTAGAGCAGA
66 GTAGTGGAGCAGGTTGAA-ATTA-C-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
9305219 TTAAAACAAC
Statistics
Matches: 324, Mismatches: 20, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
224 292 0.90
225 30 0.09
226 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (224 bp):
AAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTAAAATTACAAACCTTATCTCCTTAAAGTT
GTAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
AGCGAATCTTATTTCCCTGAAGTTGCTGTGGAACAGATTGAAGCTATAATTACAAATCTTATCCC
TCTGAAGTTGCAGTAGAGCAGATCAAAAT
Found at i:9305285 original size:224 final size:224
Alignment explanation
Indices: 9304648--9305300 Score: 742
Period size: 224 Copynumber: 2.9 Consensus size: 224
9304638 TTAAAATCGC
* * * ** * *
9304648 AAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTT
1 AAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTAAAATTACAAACCTTATCTCCTTAAAGTT
** ** * * * * * *
9304713 ACAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGCAGTTGCAGTGGAGCAAACTGAAGAT
66 GTAGTGGAGCAGACTGAAATTACAAGTCCTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAAAC
* * * * * * ** * *
9304778 AGCGAATCTTATTTCCCTGAAGTTGCTGTGGAACGGATTGAAGCTATAATTACAAATCTTATCCC
131 AACAAATCCTATTACCCTGAAGTTGCAGTGGAACAGATCAAAGCTACAATGACAAATCTTATCCC
9304843 TCTGAAGTTGCAGTAGAGCAGATCAAAAT
196 TCTGAAGTTGCAGTAGAGCAGATCAAAAT
9304872 AAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTAAAATTACAAACCTTATCTCCTTAAAGTT
1 AAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTAAAATTACAAACCTTATCTCCTTAAAGTT
* ** * * * *
9304937 GTAGTGGAGTAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
66 GTAGTGGAGCAGACTGAAATTACAAGTCCTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAAAC
* * * * ** * *
9305002 AGCAAATCTTATTTCCCTGAAGTTGCTGTGGAACAGATTGAAGCTATAATTACAAATCTTATCCC
131 AACAAATCCTATTACCCTGAAGTTGCAGTGGAACAGATCAAAGCTACAATGACAAATCTTATCCC
9305067 TCTGAAGTTGCAGTAGAGCAGATCAAAAT
196 TCTGAAGTTGCAGTAGAGCAGATCAAAAT
9305096 AAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTAAAATTACAAACCTTATCTCCTTAAAGTT
1 AAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTAAAATTACAAACCTTATCTCCTTAAAGTT
* *
9305161 GTAGTGGAGCAGACTGAAGA-TAGCTAA-TCCTATCTCTCTGAAGTTGCAGTAGAGCAGA-TTAA
66 GTAGTGGAGCAGACTGAA-ATTA-C-AAGTCCTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAA
* * * * * * **
9305223 AACAACGAGTCCTA-TACCTCTGAAGTTGCAGTAGG-TCGGATCAAATCTACCATGGTAAATCTT
128 AACAACAAATCCTATTACC-CTGAAGTTGCAGT-GGAACAGATCAAAGCTACAATGACAAATCTT
9305286 ATCTCCT-TGAAGTTG
191 ATC-CCTCTGAAGTTG
9305301 TAGTGGAGTA
Statistics
Matches: 384, Mismatches: 39, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
223 3 0.01
224 344 0.90
225 35 0.09
226 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (224 bp):
AAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTAAAATTACAAACCTTATCTCCTTAAAGTT
GTAGTGGAGCAGACTGAAATTACAAGTCCTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAAAC
AACAAATCCTATTACCCTGAAGTTGCAGTGGAACAGATCAAAGCTACAATGACAAATCTTATCCC
TCTGAAGTTGCAGTAGAGCAGATCAAAAT
Found at i:9305335 original size:183 final size:173
Alignment explanation
Indices: 9304916--9305446 Score: 501
Period size: 183 Copynumber: 3.0 Consensus size: 173
