Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold488
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: 2093548
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
File 7 of 14
Found at i:856375 original size:2 final size:2
Alignment explanation
Indices: 856368--856400 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
856358 TAATTGGTTA
856368 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
856401 AATAATCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:857566 original size:2 final size:2
Alignment explanation
Indices: 857559--857589 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
857549 CTATAAGTAA
857559 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
857590 AACTAATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:858445 original size:2 final size:2
Alignment explanation
Indices: 858438--858476 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
858428 ATGCAATAAA
*
858438 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT -T A- 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
858477 AACTTGATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:868394 original size:12 final size:12
Alignment explanation
Indices: 868377--868401 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
868367 TAGTGATCTG
868377 TGAAACAAAAAA
1 TGAAACAAAAAA
868389 TGAAACAAAAAA
1 TGAAACAAAAAA
868401 T
1 T
868402 CAACCAACAA
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:0.72, C:0.08, G:0.08, T:0.12
Consensus pattern (12 bp):
TGAAACAAAAAA
Found at i:870172 original size:3 final size:3
Alignment explanation
Indices: 870164--870192 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
870154 ACTTTTAGTT
870164 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
870193 TGCCTGAAAC
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:871442 original size:23 final size:23
Alignment explanation
Indices: 871410--871456 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
871400 ATAAGATTAT
871410 TATATATTTATTTTTTAAAATAA
1 TATATATTTATTTTTTAAAATAA
* *
871433 TATATTTTTATTTTTTAATATAA
1 TATATATTTATTTTTTAAAATAA
871456 T
1 T
871457 TTAAATAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TATATATTTATTTTTTAAAATAA
Found at i:871821 original size:5 final size:5
Alignment explanation
Indices: 871808--871859 Score: 95
Period size: 5 Copynumber: 10.4 Consensus size: 5
871798 GAAATAACTA
*
871808 TATAA TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
871858 TA
1 TA
871860 ATTTATTTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:872639 original size:37 final size:38
Alignment explanation
Indices: 872598--872673 Score: 145
Period size: 37 Copynumber: 2.0 Consensus size: 38
872588 TATAGTCTTC
872598 AAATTATATGAATGATTTTTTT-TAACATTTAATCATT
1 AAATTATATGAATGATTTTTTTCTAACATTTAATCATT
872635 AAATTATATGAATGATTTTTTTCTAACATTTAATCATT
1 AAATTATATGAATGATTTTTTTCTAACATTTAATCATT
872673 A
1 A
872674 GAAAAGAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 22 0.58
38 16 0.42
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (38 bp):
AAATTATATGAATGATTTTTTTCTAACATTTAATCATT
Found at i:874323 original size:15 final size:15
