Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold21
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: 2821038
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.33
Warning! 98422 characters in sequence are not A, C, G, or T
File 6 of 15
Found at i:720227 original size:2 final size:2
Alignment explanation
Indices: 720220--720258 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
720210 TAATGGATTT
* *
720220 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
720259 TTTGTTGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:720722 original size:2 final size:2
Alignment explanation
Indices: 720715--720763 Score: 55
Period size: 2 Copynumber: 24.0 Consensus size: 2
720705 ACAGTTTCAA
* *
720715 AT AT AT AT AT AT AT AT AC AGT TT CA- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT -AT AT AT AT AT AT AT AT AT AT
720758 AT AT AT
1 AT AT AT
720764 TAAAGAGAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:720748 original size:25 final size:26
Alignment explanation
Indices: 720705--720758 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 26
720695 ATTTTAAGGA
720705 ACAGTTTCAAATATATATATATATAT
1 ACAGTTTCAAATATATATATATATAT
720731 ACAGTTTCAATATATATATATATATAT
1 ACAGTTTCAA-ATATATATATATATAT
720758 A
1 A
720759 TATATTAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (26 bp):
ACAGTTTCAAATATATATATATATAT
Found at i:723478 original size:117 final size:118
Alignment explanation
Indices: 723265--723495 Score: 437
Period size: 117 Copynumber: 2.0 Consensus size: 118
723255 ACCCTATGTT
*
723265 TAAAGTAAATATAATTACTAGTTTTATATATTTTCAGATATTGCATTTTTTTTATTTATTCAAAA
1 TAAAGTAAATATAATTACTAGTTTTATATATTTTCAGATATTGCATTTTTTTAATTTATTCAAAA
723330 TATTAAATAAGTATTATTCACAAGAAATGGATATTACTAAGTACTCTATTAAA
66 TATTAAATAAGTATTATTCACAAGAAATGGATATTACTAAGTACTCTATTAAA
*
723383 TAAAGTAAATATAATTACTAGTTTTATATATTTTCAGATATTGTA-TTTTTTAATTTATTCAAAA
1 TAAAGTAAATATAATTACTAGTTTTATATATTTTCAGATATTGCATTTTTTTAATTTATTCAAAA
723447 TATTAAATAAGTATTATTCACAAGAAATGGATATTACTAAGTACTCTAT
66 TATTAAATAAGTATTATTCACAAGAAATGGATATTACTAAGTACTCTAT
723496 ATATTTAGTC
Statistics
Matches: 111, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
117 67 0.60
118 44 0.40
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (118 bp):
TAAAGTAAATATAATTACTAGTTTTATATATTTTCAGATATTGCATTTTTTTAATTTATTCAAAA
TATTAAATAAGTATTATTCACAAGAAATGGATATTACTAAGTACTCTATTAAA
Found at i:726054 original size:2 final size:2
Alignment explanation
Indices: 726047--726073 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
726037 TCATCGTTAT
726047 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
726074 GGGAAAGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:729071 original size:99 final size:100
Alignment explanation
Indices: 728896--729089 Score: 284
Period size: 99 Copynumber: 1.9 Consensus size: 100
728886 GTAACAATTT
* * *
728896 ATAGTATTGATTATTATATTTTTAATTAATTAATGATATTTTTTATTAAAATTAAAATATTAAGT
1 ATAGTATTGATCATTATATTCTTAATTAATTAATGA-ATTTTTTATTAAAATTAAAATATTAAAT
*
728961 AATTTTATTATTAATCTTGAATTCTTTATTAACATA
65 AATTTTATTATTAAACTTGAATTCTTTATTAACATA
* * *
728997 ATAGTATTGATCATTATGTTCTTAATTAATTAATG-ATTTTTTATTTAGATTAAAATA-TAGAAT
1 ATAGTATTGATCATTATATTCTTAATTAATTAATGAATTTTTTATTAAAATTAAAATATTA-AAT
*
729060 AATTTTCTTATTAAACTTGAATTCTTTATT
65 AATTTTATTATTAAACTTGAATTCTTTATT
729090 CACGTAAATA
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 2 0.02
99 50 0.60
101 32 0.38
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (100 bp):
ATAGTATTGATCATTATATTCTTAATTAATTAATGAATTTTTTATTAAAATTAAAATATTAAATA
ATTTTATTATTAAACTTGAATTCTTTATTAACATA
Found at i:731652 original size:24 final size:25
Alignment explanation
Indices: 731602--731656 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
731592 ATTTATATTT
*
731602 AATATATATTTTGATATAAATATAAA
1 AATATATATTTT-ATATAAATAAAAA
731628 AATATATATTTT-TA-AATATAAAAA
1 AATATATATTTTATATAA-ATAAAAA
731652 AATAT
1 AATAT
731657 TAAAAATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 2 0.07
24 13 0.48
26 12 0.44
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
AATATATATTTTATATAAATAAAAA
Found at i:734092 original size:14 final size:14
Alignment explanation
Indices: 734073--734115 Score: 51
Period size: 10 Copynumber: 3.4 Consensus size: 14
734063 CTTTAAATTT
734073 TAATAAATTTAATA
1 TAATAAATTTAATA
734087 TAAT-AATTT--TA
1 TAATAAATTTAATA
734098 -AA-AAATTTAATA
1 TAATAAATTTAATA
734110 TAATAA
1 TAATAA
734116 CTCATAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
10 7 0.29
11 2 0.08
12 2 0.08
13 7 0.29
14 6 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TAATAAATTTAATA
Found at i:734094 original size:23 final size:23
Alignment explanation
Indices: 734068--734115 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
734058 AAATGCTTTA
*
734068 AATTTTAATAAATTTAATATAAT
1 AATTTTAAAAAATTTAATATAAT
734091 AATTTTAAAAAATTTAATATAAT
1 AATTTTAAAAAATTTAATATAAT
734114 AA
1 AA
734116 CTCATAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
AATTTTAAAAAATTTAATATAAT
Found at i:738215 original size:3 final size:3
Alignment explanation
Indices: 738207--738237 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
738197 AGCACCAGAA
*
738207 AAT AAT AAT CAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
738238 TAGAAATAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:740220 original size:19 final size:20
Alignment explanation
Indices: 740180--740228 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
740170 CGATTTGATT
*
740180 AATT-TTTTTAATTTTTTAA
1 AATTATTTTTAATTTGTTAA
*
740199 AATTATTTTTACTTTGTT-A
1 AATTATTTTTAATTTGTTAA
740218 AATCTATTTTT
1 AAT-TATTTTT
740229 TTGTTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (20 bp):
AATTATTTTTAATTTGTTAA
Found at i:740381 original size:22 final size:22
Alignment explanation
Indices: 740354--740407 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
740344 TATATTTTTA
740354 AATATTTTAAATT-TTAAATTT
1 AATATTTTAAATTATTAAATTT
* * *
740375 AATTATTTTGATTTATTTAATTT
1 AA-TATTTTAAATTATTAAATTT
740398 AATATTTTAA
1 AATATTTTAA
740408 TAATCAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 2 0.07
22 16 0.59
23 9 0.33
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
AATATTTTAAATTATTAAATTT
Found at i:740775 original size:15 final size:16
Alignment explanation
Indices: 740757--740793 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
740747 TATTATTATC
*
740757 AAAAATAAT-TTTTTA
1 AAAAATAATCTATTTA
740772 AAAAAT-ATCTATTTA
1 AAAAATAATCTATTTA
740787 AAAAATA
1 AAAAATA
740794 GTTATATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAAATAATCTATTTA
Found at i:741210 original size:27 final size:25
Alignment explanation
Indices: 741174--741259 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 25
741164 AATATGAAAG
*
741174 TATTAGATTTAGTAATTTGTATATTTA
1 TATTATATTTA-TAATTT-TATATTTA
*
741201 TATTATATTTATATATTTCATTATATTA
1 TATTATATTTATA-ATTTTA-TAT-TTA
*
741229 TAATTATATTTAAAATATTTTATATTTA
1 T-ATTATATTT-ATA-ATTTTATATTTA
741257 TAT
1 TAT
741260 AAAATTTTGA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
26 3 0.06
27 19 0.38
28 8 0.16
29 12 0.24
30 8 0.16
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.58
Consensus pattern (25 bp):
TATTATATTTATAATTTTATATTTA
Found at i:741225 original size:18 final size:19
Alignment explanation
Indices: 741188--741256 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 19
741178 AGATTTAGTA
* *
741188 ATTTGTATATTTATATTAT
1 ATTTATATATTTACATTAT
741207 ATTTATATATTT-CATTAT
1 ATTTATATATTTACATTAT
*
741225 ATTATAATTATATTTA-A-AAT
1 ATT-T-A-TATATTTACATTAT
741245 ATTT-TATATTTA