9304906 TTAAAATTAC
* *
9304916 AAACCTTATCTCCTTAAAGTTGTAGTGGAGTAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTT
1 AAACCTTATCTCCTTGAAGTTGTAGTGGAGTAGGTTGAAATTACAAGTCTTATCTCCATGAAGTT
* * * *
9304981 GCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCTGTGGAACAGATTGAAGC
66 GCAGTGGAGCAGACTGAAGATAGCTAATCCTATCTCCCTGAAGTTGCAGTGG-ACAGATT-AA--
* * * *
9305046 TATA-ATTACAAATCTTATCCCTCTGAAGTTGCAGTAGAG-CAGATCAAAAT
127 -A-ACA--ACAAGTCCTATACCTCTGAAGTTGCAGTAG-GTCGGATCAAAAT
* * * ** * *
9305096 AAACCTTATCT-CTCTGAAGTTGCAGTGGAGCAGGTTAAAATTACAAACCTTATCTCCTTAAAGT
1 AAACCTTATCTCCT-TGAAGTTGTAGTGGAGTAGGTTGAAATTACAAGTCTTATCTCCATGAAGT
* * *
9305160 TGTAGTGGAGCAGACTGAAGATAGCTAATCCTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAA
65 TGCAGTGGAGCAGACTGAAGATAGCTAATCCTATCTCCCTGAAGTTGCAGTGGA-CAGATTAAAA
*
9305225 CAACGAGTCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATCTACCATGGT
129 CAACAAGTCCTATACCTCTGAAGTTGCAGTAGGTCGGATC-AA---A--A---T
* * ***
9305279 AAATCTTATCTCCTTGAAGTTGTAGTGGAGTAGATTGAAGCCACAAGTCTTATCTCCATGAAGTT
1 AAACCTTATCTCCTTGAAGTTGTAGTGGAGTAGGTTGAAATTACAAGTCTTATCTCCATGAAGTT
*** * * * * * **
9305344 GCAGCAAAGCAGACTGAATACAGCTAATCCTATCACCCTGAAGTTACAGTGGACTGGATTAAGGC
66 GCAGTGGAGCAGACTGAAGATAGCTAATCCTATCTCCCTGAAGTTGCAGTGGAC-AGATTAAAAC
* * *
9305409 GATAAGTCCTATACCTCTGAAGTTGCAGTGGGTCGGAT
130 AACAAGTCCTATACCTCTGAAGTTGCAGTAGGTCGGAT
9305447 TAAACCTAAA
Statistics
Matches: 287, Mismatches: 49, Indels: 27
0.79 0.13 0.07
Matches are distributed among these distances:
173 1 0.00
174 31 0.11
175 3 0.01
176 2 0.01
178 1 0.00
179 5 0.02
180 106 0.37
182 1 0.00
183 135 0.47
184 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (173 bp):
AAACCTTATCTCCTTGAAGTTGTAGTGGAGTAGGTTGAAATTACAAGTCTTATCTCCATGAAGTT
GCAGTGGAGCAGACTGAAGATAGCTAATCCTATCTCCCTGAAGTTGCAGTGGACAGATTAAAACA
ACAAGTCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAAAT
Found at i:9306832 original size:3 final size:3
Alignment explanation
Indices: 9306811--9306981 Score: 146
Period size: 3 Copynumber: 56.3 Consensus size: 3
9306801 TAATTTAATA
* * *
9306811 TAT TAT TGT TAT TAC TAT TAT TAT TAT TAT T-T TAC TAT TAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * *
9306856 TAT TAT CAT TAT TAT TAC TAT TAT TAT TAT TTT TAC TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
* * * * * * * * *
9306902 TAT TAC CAT TAT TAT TAC TGT TAA TAT TAT TTT TAT TAC TAT TAA TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
9306950 TCTT TGT TAT TAT TAT TAT TAT TAT TAT TAT T
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9306982 GTCATTTGTA
Statistics
Matches: 130, Mismatches: 34, Indels: 8
0.76 0.20 0.05
Matches are distributed among these distances:
2 2 0.02
3 120 0.92
4 8 0.06
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:9307027 original size:4 final size:4
Alignment explanation
Indices: 9307003--9307058 Score: 51
Period size: 4 Copynumber: 14.0 Consensus size: 4
9306993 TTTGTTATAT
* * * *
9307003 TTTA TTTT TTTA TTTA CTTA TTTA TTTG CTTA TTTCA TTT- TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT-A TTTA TTTA TTTA
*
9307051 TTTG TTTA
1 TTTA TTTA
9307059 AACTTTTTAA