Alignment explanation
Indices: 874291--874333 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
874281 GCCCATTAAT
* *
874291 TATTAAATTTGATAA
1 TATTAAATATAATAA
*
874306 TATTAAATATAATTA
1 TATTAAATATAATAA
874321 TA-TAAATATAATA
1 TATTAAATATAATA
874334 TAAATAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
TATTAAATATAATAA
Found at i:874337 original size:25 final size:26
Alignment explanation
Indices: 874302--874362 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
874292 ATTAAATTTG
* *
874302 ATAATATTAAATATAATTATATAAAT
1 ATAATATTAAATAAAATAATATAAAT
*
874328 ATAATA-TAAATAAAATAATTTAAAT
1 ATAATATTAAATAAAATAATATAAAT
*
874353 AT-TTATTAAA
1 ATAATATTAAA
874363 ATTTAAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 2 0.07
25 22 0.73
26 6 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
ATAATATTAAATAAAATAATATAAAT
Found at i:874351 original size:14 final size:15
Alignment explanation
Indices: 874309--874378 Score: 63
Period size: 14 Copynumber: 4.6 Consensus size: 15
874299 TTGATAATAT
*
874309 TAAATATAA-TTATA
1 TAAATATAATTTAAA
*
874323 TAAATATAATATAAA
1 TAAATATAATTTAAA
874338 TAAA-ATAATTTAAA
1 TAAATATAATTTAAA
* *
874352 TATTTATTAAAATTTAAA
1 TA---AATATAATTTAAA
874370 TAAATATAA
1 TAAATATAA
874379 AAATTTTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
14 20 0.45
15 12 0.27
17 1 0.02
18 11 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAATATAATTTAAA
Found at i:874381 original size:18 final size:18
Alignment explanation
Indices: 874308--874384 Score: 66
Period size: 18 Copynumber: 4.1 Consensus size: 18
874298 TTTGATAATA
*
874308 TTAAATATAATTATATAAAT
1 TTAAATA-AA-TATAAAAAT
*
874328 ATAATATAAATA-AAATAAT
1 TTAA-ATAAATATAAA-AAT
** *
874347 TTAAATATTTATTAAAAT
1 TTAAATAAATATAAAAAT
874365 TTAAATAAATATAAAAAT
1 TTAAATAAATATAAAAAT
874383 TT
1 TT
874385 TTATATATAA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
18 27 0.60
19 10 0.22
20 5 0.11
21 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAAATAAATATAAAAAT
Found at i:874967 original size:18 final size:17
Alignment explanation
Indices: 874944--874977 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
874934 GTTATAAGTA
874944 TTTTTTATCATTCTTTAT
1 TTTTTTATCATT-TTTAT
*
874962 TTTTTTGTCATTTTTA
1 TTTTTTATCATTTTTA
874978 AAATATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTTATCATTTTTAT
Found at i:875166 original size:16 final size:16
Alignment explanation
Indices: 875148--875178 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
875138 TTCATTATTT
875148 TTTTC-TTTAAAATAA
1 TTTTCATTTAAAATAA
875163 TTTTCATTTAAAATAA
1 TTTTCATTTAAAATAA
875179 CATAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTCATTTAAAATAA
Found at i:875861 original size:12 final size:12
Alignment explanation
Indices: 875830--875871 Score: 59
Period size: 12 Copynumber: 3.4 Consensus size: 12
875820 TGATTGATAC
875830 ATAT-TTTTTAA
1 ATATATTTTTAA
875841 ATTATTATTTTTAA
1 A-TA-TATTTTTAA
875855 ATATATTTTTAA
1 ATATATTTTTAA
875867 ATATA
1 ATATA
875872 AATGTGATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.04
12 16 0.57
13 3 0.11
14 8 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
ATATATTTTTAA