1 ATTTATATATTTA
741257 TATAAAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
16 8 0.19
18 8 0.19
19 13 0.30
20 6 0.14
21 8 0.19
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (19 bp):
ATTTATATATTTACATTAT
Found at i:741238 original size:21 final size:23
Alignment explanation
Indices: 741198--741239 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
741188 ATTTGTATAT
*
741198 TTATATTATATTTATATATTTCA
1 TTATATTATATATATATATTTCA
741221 TTATATTATA-AT-TATATTT
1 TTATATTATATATATATATTT
741240 AAAATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATATTATATATATATATTTCA
Found at i:747307 original size:13 final size:13
Alignment explanation
Indices: 747289--747334 Score: 58
Period size: 12 Copynumber: 3.4 Consensus size: 13
747279 ATATATAATA
747289 AATTTTAAATTTT
1 AATTTTAAATTTT
747302 AATTTT-AATTTT
1 AATTTTAAATTTT
747314 AATATTTAATATTTTT
1 AAT-TTTAA-A-TTTT
747330 AATTT
1 AATTT
747335 AAAGTTATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 9 0.31
13 9 0.31
14 1 0.03
15 3 0.10
16 7 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
AATTTTAAATTTT
Found at i:747327 original size:7 final size:6
Alignment explanation
Indices: 747289--747323 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
747279 ATATATAATA
747289 AATTTT AAATTTT AATTTT AATTTT AATATTT AAT
1 AATTTT -AATTTT AATTTT AATTTT AAT-TTT AAT
747324 ATTTTTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 15 0.56
7 12 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (6 bp):
AATTTT
Found at i:750001 original size:24 final size:25
Alignment explanation
Indices: 749968--750022 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
749958 TTTTTAGATA
* *
749968 TATAATATATCATTTTATTA-A-TTT
1 TATAAAATATAATTTT-TTATATTTT
749992 TATAAAATATAATTTTTTATATTTT
1 TATAAAATATAATTTTTTATATTTT
750017 TATAAA
1 TATAAA
750023 TCAAATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 3 0.11
24 15 0.56
25 9 0.33
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
TATAAAATATAATTTTTTATATTTT
Found at i:750539 original size:12 final size:12
Alignment explanation
Indices: 750522--750555 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
750512 TTATCGTTAA
750522 AAAATAATTTTT
1 AAAATAATTTTT
750534 AAAATAA-TTTT
1 AAAATAATTTTT
*
750545 ATAATAATTTT
1 AAAATAATTTT
750556 ATTTTCAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AAAATAATTTTT
Found at i:750627 original size:9 final size:8
Alignment explanation
Indices: 750580--750628 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
750570 TTCATCAATT
750580 TTTTTTAA
1 TTTTTTAA
* *
750588 ATTTATAA
1 TTTTTTAA
750596 TTTTTATAA
1 TTTTT-TAA
750605 TTTTTTAA
1 TTTTTTAA
*
750613 CTTTTTAA
1 TTTTTTAA
750621 TTATTTTA
1 TT-TTTTA
750629 CGTAAGATGA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
8 20 0.61
9 13 0.39
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTTTTAA
Found at i:751110 original size:19 final size:21
Alignment explanation
Indices: 751088--751126 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
751078 AAGAAAAAAA
751088 GAAAGAGA-AGGA-AGAAAGG
1 GAAAGAGAGAGGAGAGAAAGG
751107 GAAAGAGAGAGGAGAGAAAG
1 GAAAGAGAGAGGAGAGAAAG
751127 AAAAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (21 bp):
GAAAGAGAGAGGAGAGAAAGG
Found at i:751129 original size:19 final size:17
Alignment explanation
Indices: 751085--751129 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 17
751075 AAAAAGAAAA
751085 AAAGAAAGAGAAGGAAG
1 AAAGAAAGAGAAGGAAG
751102 AAAGGGAAAGAGAGAGGAGAG
1 AAA--GAAAGAGA-AGGA-AG
751123 AAAGAAA
1 AAAGAAA
751130 AAAATAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 3 0.12
19 12 0.50
20 4 0.17
21 5 0.21
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (17 bp):
AAAGAAAGAGAAGGAAG
Found at i:751853 original size:21 final size:21
Alignment explanation
Indices: 751816--751869 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
751806 TTACTCACAA
* *
751816 ATTAATTTAAGATTCATTC-T
1 ATTATTTTAATATTCATTCAT
751836 AATT-TTTTAATATATCATTCAT
1 -ATTATTTTAATAT-TCATTCAT
751858 ATTATTTTAATA
1 ATTATTTTAATA
751870 CTAATAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 7 0.25
21 12 0.43
22 9 0.32
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (21 bp):
ATTATTTTAATATTCATTCAT
Found at i:752071 original size:22 final size:21
Alignment explanation
Indices: 752019--752093 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 21
752009 TTAAATTTTA
*
752019 ATTATTATAATAATTAAATCATC
1 ATTATTA-AATAATTGAAT-ATC
*
752042 A-TAATAAATGAATTGAATATC
1 ATTATTAAAT-AATTGAATATC
*
752063 ATTATTAAATAATATGAATATT
1 ATTATTAAATAAT-TGAATATC
752085 ATTTATTAA
1 A-TTATTAA
752094 TTAAAAATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 10 0.23
22 26 0.59
23 8 0.18
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (21 bp):
ATTATTAAATAATTGAATATC
Found at i:752152 original size:81 final size:82
Alignment explanation
Indices: 752062--752212 Score: 241
Period size: 81 Copynumber: 1.8 Consensus size: 82
752052 AATTGAATAT
** * *
752062 CATTATTAAATAATATGAATATTATTTATTAATTAAAAATTTATATTTCATATAA-TATATATAT
1 CATTATTAAATAATACAAATACTATCTATTAATTAAAAATTTATATTTCATATAACTATATATAT
752126 TTATATATCAATTATAC
66 TTATATATCAATTATAC
*
752143 CATTATTAAATAATACAAATACTATCTATTAATTAAAATTTTATATTTCATATAATCTATATATA
1 CATTATTAAATAATACAAATACTATCTATTAATTAAAAATTTATATTTCATATAA-CTATATATA
752208 TTTAT
65 TTTAT
752213 TTTATATAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
81 50 0.79
83 13 0.21
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.48
Consensus pattern (82 bp):
CATTATTAAATAATACAAATACTATCTATTAATTAAAAATTTATATTTCATATAACTATATATAT
TTATATATCAATTATAC
Found at i:756220 original size:14 final size:14
Alignment explanation
Indices: 756203--756240 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
756193 ATTTTAAATA
756203 TAAATAATAT-ATAT
1 TAAAT-ATATCATAT
756217 TAAATATATCATAT
1 TAAATATATCATAT
*
756231 TAATTATATC
1 TAAATATATC
756241 TAAATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAATATATCATAT
Found at i:756701 original size:14 final size:14
Alignment explanation
Indices: 756674--756716 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
756664 TATATATATG
*
756674 ATTTTATATGATTTT
1 ATTTTATA-AATTTT
756689 ATTTTATAAATTTT
1 ATTTTATAAATTTT
*
756703 GTTATTATAAATTT
1 ATT-TTATAAATTT
756717 GAATAATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 7 0.28
15 18 0.72
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (14 bp):
ATTTTATAAATTTT
Found at i:757665 original size:3 final size:3
Alignment explanation
Indices: 757657--757685 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
757647 TTATACACAG
757657 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
757686 TTTATATCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:759335 original size:13 final size:13
Alignment explanation
Indices: 759317--759343 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
759307 GACAATGCCG
759317 ATCAAATATTAGA
1 ATCAAATATTAGA
759330 ATCAAATATTAGA
1 ATCAAATATTAGA
759343 A
1 A
759344 AGTATCATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
ATCAAATATTAGA
Found at i:762848 original size:24 final size:24
Alignment explanation
Indices: 762772--762862 Score: 91
Period size: 24 Copynumber: 3.9 Consensus size: 24
762762 CCAGACTTAG
* * **
762772 ATTTAAAACAAAATTTTATTTTCTT
1 ATTTAAAA-ATAATTTTATATTAAT
762797 ATTT-AAAATAA-TTTATA--AAT
1 ATTTAAAAATAATTTTATATTAAT
*
762817 ATTAAAAAATAATTTTATATTAAT
1 ATTTAAAAATAATTTTATATTAAT
*
762841 ATTTAAAAATAATTTTACATTA
1 ATTTAAAAATAATTTTATATTA
762863 TTTAATATTA
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