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
3 3 0.08
4 33 0.82
5 4 0.10
ACGTcount: A:0.18, C:0.05, G:0.04, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:9309236 original size:38 final size:37
Alignment explanation
Indices: 9309192--9309302 Score: 97
Period size: 38 Copynumber: 3.0 Consensus size: 37
9309182 TAATTATGTA
9309192 AATATATATAATTTAATTATTAATTACTT-TTTTATTT
1 AATATATATAATTTAATTATTAATTA-TTATTTTATTT
* * *
9309229 AAGTATATAGATATTT-ATTATTTATTATTATTCTA-TT
1 AA-TATATATA-ATTTAATTATTAATTATTATTTTATTT
*
9309266 AA-AT-TATAATTTATATTATTAAATTATGATTATTATT
1 AATATATATAATTTA-ATTATT-AATTATTATT-TTATT
9309303 ATTATTATTA
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
33 4 0.07
34 3 0.05
35 8 0.14
36 8 0.14
37 10 0.17
38 22 0.37
39 4 0.07
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.57
Consensus pattern (37 bp):
AATATATATAATTTAATTATTAATTATTATTTTATTT
Found at i:9309285 original size:20 final size:20
Alignment explanation
Indices: 9309252--9309306 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 20
9309242 TTTATTATTT
9309252 ATTATTATTCTATTAAATTATA
1 ATTATTA-T-TATTAAATTATA
*
9309274 ATT-TATATTATTAAATTATG
1 ATTAT-TATTATTAAATTATA
9309294 ATTATTATTATTA
1 ATTATTATTATTA
9309307 TTATTAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 22 0.73
21 3 0.10
22 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTATTATTATTAAATTATA
Found at i:9309621 original size:13 final size:14
Alignment explanation
Indices: 9309603--9309640 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
9309593 TTATGAAATT
9309603 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
9309616 AATAAAAGAAATGA
1 AATAAAATAAAAGA
9309630 AATAAAATAAA
1 AATAAAATAAA
9309641 GTAAAGAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:9310771 original size:45 final size:45
Alignment explanation
Indices: 9310700--9310806 Score: 160
Period size: 45 Copynumber: 2.4 Consensus size: 45
9310690 CGACTACTGT
* * * *
9310700 TACTGTTACTGTTATTATTACCGATTCGACACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
* *
9310745 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
9310790 TACTGTTACTGTTACTG
1 TACTGTTACTGTTACTG
9310807 CTACTGCTAC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
Found at i:9310812 original size:51 final size:51
Alignment explanation
Indices: 9310685--9310812 Score: 142
Period size: 45 Copynumber: 2.6 Consensus size: 51
9310675 TAGGCACTTA
* * * * * *
9310685 TGTGCCGACTACTGTTACTGTTACTGTTATTATTACCGATTCGACACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACTGTTACAGATTCAACACTTTG
9310736 TGTGTCGAATACTGTTAC-----C-GTTACTGTTACAGATTCAACACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACTGTTACAGATTCAACACTTTG
* *
9310781 TGTGTTGAATACTGTTACTGTTACTGCTACTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACTG
9310813 CTACCGTTAC
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
45 39 0.62
46 1 0.02
50 1 0.02
51 22 0.35
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.41
Consensus pattern (51 bp):
TGTGTCGAATACTGTTACTGTTACTGTTACTGTTACAGATTCAACACTTTG
Found at i:9310821 original size:18 final size:18
Alignment explanation