Found at i:875904 original size:21 final size:20
Alignment explanation
Indices: 875850--875905 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
875840 AATTATTATT
875850 TTTAAATAT-ATTT-TTAAA
1 TTTAAATATGATTTATTAAA
* *
875868 TATAAATGTGATTTTATTAAA
1 TTTAAATATGA-TTTATTAAA
875889 TTTAAAGTATGATTTAT
1 TTTAAA-TATGATTTAT
875906 CAATTATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 7 0.23
19 1 0.03
20 3 0.10
21 15 0.50
22 4 0.13
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (20 bp):
TTTAAATATGATTTATTAAA
Found at i:876568 original size:17 final size:17
Alignment explanation
Indices: 876546--876598 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
876536 TATAAGCCGG
876546 TAAATTTTTATTTTAAT
1 TAAATTTTTATTTTAAT
*
876563 TAAA---TTATATT-AT
1 TAAATTTTTATTTTAAT
876576 TAAATTTTTATTATTAA-
1 TAAATTTTTATT-TTAAT
876593 TAAATT
1 TAAATT
876599 AAATTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
16 4 0.14
17 12 0.41
18 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TAAATTTTTATTTTAAT
Found at i:876580 original size:30 final size:30
Alignment explanation
Indices: 876546--876606 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
876536 TATAAGCCGG
*
876546 TAAATTTTTATT-TTAATTAAATTATATTAT
1 TAAATTTTTATTATTAA-TAAATTAAATTAT
876576 TAAATTTTTATTATTAATAAATTAAATTAT
1 TAAATTTTTATTATTAATAAATTAAATTAT
876606 T
1 T
876607 TATGTTCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (30 bp):
TAAATTTTTATTATTAATAAATTAAATTAT
Found at i:876587 original size:14 final size:14
Alignment explanation
Indices: 876546--876592 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
876536 TATAAGCCGG
876546 TAAATTTTTATTTTAAT
1 TAAATTTTTA--TT-AT
*
876563 TAAA-TTATATTAT
1 TAAATTTTTATTAT
876576 TAAATTTTTATTAT
1 TAAATTTTTATTAT
876590 TAA
1 TAA
876593 TAAATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 6 0.22
14 13 0.48
16 4 0.15
17 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TAAATTTTTATTAT
Found at i:877027 original size:29 final size:28
Alignment explanation
Indices: 876971--877027 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
876961 AGGCTTATCG
*
876971 ATTTTAATAATATAATATATTATTTTAT
1 ATTTTAATAATATAATATATTATATTAT
*
876999 ATTTTTAT-ATATAATATAATTAATATTAT
1 ATTTTAATAATATAATAT-ATT-ATATTAT
877028 TTTCTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 9 0.36
28 10 0.40
29 6 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
ATTTTAATAATATAATATATTATATTAT
Found at i:877028 original size:27 final size:28
Alignment explanation
Indices: 876971--877030 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
876961 AGGCTTATCG
* *
876971 ATTTTAATAATATAATATATTATTTTAT
1 ATTTTAATAATATAATATATTAATATAT
*
876999 ATTTTTAT-ATATAATATAATTAATAT-T
1 ATTTTAATAATATAATAT-ATTAATATAT
877026 ATTTT
1 ATTTT
877031 CTTTAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 15 0.54
28 13 0.46
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
ATTTTAATAATATAATATATTAATATAT
Found at i:877509 original size:4 final size:4
Alignment explanation
Indices: 877500--877528 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
877490 TTTTAGTGAT
877500 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