20 4 0.07
21 7 0.13
22 11 0.20
23 3 0.05
24 26 0.47
25 4 0.07
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (24 bp):
ATTTAAAAATAATTTTATATTAAT
Found at i:762866 original size:21 final size:20
Alignment explanation
Indices: 762795--762867 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 20
762785 TTTTATTTTC
762795 TTATTT-AAAATAATTTATAA
1 TTATTTAAAAATAATTT-TAA
* *
762815 ATATTAAAAAATAATTTTATA
1 TTATTTAAAAATAATTTTA-A
762836 TTAATATTTAAAAATAATTTTACA
1 -T--TATTTAAAAATAATTTTA-A
762860 TTATTTAA
1 TTATTTAA
762868 TATTAATTCC
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
20 6 0.14
21 18 0.42
23 1 0.02
24 18 0.42
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (20 bp):
TTATTTAAAAATAATTTTAA
Found at i:763970 original size:17 final size:17
Alignment explanation
Indices: 763948--763982 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
763938 ACAACTGTCC
763948 TTGATAAATTGAGCAAG
1 TTGATAAATTGAGCAAG
763965 TTGATAAATTGAGCAAG
1 TTGATAAATTGAGCAAG
763982 T
1 T
763983 CTCATGGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (17 bp):
TTGATAAATTGAGCAAG
Found at i:766734 original size:15 final size:15
Alignment explanation
Indices: 766714--766747 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
766704 TTTATTCATT
766714 TTTTTTCAT-AATTAA
1 TTTTTTC-TGAATTAA
766729 TTTTTTCTGAATTAA
1 TTTTTTCTGAATTAA
766744 TTTT
1 TTTT
766748 AATTTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 1 0.06
15 17 0.94
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (15 bp):
TTTTTTCTGAATTAA
Found at i:766976 original size:28 final size:28
Alignment explanation
Indices: 766936--766989 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
766926 GTCTAGGCTG
766936 TAGGAGGAGGAAGGAAGGTTAATTTATA
1 TAGGAGGAGGAAGGAAGGTTAATTTATA
* *
766964 TAGGATGAGGAAGGAATGTTAATTTA
1 TAGGAGGAGGAAGGAAGGTTAATTTA
766990 GAGTAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.28
Consensus pattern (28 bp):
TAGGAGGAGGAAGGAAGGTTAATTTATA
Found at i:767180 original size:6 final size:6
Alignment explanation
Indices: 767169--767211 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
767159 TAATTTTTAA
* *
767169 AAATTT AAATTT AAATTT AAATAT AAATAATC AAATTT AAATT
1 AAATTT AAATTT AAATTT AAATTT AAAT--TT AAATTT AAATT
767212 ATTTTTTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
6 27 0.87
8 4 0.13
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (6 bp):
AAATTT
Found at i:767205 original size:32 final size:32
Alignment explanation
Indices: 767169--767241 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
767159 TAATTTTTAA
767169 AAATTTAAATTTAAATTTAAATATAAAT-AAT
1 AAATTTAAATTTAAATTTAAATATAAATAAAT
** * *
767200 CAAATTTAAA-TTATTTTTTACTATAAATAAAT
1 -AAATTTAAATTTAAATTTAAATATAAATAAAT
767232 AAATTTAAAT
1 AAATTTAAAT
767242 AATTTAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
31 23 0.66
32 12 0.34
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (32 bp):
AAATTTAAATTTAAATTTAAATATAAATAAAT
Found at i:767694 original size:17 final size:16
Alignment explanation
Indices: 767653--767695 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
767643 TTTTAAAAAA
*
767653 TATTTTTATATTTTTAC
1 TATTTTTA-ATTATTAC
*
767670 TCTTTTTAATTATTAC
1 TATTTTTAATTATTAC
767686 TATTATTTAA
1 TATT-TTTAA
767696 AAAAGAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTTTAATTATTAC
Found at i:767833 original size:24 final size:27
Alignment explanation
Indices: 767803--767894 Score: 72
Period size: 26 Copynumber: 3.6 Consensus size: 27
767793 TAAATTTTAA
*
767803 TATATTAATAATTA-TTATTTAA-ATT
1 TATATTAATAATTATTTATATAATATT
*
767828 T-TATT-ATATTTATTTATATAATATT
1 TATATTAATAATTATTTATATAATATT
** *
767853 TATATT-ATTTTTATATTATATTATA-T
1 TATATTAATAATTAT-TTATATAATATT
*
767879 TATATT-TTAATTATTT
1 TATATTAATAATTATTT
767895 TAATATCATT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
23 6 0.11
24 11 0.20
25 7 0.12
26 23 0.41
27 9 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (27 bp):
TATATTAATAATTATTTATATAATATT
Found at i:767891 original size:21 final size:21
Alignment explanation
Indices: 767782--767892 Score: 86
Period size: 21 Copynumber: 5.1 Consensus size: 21
767772 TTATGTATTA
* *
767782 TATATTTTATATAAATTTTAA-
1 TATATTATAT-TATATTTTAAT
*
767803 TATATTAATAATTATTATTTAAAT
1 TATATT-AT-ATTA-TATTTTAAT
*
767827 TTTATTATATT-TA-TTTATAT
1 TATATTATATTATATTTTA-AT
*
767847 AATATTTATATTAT-TTTTATAT
1 TATA-TTATATTATATTTTA-AT
767869 TATATTATATTATATTTTAAT
1 TATATTATATTATATTTTAAT
767890 TAT
1 TAT
767893 TTTAATATCA
Statistics
Matches: 73, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
19 3 0.04
20 6 0.08
21 27 0.37
22 22 0.30
23 10 0.14
24 5 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TATATTATATTATATTTTAAT
Found at i:767927 original size:87 final size:90
Alignment explanation
Indices: 767747--767918 Score: 203
Period size: 91 Copynumber: 1.9 Consensus size: 90
767737 ATAATTTATA
* * *
767747 TATTTATTTAATATTTTTATTATTTTTATGTATTATATATTTTATATAAATTTTAATATATTAAT
1 TATTTATATAATATTTATATTATTTTTA-GTATTATATATTATATATAAATTTTAATATATTAAT
* *
767812 AATTATTATTTAAATTTTATTATATT
65 AATTACTATTTAAATATTATTATATT
* *
767838 TATTTATATAATATTTATATTATTTTTA-TA-T-TATATTATAT-TATATTTTAATTATTTTAAT
1 TATTTATATAATATTTATATTATTTTTAGTATTATATATTATATATAAATTTTAA-TATATTAAT
767899 ATCATT-CTATTTAAA-ATTAT
65 A--ATTACTATTTAAATATTAT
767919 CTTGTTTATA
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
86 9 0.13
87 22 0.31
88 9 0.13
89 5 0.07
91 26 0.37
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.62
Consensus pattern (90 bp):
TATTTATATAATATTTATATTATTTTTAGTATTATATATTATATATAAATTTTAATATATTAATA
ATTACTATTTAAATATTATTATATT
Found at i:769965 original size:28 final size:26
Alignment explanation
Indices: 769909--769966 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
769899 TGATAACATT
* *
769909 TTTTATAATATTAATTTAATAAAAAA
1 TTTTATAATAATAATTAAATAAAAAA
*
769935 TTTTAT-ATAATAATATAAATAAATAA
1 TTTTATAATAATAAT-TAAATAAAAAA
769961 TATTTA
1 T-TTTA
769967 ATTTGAATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 7 0.26
26 16 0.59
27 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
TTTTATAATAATAATTAAATAAAAAA
Found at i:769975 original size:20 final size:20
Alignment explanation
Indices: 769952--769990 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
769942 TAATAATATA
769952 AATAAATAATATTTAATTTG
1 AATAAATAATATTTAATTTG
* * *
769972 AATAGATTATATTTTATTT
1 AATAAATAATATTTAATTT
769991 TTTCATTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
AATAAATAATATTTAATTTG
Found at i:775853 original size:18 final size:18
Alignment explanation
Indices: 775830--775868 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
775820 GTCTCTTTAT
775830 ATTTATGTTCAGATATTC
1 ATTTATGTTCAGATATTC
775848 ATTTATGTTCAGATATTC
1 ATTTATGTTCAGATATTC
775866 ATT
1 ATT
775869 GAATATAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.51
Consensus pattern (18 bp):
ATTTATGTTCAGATATTC
Found at i:776937 original size:20 final size:18
Alignment explanation
Indices: 776894--776937 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
776884 TCAATCAACC
*
776894 AAATTATTAAAAATAAAA
1 AAATAATTAAAAATAAAA
776912 ATAATAATTAAAATATAAAA
1 A-AATAATTAAAA-ATAAAA
776932 TAAATA
1 -AAATA
776938 TATATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 1 0.05
19 10 0.45
20 10 0.45
21 1 0.05
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATAATTAAAAATAAAA
Found at i:786307 original size:11 final size:11
Alignment explanation
Indices: 786284--786391 Score: 64
Period size: 11 Copynumber: 9.7 Consensus size: 11
786274 GCACAGTTTT