Indices: 9310790--9310824 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9310780 GTGTGTTGAA
* *
9310790 TACTGTTACTGTTACTGC
1 TACTGCTACCGTTACTGC
9310808 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
9310825 ATTACTGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:9316868 original size:38 final size:37
Alignment explanation
Indices: 9316817--9316934 Score: 102
Period size: 38 Copynumber: 3.1 Consensus size: 37
9316807 TAGATTTTAA
9316817 TTATTTAAATATATATAATTTAATTATTAATTACTT-TT
1 TTATTT-AATATATATAATTTAATTATTAATTA-TTATT
* *
9316855 TTATTTAAGTATATAGATATTT-ATTATTTATTATTATT
1 TTATTTAA-TATATATA-ATTTAATTATTAATTATTATT
* *
9316893 CTA-TTAA-AT-TATAATTTATATTATTAAATTATGATT
1 TTATTTAATATATATAATTTA-ATTATT-AATTATTATT
9316929 ATTATT
1 -TTATT
9316935 ATTATTAAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
33 4 0.06
34 3 0.05
35 8 0.12
36 8 0.12
37 10 0.15
38 28 0.43
39 4 0.06
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.58
Consensus pattern (37 bp):
TTATTTAATATATATAATTTAATTATTAATTATTATT
Found at i:9316917 original size:20 final size:20
Alignment explanation
Indices: 9316884--9316938 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 20
9316874 TTTATTATTT
9316884 ATTATTATTCTATTAAATTATA
1 ATTATTA-T-TATTAAATTATA
*
9316906 ATT-TATATTATTAAATTATG
1 ATTAT-TATTATTAAATTATA
9316926 ATTATTATTATTA
1 ATTATTATTATTA
9316939 TTAAAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 22 0.73
21 3 0.10
22 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTATTATTATTAAATTATA
Found at i:9316923 original size:25 final size:26
Alignment explanation
Indices: 9316875--9316941 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
9316865 ATATAGATAT
* **
9316875 TTATTATTTATTATTATTCTATTAAA
1 TTATAATTTATTATTATTAAATTAAA
*
9316901 TTATAATTTA-TATTATTAAATTATGA
1 TTATAATTTATTATTATTAAATTA-AA
*
9316927 TTATTA-TTATTATTA
1 TTATAATTTATTATTA
9316942 AAAATAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
25 14 0.41
26 20 0.59
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (26 bp):
TTATAATTTATTATTATTAAATTAAA
Found at i:9318351 original size:45 final size:45
Alignment explanation
Indices: 9318291--9318406 Score: 178
Period size: 45 Copynumber: 2.6 Consensus size: 45
9318281 CAGGCACTTA
* * * *
9318291 TGTGCCGACTACTGTTACTGTTACTGTTACCGATTCGACACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACAGATTCAACACTTTG
*
9318336 TGTGTCGAATACTGTTACCGTTACTGTTACAGATTCAACACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACAGATTCAACACTTTG
*
9318381 TGTGTTGAATACTGTTACTGTTACTG
1 TGTGTCGAATACTGTTACTGTTACTG
9318407 CTACTGCTAC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.40
Consensus pattern (45 bp):
TGTGTCGAATACTGTTACTGTTACTGTTACAGATTCAACACTTTG
Found at i:9318421 original size:18 final size:18
Alignment explanation
Indices: 9318390--9318424 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9318380 GTGTGTTGAA
* *
9318390 TACTGTTACTGTTACTGC
1 TACTGCTACCGTTACTGC
9318408 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
9318425 ATTACTGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:9342787 original size:12 final size:12
Alignment explanation
Indices: 9342770--9342794 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9342760 GAAAGAAATT