877529 GGTGACCCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:877904 original size:23 final size:23
Alignment explanation
Indices: 877860--877907 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
877850 CATATAAACC
877860 AAATAAAAATATTTATTATTTTA
1 AAATAAAAATATTTATTATTTTA
877883 AAATAACAAA-ATTATATT-TTTTA
1 AAATAA-AAATATT-TATTATTTTA
877906 AA
1 AA
877908 TTATATAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATAAAAATATTTATTATTTTA
Found at i:879548 original size:2 final size:2
Alignment explanation
Indices: 879541--879592 Score: 54
Period size: 2 Copynumber: 26.0 Consensus size: 2
879531 TTTTGTATGA
*
879541 AT AT AT AT AT AT AT AT AT AT A- AGT AT AT AT AT TT AT AGT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT
*
879583 AT AT AA AT AT
1 AT AT AT AT AT
879593 TAGCATGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
1 2 0.05
2 37 0.88
3 3 0.07
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:879567 original size:16 final size:15
Alignment explanation
Indices: 879541--879587 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 15
879531 TTTTGTATGA
879541 ATATATATA-TATAT
1 ATATATATAGTATAT
879555 ATATATA-AGTATAT
1 ATATATATAGTATAT
*
879569 ATATTTATAGTATA-
1 ATATATATAGTATAT
879583 ATATA
1 ATATA
879588 AATATTAGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 1 0.03
14 22 0.76
15 6 0.21
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (15 bp):
ATATATATAGTATAT
Found at i:881266 original size:11 final size:10
Alignment explanation
Indices: 881246--881278 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
881236 TCTCTTGTAG
881246 ATCTAAAAAA
1 ATCTAAAAAA
881256 ATCTAAAAAA
1 ATCTAAAAAA
*
881266 AT-TGAAAAA
1 ATCTAAAAAA
881275 ATCT
1 ATCT
881279 GACTTCGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.64, C:0.09, G:0.03, T:0.24
Consensus pattern (10 bp):
ATCTAAAAAA
Found at i:887681 original size:21 final size:21
Alignment explanation
Indices: 887655--887703 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
887645 ATGAAAAGAA
887655 AAAAAAATGCAA-AAGC-AAAAT
1 AAAAAAA-GCAACAA-CAAAAAT
*
887676 AAAAAAAGGAACAACAAAAAT
1 AAAAAAAGCAACAACAAAAAT
887697 AAAAAAA
1 AAAAAAA
887704 CGAGGACATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.78, C:0.08, G:0.08, T:0.06
Consensus pattern (21 bp):
AAAAAAAGCAACAACAAAAAT
Found at i:889021 original size:30 final size:28
Alignment explanation
Indices: 888987--889348 Score: 123
Period size: 27 Copynumber: 13.1 Consensus size: 28
888977 CCGTGACCTC
*
888987 TTCAAAATCCACAATTCAGTGGCATTTCTT
1 TTCAAAATCCACAATTC-GTGGCA-TCCTT
889017 TTCAAAATCCACAACTTCGTGGCATCCTT
1 TTCAAAATCCACAA-TTCGTGGCATCCTT
* *
889046 TT-AAAGTCCACAATTCTGTGGCACCCTT
1 TTCAAAATCCACAATTC-GTGGCATCCTT
* * *
889074 TT-AAATTCCACCACTCCGTGGCA-CCTT
1 TTCAAAATCCA-CAATTCGTGGCATCCTT
* * * * *
889101 TT-TAAGTTCACAACTCTGTGGTATCCTT
1 TTCAAAATCCACAATTC-GTGGCATCCTT
* * * * *
889129 TT--AAGTCCATAACTCCATGGCACCCTT
1 TTCAAAATCCACAA-TTCGTGGCATCCTT
* *
889156 TT--AAGTCCACAACTCCGTGGCATCCTT
1 TTCAAAATCCACAA-TTCGTGGCATCCTT
* * * *
889183 TT--AAGTCTACAACTCCGTGGCATCCGT
1 TTCAAAATCCACAA-TTCGTGGCATCCTT
* * * * *