786284 ATATAAA-ATA
1 ATATAAATATA
786294 ATATAAATATA
1 ATATAAATATA
786305 ATATAAA-ATA
1 ATATAAATATA
*
786315 ATAATTACAAGATA
1 AT-A-TA-AATATA
****
786329 ATAGGTTTATA
1 ATATAAATATA
786340 A-A-AAAT-TA
1 ATATAAATATA
*
786348 ATATAAAAATA
1 ATATAAATATA
786359 ATATAAATATA
1 ATATAAATATA
*
786370 TTATAATTTATATA
1 ATATAA---ATATA
786384 ATATAAAT
1 ATATAAAT
786392 TTTTAATATA
Statistics
Matches: 75, Mismatches: 12, Indels: 21
0.69 0.11 0.19
Matches are distributed among these distances:
8 3 0.04
9 2 0.03
10 16 0.21
11 34 0.45
12 2 0.03
13 3 0.04
14 15 0.20
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (11 bp):
ATATAAATATA
Found at i:786384 original size:20 final size:20
Alignment explanation
Indices: 786355--786472 Score: 83
Period size: 20 Copynumber: 6.2 Consensus size: 20
786345 TTAATATAAA
786355 AATA-ATATAAATATATTAT
1 AATATATATAAATATATTAT
* * *
786374 AATTTATATAATATAAATTTTT
1 AATATATATAA-ATATA-TTAT
* *
786396 AATATATAAAAATTTA-TAT
1 AATATATATAAATATATTAT
786415 AA-ATATATAAA-AT-TT-T
1 AATATATATAAATATATTAT
* *
786431 AAT-TTTATAAATATA-AAT
1 AATATATATAAATATATTAT
786449 ATATATATATAAATA-ATTAT
1 A-ATATATATAAATATATTAT
786469 AATA
1 AATA
786473 GGATTAAAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
16 10 0.14
17 4 0.05
18 10 0.14
19 13 0.18
20 18 0.24
21 7 0.09
22 12 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATATATATAAATATATTAT
Found at i:786440 original size:36 final size:35
Alignment explanation
Indices: 786384--786461 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 35
786374 AATTTATATA
* **
786384 ATATAAATTTTTAATATATAAAAATTTATATAAAT
1 ATATAAAATTTTAATATATAAAAATAAATATAAAT
* * *
786419 ATATAAAATTTTAATTTTATAAATATAAATATATAT
1 ATATAAAATTTTAA-TATATAAAAATAAATATAAAT
786455 ATATAAA
1 ATATAAA
786462 TAATTATAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 13 0.36
36 23 0.64
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (35 bp):
ATATAAAATTTTAATATATAAAAATAAATATAAAT
Found at i:786454 original size:40 final size:39
Alignment explanation
Indices: 786358--786464 Score: 99
Period size: 42 Copynumber: 2.6 Consensus size: 39
786348 ATATAAAAAT
* *
786358 AATATAAATATAT-TATAATTTATATAATATAAATTTTTA
1 AATATAAATATATATA-AATATATAAAATATAAATTTTTA
* * *
786397 ATATATAAAAATTTATATAAATATATAAAATTTTAATTTTATA
1 A-ATAT--AAATATATATAAATATATAAAATATAAATTTT-TA
* *
786440 AATATAAATATATATATATAAATAA
1 AATATAAATATATATAAATATATAA
786465 TTATAATAGG
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
39 1 0.02
40 21 0.38
42 28 0.51
43 5 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (39 bp):
AATATAAATATATATAAATATATAAAATATAAATTTTTA
Found at i:786469 original size:14 final size:14
Alignment explanation
Indices: 786348--786463 Score: 59
Period size: 14 Copynumber: 8.6 Consensus size: 14
786338 TAAAAAATTA
786348 ATATAAA-A-ATA-
1 ATATAAATATATAT
786359 ATATAAATATAT-T
1 ATATAAATATATAT
**
786372 ATA-ATTTATATA-
1 ATATAAATATATAT
* *
786384 ATATAAATTTTTAAT
1 ATATAAATATAT-AT
*
786399 ATATAAA-A-ATTT
1 ATATAAATATATAT
*
786411 ATATAAATATATAAA
1 ATATAAATATAT-AT
* * * *
786426 ATTTTAATTTTATAA
1 A-TATAAATATATAT
786441 ATATAAATATATAT
1 ATATAAATATATAT
786455 ATATAAATA
1 ATATAAATA
786464 ATTATAATAG
Statistics
Matches: 76, Mismatches: 18, Indels: 19
0.67 0.16 0.17
Matches are distributed among these distances:
11 7 0.09
12 18 0.24
13 11 0.14
14 21 0.28
15 11 0.14
16 8 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATATAAATATATAT
Found at i:788057 original size:22 final size:21
Alignment explanation
Indices: 788032--788073 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
788022 AATATTAAAA
788032 ATAT-TTTTAT-ATTAATATTT
1 ATATATTTTATAATTAA-ATTT
788052 ATATATTTTATAATTAAATTT
1 ATATATTTTATAATTAAATTT
788073 A
1 A
788074 AATAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:788894 original size:25 final size:25
Alignment explanation
Indices: 788816--788911 Score: 72
Period size: 26 Copynumber: 3.7 Consensus size: 25
788806 GTATATTTTA
*
788816 TTATATTATAATTATATTTAAAATAGT
1 TTATATTAT-ATAATATTTAAAATA-T
* *
788843 TTAT-TTATTTTAATATATTAATA-AT
1 TTATATTA-TATAATAT-TTAAAATAT
*
788868 TTATATTATATAAAATTTAAAATATTT
1 TTATATTATATAATATTTAAAATA--T
*
788895 TTATATT-TATATTATTT
1 TTATATTATATAATATTT
788912 TTTATATTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
24 5 0.09
25 12 0.22
26 20 0.36
27 18 0.33
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (25 bp):
TTATATTATATAATATTTAAAATAT
Found at i:788917 original size:12 final size:12
Alignment explanation
Indices: 788895--788927 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
788885 TAAAATATTT
788895 TTATA-TTTATA
1 TTATATTTTATA
*
788906 TTATTTTTTATA
1 TTATATTTTATA
788918 TTATATTTTA
1 TTATATTTTA
788928 ATACATGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTATATTTTATA
Found at i:789711 original size:24 final size:22
Alignment explanation
Indices: 789660--789791 Score: 97
Period size: 24 Copynumber: 6.2 Consensus size: 22
789650 ATAATGATAA
* *
789660 ATTTAATAAATATA-AAAATA-
1 ATTTAATAAATATATATATTAT
789680 ATTTAATAAATATGATATATTAT
1 ATTTAATAAATAT-ATATATTAT
*
789703 ATTTAAATATAAT-TAATATAATAT
1 ATTT-AATA-AATAT-ATATATTAT
789727 ATTTAATAAATATATTATATTCAT
1 ATTTAATAAATATA-TATATT-AT
*
789751 ATTT-A-AAAT-T-T-TAATAT
1 ATTTAATAAATATATATATTAT
789768 ATTTAAT-AAT-T-TATATTAT
1 ATTTAATAAATATATATATTAT
789787 ATTTA
1 ATTTA
789792 TCTTTAAACA
Statistics
Matches: 94, Mismatches: 7, Indels: 23
0.76 0.06 0.19
Matches are distributed among these distances:
17 6 0.06
18 9 0.10
19 11 0.12
20 13 0.14
21 2 0.02
22 12 0.13
23 15 0.16
24 23 0.24
25 3 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (22 bp):
ATTTAATAAATATATATATTAT
Found at i:789746 original size:42 final size:42
Alignment explanation
Indices: 789694--789791 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 42
789684 AATAAATATG
789694 ATATATTATATTTAAATATAATTAA-TATAATATATTTAATAA-
1 ATATATTATATTTAAATATAA--AATTATAATATATTTAATAAT
* * * *
789736 ATATATTATATTCATATTTAAAATTTTAATATATTTAATAAT
1 ATATATTATATTTAAATATAAAATTATAATATATTTAATAAT
*
789778 TTATATTATATTTA
1 ATATATTATATTTA
789792 TCTTTAAACA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 2 0.04
41 16 0.33
42 30 0.62
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (42 bp):
ATATATTATATTTAAATATAAAATTATAATATATTTAATAAT
Found at i:789771 original size:17 final size:19
Alignment explanation
Indices: 789719--789791 Score: 69
Period size: 19 Copynumber: 3.7 Consensus size: 19
789709 ATATAATTAA
789719 TATAATATATTTAATAAATATAT
1 TATAATATATTTAAT--A-AT-T
*
789742 TATATTCATATTTAA-AATT
1 TATAAT-ATATTTAATAATT
789761 T-TAATATATTTAATAATT
1 TATAATATATTTAATAATT
*
789779 TATATTATATTTA
1 TATAATATATTTA
789792 TCTTTAAACA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
17 8 0.18
18 8 0.18
19 12 0.27
20 2 0.05
21 1 0.02
23 5 0.11
24 8 0.18
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (19 bp):
TATAATATATTTAATAATT
Found at i:789773 original size:41 final size:42
Alignment explanation
Indices: 789721--789799 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
789711 ATAATTAATA
789721 TAATATATTTAATAA-ATATATTATATTCATATTTAAAATTT
1 TAATATATTTAATAATATATATTATATTCATATTTAAAATTT
* * *
789762 TAATATATTTAATAATTTATATTATATTTATCTTTAAA
1 TAATATATTTAATAATATATATTATATTCATATTTAAA
789800 CATTCAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 15 0.44
42 19 0.56
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (42 bp):
TAATATATTTAATAATATATATTATATTCATATTTAAAATTT
Found at i:791367 original size:8 final size:8
Alignment explanation
Indices: 791354--791386 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