9342770 CGCTTCCACTTC
1 CGCTTCCACTTC
9342782 CGCTTCCACTTC
1 CGCTTCCACTTC
9342794 C
1 C
9342795 ATTTTTTCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.52, G:0.08, T:0.32
Consensus pattern (12 bp):
CGCTTCCACTTC
Found at i:9344616 original size:3 final size:3
Alignment explanation
Indices: 9344608--9344633 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9344598 ATAATGTAAT
9344608 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
9344634 TCCTATTGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9352048 original size:10 final size:10
Alignment explanation
Indices: 9352033--9352058 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
9352023 TTTGATGATG
9352033 TTTTAGGATA
1 TTTTAGGATA
9352043 TTTTAGGATA
1 TTTTAGGATA
9352053 TTTTAG
1 TTTTAG
9352059 AGTGTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (10 bp):
TTTTAGGATA
Found at i:9353667 original size:187 final size:185
Alignment explanation
Indices: 9353350--9353685 Score: 602
Period size: 187 Copynumber: 1.8 Consensus size: 185
9353340 AACCAGATGT
9353350 TGTGTTTTAAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAATGGCAGCCGA
1 TGTGTTTTAAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAATGGCAGCCGA
*
9353415 CAGTGGGGGAAAAAAACAATGATTTTAAGTTGAAAGTGTGGTGCAGGTTTACAAAAATCACACAA
66 CAGTGGGGGAAAAAAACAATGATTTTAAGCTGAAAGTGTGGTGCAGGTTTACAAAAATCACACAA
9353480 AAGCATGATTATAATCATGATGATGGAAATTCTTGTAGATGAAATGAGCCAACCA
131 AAGCATGATTATAATCATGATGATGGAAATTCTTGTAGATGAAATGAGCCAACCA
*
9353535 TGTGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAGAAAAAATGGCAGCCG
1 TGTGTTTTAAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGA-AAAAAATGGCAGCCG
* *
9353600 ACAGTGGAGGGAAAAAAACAATGATTTTAAGCTGAAAGTGTGGTG-TGAGTTTACAAAAATTACA
65 ACAGTGG-GGGAAAAAAACAATGATTTTAAGCTGAAAGTGTGGTGCAG-GTTTACAAAAATCACA
9353664 CAAAAGCATGATTATAATCATG
128 CAAAAGCATGATTATAATCATG
9353686 GTAATTGATG
Statistics
Matches: 144, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
185 48 0.33
186 23 0.16
187 73 0.51
ACGTcount: A:0.42, C:0.09, G:0.26, T:0.23
Consensus pattern (185 bp):
TGTGTTTTAAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAATGGCAGCCGA
CAGTGGGGGAAAAAAACAATGATTTTAAGCTGAAAGTGTGGTGCAGGTTTACAAAAATCACACAA
AAGCATGATTATAATCATGATGATGGAAATTCTTGTAGATGAAATGAGCCAACCA
Found at i:9363164 original size:30 final size:30
Alignment explanation
Indices: 9363124--9363199 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 30
9363114 CACGGCCATG
9363124 ACACACGGGCGTGTGGCCTACCCGTGTGTC
1 ACACACGGGCGTGTGGCCTACCCGTGTGTC
* **
9363154 ACACAAGGGCGTGTGGCCTGTCCGTGTGTC
1 ACACACGGGCGTGTGGCCTACCCGTGTGTC
*
9363184 ACACACGGACGTGTGG
1 ACACACGGGCGTGTGG
9363200 TTTACTCGAG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.16, C:0.29, G:0.36, T:0.20
Consensus pattern (30 bp):
ACACACGGGCGTGTGGCCTACCCGTGTGTC
Found at i:9363878 original size:183 final size:185
Alignment explanation
Indices: 9363419--9363877 Score: 681
Period size: 183 Copynumber: 2.5 Consensus size: 185
9363409 TGGTTTATCA
* * * * * *
9363419 GTAATGGAAATTATTGTAGATGAAATAAGTCAACCATATGTTTTGAAG-AAGAAAATTGTGTTTG