791344 TCTTGGAGAT
791354 AAAAACAA
1 AAAAACAA
791362 AAAAACAA
1 AAAAACAA
791370 AAAAA-AA
1 AAAAACAA
791377 AAAAACAA
1 AAAAACAA
791385 AA
1 AA
791387 GGTTAAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAACAA
Found at i:791378 original size:15 final size:15
Alignment explanation
Indices: 791354--791386 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
791344 TCTTGGAGAT
*
791354 AAAAACAAAAAAACA
1 AAAAAAAAAAAAACA
791369 AAAAAAAAAAAAACA
1 AAAAAAAAAAAAACA
791384 AAA
1 AAA
791387 GGTTAAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAACA
Found at i:797480 original size:5 final size:5
Alignment explanation
Indices: 797438--797471 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
797428 AAATAATTAT
*
797438 TTAAA TTAAA TTAAA TTAAA TTAATT TTAAA TTA
1 TTAAA TTAAA TTAAA TTAAA TTAA-A TTAAA TTA
797472 TAAATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (5 bp):
TTAAA
Found at i:797708 original size:3 final size:3
Alignment explanation
Indices: 797700--797739 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
797690 TTGCATAGAA
797700 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
797740 CAATGTCAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:798202 original size:15 final size:16
Alignment explanation
Indices: 798164--798211 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
798154 TAATATAATT
798164 AATTATATAATTACTTTTA
1 AATT-TATAATT--TTTTA
798183 AATTT-TAATTTTTTA
1 AATTTATAATTTTTTA
*
798198 TATTTATAATTTTT
1 AATTTATAATTTTT
798212 GAAAGCATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 9 0.33
16 8 0.30
17 5 0.19
18 1 0.04
19 4 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTTATAATTTTTTA
Found at i:807949 original size:1 final size:1
Alignment explanation
Indices: 807943--807972 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
807933 TAAAAGTTAG
807943 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
807973 CCTAGTGTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:811439 original size:22 final size:22
Alignment explanation
Indices: 811411--811452 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
811401 ATTACAAAAC
811411 ATATTTTTAT-ATTAATATTTAT
1 ATATTTTTATAATTAA-ATTTAT
811433 ATATTTTTATAATTAAATTT
1 ATATTTTTATAATTAAATTT
811453 CAAAATAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATATTTTTATAATTAAATTTAT
Found at i:816449 original size:36 final size:36
Alignment explanation
Indices: 816409--816530 Score: 116
Period size: 36 Copynumber: 3.5 Consensus size: 36
816399 TAAATTTTAA
*
816409 TATATTAATA-ATTTATATTATAATTTTTAAAATATT
1 TATATTAATATATTTATATT-TAATTTTTAATATATT
* *
816445 TATATT-ATATA-ATAT-TTTAATTATTT-TTATA-T
1 TATATTAATATATTTATATTTAATT-TTTAATATATT
*
816477 TATATTAATATAATTATATTTAA-TTTTAATATATT
1 TATATTAATATATTTATATTTAATTTTTAATATATT
816512 TAAATATT-ATATATTTATA
1 T--ATATTAATATATTTATA
816531 AAATTTTATT
Statistics
Matches: 71, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
32 7 0.10
33 16 0.23
34 13 0.18
35 13 0.18
36 17 0.24
37 5 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (36 bp):
TATATTAATATATTTATATTTAATTTTTAATATATT
Found at i:816469 original size:25 final size:24
Alignment explanation
Indices: 816402--816538 Score: 97
Period size: 25 Copynumber: 5.6 Consensus size: 24
816392 ATTGATATAA
*
816402 ATTT-TAATATATT-AATAATTTAT
1 ATTTATAATATTTTAAAT-ATTTAT
816425 A-TTATAAT-TTTTAAAATATTTAT
1 ATTTATAATATTTT-AAATATTTAT
* *
816448 ATTATATAATATTTTAATTATTTTT
1 ATT-TATAATATTTTAAATATTTAT
* * *
816473 ATATTATATTAATATAATTATATTTA-
1 AT-TTATAATATTTTAA--ATATTTAT
816499 ATTT-TAATATATTTAAATATTATAT
1 ATTTATAATAT-TTTAAATATT-TAT
*
816524 ATTTATAAAATTTTA
1 ATTTATAATATTTTA
816539 TTTAAAAAAT
Statistics
Matches: 89, Mismatches: 12, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
22 5 0.06
23 17 0.19
24 10 0.11
25 40 0.45
26 12 0.13
27 5 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTATAATATTTTAAATATTTAT
Found at i:816544 original size:29 final size:31
Alignment explanation
Indices: 816508--816569 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
816498 AATTTTAATA
*
816508 TATTT-AAATATT-ATATATTTATAAAATTT
1 TATTTAAAAAATTAATATATTTATAAAATTT
* *
816537 TATTTAAAAAATTAATATATTTTTAATATTT
1 TATTTAAAAAATTAATATATTTATAAAATTT
816568 TA
1 TA
816570 ATCATATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 5 0.18
30 6 0.21
31 17 0.61
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
TATTTAAAAAATTAATATATTTATAAAATTT
Found at i:817428 original size:20 final size:20
Alignment explanation
Indices: 817391--817435 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
817381 ATTATTTAAA
*
817391 AATACTAAAATAATAATAAT
1 AATACTAAAATAAAAATAAT
817411 AATA-TAAAATAAAAAATAAT
1 AATACTAAAAT-AAAAATAAT
*
817431 TATAC
1 AATAC
817436 CTTTCATATC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (20 bp):
AATACTAAAATAAAAATAAT
Found at i:825997 original size:26 final size:26
Alignment explanation
Indices: 825966--826060 Score: 72
Period size: 26 Copynumber: 3.6 Consensus size: 26
825956 ATGATATTAT
825966 TAAAAATATTAAAATATATAATAAAA
1 TAAAAATATTAAAATATATAATAAAA
* *
825992 TAAAAATA--ATAATATA-AAT-ATA
1 TAAAAATATTAAAATATATAATAAAA
* *
826014 TAAACATGTTAAAATTTATATAATAATAA
1 TAAAAATATTAAAA--TATATAATAA-AA
826043 TCATAAATATATTAAAAT
1 T-A-AAA-ATATTAAAAT
826061 TTATTTATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 16
0.68 0.11 0.21
Matches are distributed among these distances:
22 8 0.16
23 3 0.06
24 10 0.20
26 12 0.24
27 3 0.06
28 1 0.02
29 2 0.04
30 2 0.04
31 2 0.04
32 8 0.16
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (26 bp):
TAAAAATATTAAAATATATAATAAAA
Found at i:825999 original size:18 final size:18
Alignment explanation
Indices: 825976--826011 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
825966 TAAAAATATT
825976 AAAATATATAATA-AAATA
1 AAAATA-ATAATATAAATA
825994 AAAATAATAATATAAATA
1 AAAATAATAATATAAATA
826012 TATAAACATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAATAATAATATAAATA
Found at i:826067 original size:36 final size:37
Alignment explanation
Indices: 825996--826078 Score: 93
Period size: 39 Copynumber: 2.2 Consensus size: 37
825986 ATAAAATAAA
825996 AATAATAATATAAATATATAAACATGTTAAAATTTATAT
1 AATAATAATATAAATATATAAACATGTT--AATTTATAT
826035 AATAATAATCATAAATATATTAAA-AT-TT-ATTTATAT
1 AATAATAAT-ATAAATATA-TAAACATGTTAATTTATAT
*
826071 TA-AATAAT
1 AATAATAAT
826079 TAATACACGA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
35 6 0.15
36 9 0.22
39 11 0.27
40 11 0.27
41 4 0.10
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (37 bp):
AATAATAATATAAATATATAAACATGTTAATTTATAT
Found at i:826814 original size:24 final size:23
Alignment explanation
Indices: 826765--826814 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
826755 TTTCACGTTT
*
826765 TTTGAATTATAATTAAGGTTTAAA
1 TTTGAAATATAATTAA-GTTTAAA
826789 TTTGAAATATAAATTAA-TTTATAA
1 TTTGAAATAT-AATTAAGTTTA-AA
826813 TT
1 TT
826815 AATAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 4 0.17
24 13 0.57
25 6 0.26
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (23 bp):
TTTGAAATATAATTAAGTTTAAA
Found at i:829599 original size:2 final size:2
Alignment explanation
Indices: 829592--829625 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
829582 GGTACATCAA
829592 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
829626 TGCTGGGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:835844 original size:53 final size:53
Alignment explanation
Indices: 835776--835880 Score: 147
Period size: 53 Copynumber: 2.0 Consensus size: 53
835766 AAGTAATTTA
* *
835776 AGATCGTTATCATATAAAAATCTTAAATTATTAATAAATAAGATAATGTAATT
1 AGATCGTTATCATATAAAAATCTTAAATTATTAACAAATAAAATAATGTAATT
* * * * *
835829 AGATCGTTGTTATATAAAAATTTTAAATTGTTAACAAATAAAATGATGTAAT
1 AGATCGTTATCATATAAAAATCTTAAATTATTAACAAATAAAATAATGTAAT
835881 ACAGATTATT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (53 bp):
AGATCGTTATCATATAAAAATCTTAAATTATTAACAAATAAAATAATGTAATT
Found at i:837258 original size:37 final size:37
Alignment explanation
Indices: 837208--837284 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
837198 TTTCTCTGTA
837208 CATAGTTTGGTTGGTATTTGTAAACTAACTATTCAAG
1 CATAGTTTGGTTGGTATTTGTAAACTAACTATTCAAG
837245 CATAGTTTGGTTGGTATTTGTAAACTAACTATTCAAG
1 CATAGTTTGGTTGGTATTTGTAAACTAACTATTCAAG
837282 CAT
1 CAT
837285 TTTGACATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (37 bp):
CATAGTTTGGTTGGTATTTGTAAACTAACTATTCAAG
Found at i:837295 original size:31 final size:34
Alignment explanation
Indices: 837223--837295 Score: 80
Period size: 37 Copynumber: 2.1 Consensus size: 34
837213 TTTGGTTGGT
**
837223 ATTTGTAAACTAACTATTCAAGCATAGTTTGGTTGGT
1 ATTTGTAAACTAACTATTCAAGCA-AG-TT-GTTGAC
837260 ATTTGTAAACTAACTATTCAAGC-A-TT-TTGAC
1 ATTTGTAAACTAACTATTCAAGCAAGTTGTTGAC
837291 ATTTG
1 ATTTG
837296 AATCAGCTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
31 8 0.24
33 2 0.06
35 1 0.03
37 23 0.68
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (34 bp):
ATTTGTAAACTAACTATTCAAGCAAGTTGTTGAC
Found at i:839387 original size:8 final size:8
Alignment explanation
Indices: 839376--839405 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
839366 AAAACTTATC
839376 AAAAAATT
1 AAAAAATT
839384 AAAAAATT
1 AAAAAATT
839392 AAAAAGATT
1 AAAAA-ATT
839401 AAAAA
1 AAAAA
839406 TAAGTAGGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (8 bp):
AAAAAATT
Found at i:840423 original size:19 final size:20
Alignment explanation
Indices: 840389--840429 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
840379 TTTTAAGTAC
**
840389 TTTTAATTTTGTTTTAA-TT
1 TTTTAATTTTAATTTAACTT
840408 TTTTAATTTTAATTTAACTT
1 TTTTAATTTTAATTTAACTT
840428 TT
1 TT
840430 ATTTAATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTTAATTTTAATTTAACTT
Found at i:840819 original size:32 final size:32
Alignment explanation
Indices: 840775--840836 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
840765 GTTAAAATTT
840775 TTTAATGATTATCAAATTTATAAGCAATTACA
1 TTTAATGATTATCAAATTTATAAGCAATTACA
* *
840807 TTTAAT-ATTTATCAAATTTATTAGTAATTA
1 TTTAATGA-TTATCAAATTTATAAGCAATTA
840837 TGACTAACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (32 bp):
TTTAATGATTATCAAATTTATAAGCAATTACA
Found at i:841033 original size:194 final size:193
Alignment explanation
Indices: 840705--841081 Score: 573
Period size: 194 Copynumber: 1.9 Consensus size: 193
840695 ATAAATTTTA
* *
840705 ATATAATATTCTAAAAAACTTCATCGAATATAAAAAATCAATTTCAATATAAAGAGTAAAGTTAA
1 ATATAATATTCTAAAAAACTTCATCAAATATAAAAAATCAATATCAATATAAAGAGTAAAGTTAA
* *
840770 AATTTTTTAATGATTATCAAATTTATAAGCAATTACATTTAATATTTATCAAATTTATTAGTAAT
66 AATTTTTTAATGATTATCAAATTTATAAGCAATTACATCTAATATTTATCAAATTTATGAGTAAT
*
840835 TATGACTAACTCATCAAATTCATGATTAATATCAAGTTATCTTTTTAGAAATTCATCAACTAT
131 TATGACTAACTCATCAAATTCATGATTAATATCAAGCTATCTTTTTAGAAATTCATCAACTAT
*
840898 ATATAATATTCTAAAAAAACTTCATCAAATATAAGAAAATCAATATCAATATAAGGAG-AAAGGT
1 ATATAATATTCT-AAAAAACTTCATCAAATATAA-AAAATCAATATCAATATAAAGAGTAAA-GT
* * * *
840962 TGAAAA-TTTTTAATGATTGTCAAATTCT-T-TGTAATTATATCTAATATTTATCAAATTTATGA
63 T-AAAATTTTTTAATGATTATCAAATT-TATAAGCAATTACATCTAATATTTATCAAATTTATGA
* *
841024 GTAATTATGATTAATTCATCAAATTCATGATTAATATCAAGCTATCTTTTTAGAAATT
126 GTAATTATGACTAACTCATCAAATTCATGATTAATATCAAGCTATCTTTTTAGAAATT
841082 TATATTATGT
Statistics
Matches: 167, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
193 12 0.07
194 106 0.63
195 44 0.26
196 5 0.03
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (193 bp):
ATATAATATTCTAAAAAACTTCATCAAATATAAAAAATCAATATCAATATAAAGAGTAAAGTTAA
AATTTTTTAATGATTATCAAATTTATAAGCAATTACATCTAATATTTATCAAATTTATGAGTAAT
TATGACTAACTCATCAAATTCATGATTAATATCAAGCTATCTTTTTAGAAATTCATCAACTAT
Found at i:842650 original size:14 final size:14
Alignment explanation
Indices: 842633--842731 Score: 60
Period size: 14 Copynumber: 6.9 Consensus size: 14
842623 CGTATTTAAA
842633 ATATTATATTATTT
1 ATATTATATTATTT
* *
842647 ATATATTTTTTAATTT
1 ATAT-TATATT-ATTT
*
842663 ATATTATATAAATTT
1 ATATTATAT-TATTT
*
842678 -TAATATATTTATTT
1 ATATTATA-TTATTT
842692 AT-TTATATCGTATTT
1 ATATTATAT--TATTT
* *
842707 ATATCA-ATTTTTT
1 ATATTATATTATTT
*
842720 ATATCATATTAT
1 ATATTATATTAT
842732 ATTTTTTATA
Statistics
Matches: 65, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
13 11 0.17
14 22 0.34
15 22 0.34
16 10 0.15
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (14 bp):
ATATTATATTATTT
Found at i:842729 original size:24 final size:24
Alignment explanation
Indices: 842688--842733 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
842678 TAATATATTT
*
842688 ATTTATTTATATCGTATTTATATCA
1 ATTTATTTATATCATA-TTATATCA
842713 ATTT-TTTATATCATATTATAT
1 ATTTATTTATATCATATTATAT
842734 TTTTTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 10 0.50
25 4 0.20
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.59
Consensus pattern (24 bp):
ATTTATTTATATCATATTATATCA
Found at i:842749 original size:21 final size:19
Alignment explanation
Indices: 842713--842763 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 19
842703 ATTTATATCA
*
842713 ATTTTTTATATCATATTAT
1 ATTTTTTATATAATATTAT
842732 ATTTTTTATATAA-A--AT
1 ATTTTTTATATAATATTAT
*
842748 A-TTTTTATATTATATT
1 ATTTTTTATATAATATT
842764 TAAAATTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
15 10 0.37
16 4 0.15
18 1 0.04
19 12 0.44
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTTTATATAATATTAT
Found at i:842984 original size:2 final size:2
Alignment explanation
Indices: 842977--843017 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
842967 AAAATGTCAA
* *
842977 AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AG AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
843018 AAACTGTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (2 bp):
AT
Found at i:843145 original size:13 final size:14
Alignment explanation
Indices: 843129--843167 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
843119 GTTAATTTTT
843129 AAAT-TTGTTATTA
1 AAATATTGTTATTA
*
843142 AAATATT-TTAATA
1 AAATATTGTTATTA
843155 AAATATTGTTATT
1 AAATATTGTTATT
843168 TTGTATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (14 bp):
AAATATTGTTATTA
Found at i:845040 original size:14 final size:14
Alignment explanation
Indices: 845023--845050 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
845013 TAGTCCCATA
845023 ATATATGTATATAT
1 ATATATGTATATAT
845037 ATATATGTATATAT
1 ATATATGTATATAT
845051 TACATTGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATATATGTATATAT
Found at i:845493 original size:28 final size:28
Alignment explanation
Indices: 845435--845493 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
845425 TCAAAATTTA
* * *
845435 TTTTATATATATATATTAATCACTAATG
1 TTTTATAAAAATATATTAATCACTAAAG
*
845463 TTTTATAAAAATATA-TAATACAGTAAAG
1 TTTTATAAAAATATATTAAT-CACTAAAG
845491 TTT
1 TTT
845494 ATTTAGTTGC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (28 bp):
TTTTATAAAAATATATTAATCACTAAAG
Found at i:856609 original size:9 final size:9
Alignment explanation
Indices: 856597--856622 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
856587 TAATTAAAAT
856597 ATATTATAA
1 ATATTATAA
856606 ATATTATAA
1 ATATTATAA
856615 ATATTATA
1 ATATTATA