1 GTAATAGAAATTCTTGTAGATGAAATGAGCCAACCATATGTTTTGAAGAAAAAAAATAGTGTTTG
* *
9363483 GAAAGAGAGAAAATGAGAGAAAAAAATGGCAGCCGACAGTGGAGGGAAAAAAACAATGATTTTAA
66 GCAAGAGAGAAAATGAGAGAAAAAAATGGCAACCGACAGTGGAGGG-AAAAAACAATGATTTTAA
* *
9363548 GTTGAAAGTGTAGTGTAGGTTTACAAAAATTACACAAAAGCATGATTATAATCATG
130 GCTGAAAGTGTAGTGTAGGTTTACAAAAATTACACAAAAACATGATTATAATCATG
* * *
9363604 GTAATAGAAATTCTTGTAGATGAAATGAGCTAACCATATGTTTAGAAGAAAAAAAACAGTGTTTG
1 GTAATAGAAATTCTTGTAGATGAAATGAGCCAACCATATGTTTTGAAGAAAAAAAATAGTGTTTG
* * * **
9363669 GCAAGAGAGAAAATGAAAGAAAAAAATGGTAACCGACATTGG-GGG-GGAAACAATGATTTTAAG
66 GCAAGAGAGAAAATGAGAGAAAAAAATGGCAACCGACAGTGGAGGGAAAAAACAATGATTTTAAG
* *
9363732 CTGAAAGTGTGGTGTGGGTTTACAAAAATTACACAAAAACATGATTATAATCATG
131 CTGAAAGTGTAGTGTAGGTTTACAAAAATTACACAAAAACATGATTATAATCATG
* *
9363787 GTAATAGAAATTCTTGTAGATGAAATGAGCCAACCATGTGTTTTGAAGAAAAAAAAGTGGTGTTT
1 GTAATAGAAATTCTTGTAGATGAAATGAGCCAACCATATGTTTTGAAGAAAAAAAA-TAGTGTTT
9363852 GGCAAGAGAGAAAATGAGAGAAAAAA
65 GGCAAGAGAGAAAATGAGAGAAAAAA
9363878 TTTTGTTAAA
Statistics
Matches: 246, Mismatches: 26, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
183 120 0.49
184 31 0.13
185 45 0.18
186 50 0.20
ACGTcount: A:0.44, C:0.08, G:0.24, T:0.25
Consensus pattern (185 bp):
GTAATAGAAATTCTTGTAGATGAAATGAGCCAACCATATGTTTTGAAGAAAAAAAATAGTGTTTG
GCAAGAGAGAAAATGAGAGAAAAAAATGGCAACCGACAGTGGAGGGAAAAAACAATGATTTTAAG
CTGAAAGTGTAGTGTAGGTTTACAAAAATTACACAAAAACATGATTATAATCATG
Found at i:9367484 original size:32 final size:32
Alignment explanation
Indices: 9367421--9367492 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 32
9367411 AAGTCGAACT
*
9367421 GCACACGGCCTGAGCACCTTCACATTGGCGTG
1 GCACACGGCCTGAGCACCTTCACATCGGCGTG
* *
9367453 GTACACGGCTTGAGCACCTTCACA-CGAGCGTG
1 GCACACGGCCTGAGCACCTTCACATCG-GCGTG
9367485 GCACACGG
1 GCACACGG
9367493 TCGTGTCCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 1 0.03
32 34 0.97
ACGTcount: A:0.21, C:0.33, G:0.29, T:0.17
Consensus pattern (32 bp):
GCACACGGCCTGAGCACCTTCACATCGGCGTG
Found at i:9369867 original size:33 final size:34
Alignment explanation
Indices: 9369829--9369909 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 34
9369819 GCCTAAGCCC
* *
9369829 ATTCAGATAACAGTGATACTGGGCC-AGATCCCTT
1 ATTCAGATAACAGTGAAACTGGGCCTAG-CCCCTT
* *
9369863 -TTCAGATTACA-TTAAACTGGGCCTTAGCCCCTT
1 ATTCAGATAACAGTGAAACTGGGCC-TAGCCCCTT
9369896 ATTCAGATAACAGT
1 ATTCAGATAACAGT
9369910 ATGGCCCATA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
32 10 0.26
33 15 0.39
34 12 0.32
35 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (34 bp):
ATTCAGATAACAGTGAAACTGGGCCTAGCCCCTT
Found at i:9370249 original size:26 final size:26
Alignment explanation
Indices: 9370220--9370272 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
9370210 TCCAACATGC
9370220 ATTTAGGTCAATTTA-CTCCTAGGGGT
1 ATTTAGGT-AATTTATCTCCTAGGGGT
* *
9370246 ATTTCGGTACTTTATCTCCTAGGGGT
1 ATTTAGGTAATTTATCTCCTAGGGGT
9370272 A
1 A
9370273 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTAATTTATCTCCTAGGGGT
Found at i:9371559 original size:24 final size:24
Alignment explanation
Indices: 9371525--9371625 Score: 123
Period size: 24 Copynumber: 4.2 Consensus size: 24
9371515 CCAACTCCTG
*