856623 TCGATAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
ATATTATAA
Found at i:857144 original size:32 final size:33
Alignment explanation
Indices: 857102--857164 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
857092 GTTAAAATAG
857102 AATTATTTTAT-ATTAATTAAATTTTAAATTTTA
1 AATTATTTTATGATTAATT-AATTTTAAATTTTA
*
857135 AATTA-TTTATGATTAATTGATTTTAAATTT
1 AATTATTTTATGATTAATTAATTTTAAATTT
857165 AATGTTTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (33 bp):
AATTATTTTATGATTAATTAATTTTAAATTTTA
Found at i:858062 original size:3 final size:3
Alignment explanation
Indices: 858054--858098 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
858044 GTTGACCTAC
* *
858054 ATT ATT ATT ATT ATT ATT ATT AAT GTT ATT -TT AATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
858099 TATGATATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 32 0.89
4 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:858203 original size:5 final size:5
Alignment explanation
Indices: 858193--858218 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
858183 AAAGGACTTG
858193 AATTT AATTT AATTT AATTT AATTT A
1 AATTT AATTT AATTT AATTT AATTT A
858219 GCCAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:859008 original size:13 final size:13
Alignment explanation
Indices: 858990--859015 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
858980 AATCAACTTG
858990 TTTAATAAAATTA
1 TTTAATAAAATTA
859003 TTTAATAAAATTA
1 TTTAATAAAATTA
859016 ATAAAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTAATAAAATTA
Found at i:859043 original size:47 final size:47
Alignment explanation
Indices: 858992--859112 Score: 140
Period size: 47 Copynumber: 2.6 Consensus size: 47
858982 TCAACTTGTT
* * * * **
858992 TAATAAAATTATTTAATAAAATTAATAAAATTAATTTTATTTTTTA-A
1 TAATAAAATTA-ATAATAAATTTAATAAAATTAAATATATAATTTACA
859039 TAATAAAAATTAATAATATAATTTAA-AAAATTAAATATATAATTTACA
1 TAAT-AAAATTAATAATA-AATTTAATAAAATTAAATATATAATTTACA
859087 TAA-AAAATTAATAATAAATTTAATAA
1 TAATAAAATTAATAATAAATTTAATAA
859113 TTTAATAAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
45 7 0.11
46 15 0.23
47 25 0.39
48 17 0.27
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (47 bp):
TAATAAAATTAATAATAAATTTAATAAAATTAAATATATAATTTACA
Found at i:859064 original size:13 final size:12
Alignment explanation
Indices: 859034--859113 Score: 62
Period size: 12 Copynumber: 6.8 Consensus size: 12
859024 AATTTTATTT
859034 TTTAATAATAAAA
1 TTTAATAAT-AAA
*
859047 ATTAATAATATAA
1 TTTAATAATA-AA
859060 TTT-A-AA-AAA
1 TTTAATAATAAA
*
859069 TTAAAT-ATATAA
1 TTTAATAATA-AA
859081 TTTACATAA-AAA
1 TTTA-ATAATAAA
*
859093 ATTAATAATAAA
1 TTTAATAATAAA
859105 TTTAATAAT
1 TTTAATAAT
859114 TTAATAAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
9 4 0.08
10 3 0.06
11 7 0.13
12 23 0.43
13 15 0.28
14 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (12 bp):
TTTAATAATAAA
Found at i:859067 original size:21 final size:21
Alignment explanation
Indices: 859043--859124 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 21
859033 TTTTAATAAT
859043 AAAAATTAATAATATAATTTA
1 AAAAATTAATAATATAATTTA
859064 AAAAATTAA-ATATATAATTTACATA
1 AAAAATTAATA-ATATAA-TT---TA
859089 AAAAATTAATAATA-AATTTA
1 AAAAATTAATAATATAATTTA
* *
859109 ATAATTTAATAA-ATAA
1 AAAAATTAATAATATAA
859125 ATTATCCTGA
Statistics
Matches: 52, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
19 1 0.02
20 15 0.29
21 15 0.29
22 2 0.04
23 2 0.04
24 2 0.04
25 14 0.27
26 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAATTAATAATATAATTTA
Found at i:859096 original size:25 final size:23
Alignment explanation
Indices: 859039--859112 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 23
859029 TATTTTTTAA
859039 TAAT-AAAAATTAATAATATAA-T
1 TAATAAAAAATTAATAATA-AATT
859061 T--TAAAAAATTAA-ATATATAATT
1 TAATAAAAAATTAATA-ATA-AATT
859083 TACATAAAAAATTAATAATAAATT
1 TA-ATAAAAAATTAATAATAAATT
859107 TAATAA
1 TAATAA
859113 TTTAATAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
20 2 0.04
21 15 0.33
22 3 0.07
23 4 0.09
24 6 0.13
25 14 0.31
26 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (23 bp):
TAATAAAAAATTAATAATAAATT
Found at i:860203 original size:21 final size:22
Alignment explanation
Indices: 860178--860217 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
860168 ATAAAAAATA
860178 ATTTTTTAA-AAT-ATTTTAAT
1 ATTTTTTAATAATAATTTTAAT
860198 ATTTTTTAATAATAATTTTA
1 ATTTTTTAATAATAATTTTA
860218 GATTATAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTTTTAATAATAATTTTAAT
Found at i:861387 original size:3 final size:3
Alignment explanation
Indices: 861379--861410 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
861369 TAAAAAATCT
861379 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
861411 GTTGTTGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:861415 original size:3 final size:3
Alignment explanation
Indices: 861409--861434 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
861399 ATTATTATTA
861409 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
861435 ATTAGTATTG
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:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:865301 original size:35 final size:39
Alignment explanation
Indices: 865253--865337 Score: 97
Period size: 39 Copynumber: 2.3 Consensus size: 39
865243 TTTAAAATTA
* *
865253 ATATATTAAATTTAATCAAT-AA-TA-TAAAA-ATAAAT
1 ATATAATATATTTAATCAATAAATTATTAAAAGATAAAT
* **
865288 ATATAATATATTTATTTGATAAATTATTAAAAGATAAAT
1 ATATAATATATTTAATCAATAAATTATTAAAAGATAAAT
865327 ATATAATATAT
1 ATATAATATAT
865338 AAAAAATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 15 0.37
36 2 0.05
37 2 0.05
38 5 0.12
39 17 0.41
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (39 bp):
ATATAATATATTTAATCAATAAATTATTAAAAGATAAAT
Found at i:866819 original size:15 final size:14
Alignment explanation
Indices: 866790--866842 Score: 54
Period size: 15 Copynumber: 3.7 Consensus size: 14
866780 TAGATTTTTC
*
866790 TTTTATAATTAAAA
1 TTTTAAAATTAAAA
*
866804 TTGTTAAAATTTAAA
1 TT-TTAAAATTAAAA
*
866819 TTTTAATTATTAAAA
1 TTTTAA-AATTAAAA
866834 -TTTAAAATT
1 TTTTAAAATT
866843 TATTATTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 3 0.09
14 11 0.34
15 18 0.56
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
TTTTAAAATTAAAA
Found at i:866820 original size:21 final size:21
Alignment explanation
Indices: 866791--866839 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
866781 AGATTTTTCT
*
866791 TTTATAATTAAAATTGTTAAAA
1 TTTA-AATTAAAATTATTAAAA
**
866813 TTTAAATTTTAATTATTAAAA
1 TTTAAATTAAAATTATTAAAA
866834 TTTAAA
1 TTTAAA
866840 ATTTATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTAAATTAAAATTATTAAAA
Found at i:866844 original size:21 final size:21
Alignment explanation
Indices: 866802--866849 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
866792 TTATAATTAA
* *
866802 AATTGTTAAAATTTAAATTTT
1 AATTATTAAAATTTAAAATTT
866823 AATTATTAAAATTTAAAATTT
1 AATTATTAAAATTTAAAATTT
866844 -ATTATT
1 AATTATT
866850 TTATTAATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
AATTATTAAAATTTAAAATTT
Found at i:869031 original size:19 final size:19
Alignment explanation
Indices: 868989--869031 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
868979 AAACTTTTAA
*
868989 AATTATATTATTTAAATAT
1 AATTTTATTATTTAAATAT
*
869008 TATTTTATTA-TTAAATAGT
1 AATTTTATTATTTAAATA-T
869027 AATTT
1 AATTT
869032 AAATTAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
AATTTTATTATTTAAATAT
Found at i:869253 original size:19 final size:19
Alignment explanation
Indices: 869231--869284 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 19
869221 ATTCAGATCA
869231 ATTTAATTTAAATTATAT-T
1 ATTT-ATTTAAATTATATAT
**
869250 ATTTA-TTAAAAAATATAT
1 ATTTATTTAAATTATATAT
869268 ATTTTATTTAAATTATA
1 A-TTTATTTAAATTATA
869285 AAATAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 9 0.32
18 3 0.11
19 8 0.29
20 8 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTATTTAAATTATATAT
Found at i:869299 original size:42 final size:42
Alignment explanation
Indices: 869253--869338 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
869243 TTATATTATT
* *
869253 TATTAAAAAATATATATTTTATTTAAATTAT-AAAATAATAAA
1 TATTAAAAAATAAATATTTT-TTAAAATTATAAAAATAATAAA
* * *
869295 TATTAATATATAAATATTTTTTAAAATTTTAAAAATAATAAA
1 TATTAAAAAATAAATATTTTTTAAAATTATAAAAATAATAAA
869337 TA
1 TA
869339 AGTTTGTGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
41 8 0.21
42 30 0.79
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (42 bp):
TATTAAAAAATAAATATTTTTTAAAATTATAAAAATAATAAA
Found at i:874395 original size:2 final size:2
Alignment explanation
Indices: 874388--874426 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
874378 TCTAAGCAAT
*
874388 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
874427 GCATATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:874431 original size:10 final size:10
Alignment explanation
Indices: 874389--874432 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
874379 CTAAGCAATT
*
874389 ATATATATAT
1 ATATATATAC
*
874399 ATATATATAT
1 ATATATATAC
874409 ATATATATAC
1 ATATATATAC
*
874419 ATATATATGC
1 ATATATATAC
874429 ATAT
1 ATAT
874433 GAAAAAATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (10 bp):
ATATATATAC
Found at i:874600 original size:3 final size:3
Alignment explanation
Indices: 874592--874639 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
874582 CAATTACGTC
874592 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
874640 ATTTCATTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:882159 original size:50 final size:50
Alignment explanation
Indices: 882020--882163 Score: 145
Period size: 50 Copynumber: 2.9 Consensus size: 50
882010 TTGTTGATTA
* *
882020 TTTTCACCAACTTTTGATAATCGAGAAAG--GTGATCGTAATTGTTGACTAT
1 TTTTCACCAACTTTTGACAAT--AGAAAGATGTGATCGTAATTGTTAACTAT
* * *
882070 TCTTT-ACTAACCTTTGACAATAGAGAGAGATG-G-TTGTAATTGTTAACTAT
1 T-TTTCACCAACTTTTGACAATAGA-A-AGATGTGATCGTAATTGTTAACTAT
* *
882120 TTTTCACCAACTTTTAACAATAGAAAGATGTGACCGTAATTGTT
1 TTTTCACCAACTTTTGACAATAGAAAGATGTGATCGTAATTGTT
882164 GGCTCTCAGC
Statistics
Matches: 76, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
48 8 0.11
49 6 0.08
50 57 0.75
51 4 0.05
52 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.38
Consensus pattern (50 bp):
TTTTCACCAACTTTTGACAATAGAAAGATGTGATCGTAATTGTTAACTAT
Found at i:882339 original size:22 final size:21
Alignment explanation
Indices: 882288--882343 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
882278 TTGAATTACG
882288 TAATTTTATATTTTTTATTATA
1 TAATTTTAT-TTTTTTATTATA
* *
882310 T-ATATTTATTTTTTTATTTTTT
1 TAAT-TTTATTTTTTTA-TTATA
882332 TAATTTTATTTT
1 TAATTTTATTTT
882344 AACTGTGATG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 9 0.31
22 18 0.62
23 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (21 bp):
TAATTTTATTTTTTTATTATA
Found at i:883929 original size:15 final size:16
Alignment explanation
Indices: 883902--883934 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
883892 ATATATATTA
883902 TAAATTATTAATAAAT
1 TAAATTATTAATAAAT
*
883918 TAAATT-TTAATATAT
1 TAAATTATTAATAAAT
883933 TA
1 TA
883935 TTAATACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAATTATTAATAAAT
Found at i:883937 original size:18 final size:19
Alignment explanation
Indices: 883894--883938 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
883884 ATATATATAT
883894 ATATATTA-TAAATTATTA
1 ATATATTATTAAATTATTA
883912 ATA-A--ATTAAATT-TTA
1 ATATATTATTAAATTATTA
883927 ATATATTATTAA
1 ATATATTATTAA
883939 TACTTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
15 7 0.30
16 7 0.30
17 1 0.04
18 8 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATATTATTAAATTATTA
Found at i:886879 original size:8 final size:8
Alignment explanation
Indices: 886868--886900 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
886858 TTTTTAAATT
886868 AAAAGAAA
1 AAAAGAAA
886876 AAAAGAAA
1 AAAAGAAA
886884 AAAAGAAA
1 AAAAGAAA
886892 AAAAGAAA
1 AAAAGAAA
886900 A
1 A
886901 GTCTTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:887481 original size:12 final size:14
Alignment explanation
Indices: 887460--887494 Score: 56
Period size: 12 Copynumber: 2.6 Consensus size: 14
887450 GTAATATTTA
887460 TTAGATTTTAAT-T
1 TTAGATTTTAATAT
887473 TTA-ATTTTAATAT
1 TTAGATTTTAATAT
887486 TTAGATTTT
1 TTAGATTTT
887495 TTAAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 8 0.40
13 7 0.35
14 5 0.25
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (14 bp):
TTAGATTTTAATAT
Found at i:887760 original size:2 final size:2
Alignment explanation
Indices: 887753--887778 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
887743 TTAGAAACAC
887753 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
887779 CTAATTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:887879 original size:20 final size:21
Alignment explanation
Indices: 887850--887892 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
887840 TTAAAATAAA
*
887850 AATAAAAATATTTTTAT-ATT
1 AATAAAAATATTTATATAATT
*
887870 AATAATAATATTTATATAATT
1 AATAAAAATATTTATATAATT
887891 AA
1 AA
887893 ATTTAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATAAAAATATTTATATAATT
Found at i:887905 original size:48 final size:49
Alignment explanation
Indices: 887828--887927 Score: 132
Period size: 49 Copynumber: 2.0 Consensus size: 49
887818 TAATATTTTC
* *
887828 ATATTTTTATAATTAAAATAAAAATAAAAAT-ATTTTTATATTAATAATA
1 ATATTTATATAATTAAAATAAAAATAAAAATAATTTTTAT-TAAATAATA
**
887877 ATATTTATATAATT-AAATTTAAATAAAAATAAATTTTTATTAAATAATA
1 ATATTTATATAATTAAAATAAAAATAAAAAT-AATTTTTATTAAATAATA
887926 AT
1 AT
887928 TTAAATTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
48 14 0.31
49 23 0.51
50 8 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (49 bp):
ATATTTATATAATTAAAATAAAAATAAAAATAATTTTTATTAAATAATA
Found at i:887906 original size:54 final size:56
Alignment explanation
Indices: 887797--887909 Score: 169
Period size: 56 Copynumber: 2.1 Consensus size: 56
887787 TAAATAATTA
**
887797 AAAAATATTTTTATATTAATATAATATTTTCATATTTTTATAATTAAAATAAAAAT
1 AAAAATATTTTTATATTAATATAATATTTTCATATAATTATAATTAAAATAAAAAT
*
887853 AAAAATATTTTTATATTAATAATAATA-TTT-ATATAATTA-AATTTAAATAAAAAT
1 AAAAATATTTTTATATTAAT-ATAATATTTTCATATAATTATAATTAAAATAAAAAT
887907 AAA
1 AAA
887910 TTTTTATTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
54 17 0.32
55 7 0.13
56 23 0.43
57 6 0.11
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (56 bp):
AAAAATATTTTTATATTAATATAATATTTTCATATAATTATAATTAAAATAAAAAT
Found at i:887941 original size:49 final size:47
Alignment explanation
Indices: 887849--887946 Score: 112
Period size: 48 Copynumber: 2.0 Consensus size: 47
887839 ATTAAAATAA
* *
887849 AAATAAAAATATTTTTATATTAATAATAATATTTATATAATTAAATTT
1 AAATAAAAATATTTTTATATAAATAATAATATTAATATAATT-AATTT
887897 AAATAAAAATAAATTTTTAT-TAAATAATAAT-TTAA-ATTAAATTAATTT
1 AAATAAAAAT--ATTTTTATATAAATAATAATATTAATA-T-AATTAATTT
887945 AA
1 AA
887947 TTTACAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
47 1 0.02
48 21 0.48
49 14 0.32
50 8 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (47 bp):
AAATAAAAATATTTTTATATAAATAATAATATTAATATAATTAATTT
Done.