9371525 CTCCTTGATCAGCTCCTAAATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
*
9371549 CTCCTTTATCAGGTCCTAAATCCTT
1 CTCCTTTATCAGCTCCTAAAT-CTT
* *
9371574 -TCCCTTATCAGCTCCTAAATCCT
1 CTCCTTTATCAGCTCCTAAATCTT
* * *
9371597 CTCCCTTATCAACTCCTATATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
9371621 CTCCT
1 CTCCT
9371626 GACAGTCTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
23 2 0.03
24 61 0.92
25 3 0.05
ACGTcount: A:0.20, C:0.37, G:0.05, T:0.39
Consensus pattern (24 bp):
CTCCTTTATCAGCTCCTAAATCTT
Found at i:9378203 original size:33 final size:33
Alignment explanation
Indices: 9378161--9378226 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
9378151 ATACATATAC
*
9378161 TCAGCTGATCTGTCAAATGAAAACTCTGTACCT
1 TCAGCTGATCTGTCAAATGAAAACTCTATACCT
9378194 TCAGCTGATCTGTCAAATGAAAACTCTATACCT
1 TCAGCTGATCTGTCAAATGAAAACTCTATACCT
9378227 ACTGAAATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (33 bp):
TCAGCTGATCTGTCAAATGAAAACTCTATACCT
Found at i:9379957 original size:23 final size:22
Alignment explanation
Indices: 9379885--9379972 Score: 92
Period size: 21 Copynumber: 4.1 Consensus size: 22
9379875 TACCTGATCA
*
9379885 GAATACGACACATAA-GTGCCT
1 GAATACGACACACAAGGTGCCT
*
9379906 GAA-ACGACACACGAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* *
9379927 G-CTGCGACACACAAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* *
9379948 GAAATACGACACATAAAGTGCCT
1 G-AATACGACACACAAGGTGCCT
9379971 GA
1 GA
9379973 TCAGTAAAGC
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
20 9 0.17
21 27 0.50
22 1 0.02
23 17 0.31
ACGTcount: A:0.35, C:0.26, G:0.24, T:0.15
Consensus pattern (22 bp):
GAATACGACACACAAGGTGCCT
Found at i:9379969 original size:44 final size:41
Alignment explanation
Indices: 9379890--9379971 Score: 101
Period size: 44 Copynumber: 1.9 Consensus size: 41
9379880 GATCAGAATA
* * *
9379890 CGACACATAAGTGCCTGAAACGACACACGAGGTGCCTGCTG
1 CGACACACAAGTGCCTGAAACGACACACAAAGTGCCTGCTG
*
9379931 CGACACACAAGGTGCCTGAAATACGACACATAAAGTGCCTG
1 CGACACACAA-GTGCCTG-AA-ACGACACACAAAGTGCCTG
9379972 ATCAGTAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 9 0.26
42 7 0.21
43 2 0.06
44 16 0.47
ACGTcount: A:0.33, C:0.28, G:0.24, T:0.15
Consensus pattern (41 bp):
CGACACACAAGTGCCTGAAACGACACACAAAGTGCCTGCTG
Found at i:9380231 original size:28 final size:26
Alignment explanation
Indices: 9380163--9380280 Score: 131
Period size: 23 Copynumber: 4.6 Consensus size: 26
9380153 AAATGTCCAA
9380163 CCAAAACACACCAG---TATAATCCT
1 CCAAAACACACCAGATATATAATCCT
9380186 CCAAAACACACCAG---TATAATCCT
1 CCAAAACACACCAGATATATAATCCT
9380209 CCAAAACACACCAGTATTATATAATCCT
1 CCAAAACACACCAG-A-TATATAATCCT
*
9380237 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG-AT-ATATAATCC-T
*
9380266 CCAAAACACGCCAGA
1 CCAAAACACACCAGA
9380281 ATAGCACAAA
Statistics
Matches: 84, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
23 37 0.44
27 1 0.01
28 33 0.39
29 13 0.15
ACGTcount: A:0.45, C:0.33, G:0.05, T:0.17
Consensus pattern (26 bp):
CCAAAACACACCAGATATATAATCCT
Found at i:9380282 original size:29 final size:28
Alignment explanation
Indices: 9380177--9380283 Score: 134
Period size: 28 Copynumber: 4.0 Consensus size: 28
9380167 AACACACCAG
9380177 TATAATCCTCCAAAACACACCAG-----
1 TATAATCCTCCAAAACACACCAGAATAA
* *
9380200 TATAATCCTCCAAAACACACCAGTATTA
1 TATAATCCTCCAAAACACACCAGAATAA
*
9380228 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
*
9380256 TATAATCCATCCAAAACACGCCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
9380284 GCACAAAGTG
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
23 23 0.32
28 33 0.45
29 17 0.23
ACGTcount: A:0.45, C:0.31, G:0.05, T:0.20
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:9385201 original size:33 final size:34
Alignment explanation
Indices: 9385163--9385243 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 34
9385153 GCCTAAGCCC
* *
9385163 ATTCAGATAACAGTGATACTGGGCC-AGATCCCTT
1 ATTCAGATAACAGTGAAACTGGGCCTAG-CCCCTT
* *
9385197 -TTCAGATTACA-TTAAACTGGGCCTTAGCCCCTT
1 ATTCAGATAACAGTGAAACTGGGCC-TAGCCCCTT
9385230 ATTCAGATAACAGT
1 ATTCAGATAACAGT
9385244 ATGGCCCATA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
32 10 0.26
33 15 0.39
34 12 0.32
35 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (34 bp):
ATTCAGATAACAGTGAAACTGGGCCTAGCCCCTT
Found at i:9385583 original size:26 final size:26
Alignment explanation
Indices: 9385554--9385606 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
9385544 TCCAACATGC
9385554 ATTTAGGTCAATTTA-CTCCTAGGGGT
1 ATTTAGGT-AATTTATCTCCTAGGGGT
* *
9385580 ATTTCGGTACTTTATCTCCTAGGGGT
1 ATTTAGGTAATTTATCTCCTAGGGGT
9385606 A
1 A
9385607 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTAATTTATCTCCTAGGGGT
Found at i:9388371 original size:24 final size:24
Alignment explanation
Indices: 9388337--9388413 Score: 109
Period size: 24 Copynumber: 3.2 Consensus size: 24
9388327 CCAACTCCTG
*
9388337 CTCCTTGATCAGCTCCTAAATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
* *
9388361 CTCCTTTATCAGCTCCTAAACCCT
1 CTCCTTTATCAGCTCCTAAATCTT
* *
9388385 CTCCCTTATCAGTTCCTAAATCTT
1 CTCCTTTATCAGCTCCTAAATCTT
9388409 CTCCT
1 CTCCT
9388414 GACGGCCTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.19, C:0.38, G:0.05, T:0.38
Consensus pattern (24 bp):
CTCCTTTATCAGCTCCTAAATCTT
Found at i:9392396 original size:6 final size:6
Alignment explanation
Indices: 9392317--9392399 Score: 82
Period size: 6 Copynumber: 14.3 Consensus size: 6
9392307 AATAAGTCTA
** * * * * *
9392317 AAAAAT AACCAT AAACAT AAAAAT AGAAAT AAAACT AAAACT AAAACT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
9392365 AAAAAT AAAAAT -AAAAT -AAAAT -AAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
9392400 GTGATAAATG
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
5 15 0.22
6 53 0.78
ACGTcount: A:0.75, C:0.07, G:0.01, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:9393401 original size:18 final size:18
Alignment explanation
Indices: 9393386--9393440 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
9393376 TCAGTAACGA
*
9393386 TCAATTGTTTAGTAACAG
1 TCAATTATTTAGTAACAG
*
9393404 TCGATTATTTAGTAACAG
1 TCAATTATTTAGTAACAG
* *
9393422 TCATTTATTCAGTAACAG
1 TCAATTATTTAGTAACAG
9393440 T
1 T
9393441 TGTAATAGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.40
Consensus pattern (18 bp):
TCAATTATTTAGTAACAG
Done.