889210 TTC-AAGTCCATAACTCTGTGGCGTTCTT
1 TTCAAAATCCACAATTC-GTGGCATCCTT
* * *
889238 TT-AAAGTCCATAACTCTGTGGCA-CCTT
1 TTCAAAATCCACAATTC-GTGGCATCCTT
* *
889265 TT-TAAGTCCACAACTTCGTGGCA-CTCTT
1 TTCAAAATCCACAA-TTCGTGGCATC-CTT
* *
889293 TT--AAGTCCACAATTCCGTGACATCCTT
1 TTCAAAATCCACAATT-CGTGGCATCCTT
* * *
889320 TT--AAGTTCACAACTTGGTGGCATCCTT
1 TTCAAAATCCACAA-TTCGTGGCATCCTT
889347 TT
1 TT
889349 TAAGGCCATA
Statistics
Matches: 277, Mismatches: 41, Indels: 31
0.79 0.12 0.09
Matches are distributed among these distances:
26 5 0.02
27 150 0.54
28 89 0.32
29 10 0.04
30 20 0.07
31 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (28 bp):
TTCAAAATCCACAATTCGTGGCATCCTT
Found at i:889116 original size:27 final size:28
Alignment explanation
Indices: 889024--889407 Score: 327
Period size: 27 Copynumber: 14.0 Consensus size: 28
889014 CTTTTCAAAA
* *
889024 TCCACAACTTCGTGGCATCCTTTTAAAG
1 TCCACAACTCCGTGGCATCCTTTTTAAG
* * * * *
889052 TCCACAATTCTGTGGCACCCTTTTAAAT
1 TCCACAACTCCGTGGCATCCTTTTTAAG
*
889080 TCCACCACTCCGTGGCA-CCTTTTTAAG
1 TCCACAACTCCGTGGCATCCTTTTTAAG
* * *
889107 TTCACAACTCTGTGGTATCC-TTTTAAG
1 TCCACAACTCCGTGGCATCCTTTTTAAG
* * *
889134 TCCATAACTCCATGGCA-CCCTTTTAAG
1 TCCACAACTCCGTGGCATCCTTTTTAAG
889161 TCCACAACTCCGTGGCATCC-TTTTAAG
1 TCCACAACTCCGTGGCATCCTTTTTAAG
* * *
889188 TCTACAACTCCGTGGCATCCGTTTCAAG
1 TCCACAACTCCGTGGCATCCTTTTTAAG
* * * * *
889216 TCCATAACTCTGTGGCGTTCTTTTAAAG
1 TCCACAACTCCGTGGCATCCTTTTTAAG
* *
889244 TCCATAACTCTGTGGCA-CCTTTTTAAG
1 TCCACAACTCCGTGGCATCCTTTTTAAG
*
889271 TCCACAACTTCGTGGCA--CTCTTTTAAG
1 TCCACAACTCCGTGGCATCCT-TTTTAAG
* *
889298 TCCACAATTCCGTGACATCC-TTTTAAG
1 TCCACAACTCCGTGGCATCCTTTTTAAG
* **
889325 TTCACAACTTGGTGGCATCCTTTTTAAG
1 TCCACAACTCCGTGGCATCCTTTTTAAG
* * * * ***
889353 GCCATAAGTCAGTGGCA-CCTTCCCAAAG
1 TCCACAACTCCGTGGCATCCTT-TTTAAG
* * *
889381 TTCACAACTTCGTGGCATTCTTTTTAA
1 TCCACAACTCCGTGGCATCCTTTTTAA
889408 ACCTACAAGT
Statistics
Matches: 283, Mismatches: 63, Indels: 20
0.77 0.17 0.05
Matches are distributed among these distances:
26 4 0.01
27 157 0.55
28 118 0.42
29 4 0.01
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (28 bp):
TCCACAACTCCGTGGCATCCTTTTTAAG
Found at i:889270 original size:137 final size:136
Alignment explanation
Indices: 889024--889404 Score: 390
Period size: 137 Copynumber: 2.8 Consensus size: 136
889014 CTTTTCAAAA
* * * * * * **
889024 TCCACAACTTCGTGGCATCCTTTTAAAGTCCACAATTCTGTGGCACCCTTTTAAATTCCACCACT
1 TCCACAACTCCGTGGCATCCTTTT-AAGTCTACAACTCCGTGGCATCCTTTTAAAGTCCATAACT
* * * * *
889089 CCGTGGCACCTTTTTAAGTTCACAACTCTGTGGTATCCTTTTAAGTCCATAACTCCATGGCACCC
65 CAGTGGCACCTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCATGGCACCC
889154 TTTTAAG
130 TTTTAAG
* *
889161 TCCACAACTCCGTGGCATCCTTTTAAGTCTACAACTCCGTGGCATCCGTTTCAAGTCCATAACTC
1 TCCACAACTCCGTGGCATCCTTTTAAGTCTACAACTCCGTGGCATCCTTTTAAAGTCCATAACTC
* ** * * * *
889226 TGTGGCGTTCTTTTAAAGTCCATAACTCTGTGGCA-CCTTTTTAAGTCCACAACTTCGTGGCACT
66 AGTGGC-ACCTTTTAAAGTCCACAACTCTGTGGCATCC-TTTTAAGTCCACAACTCCATGGCACC
889290 CTTTTAAG
129 CTTTTAAG
* * ** * * *
889298 TCCACAATTCCGTGACATCCTTTTAAGT-TCACAACTTGGTGGCATCCTTTTTAAGGCCATAAGT
1 TCCACAACTCCGTGGCATCCTTTTAAGTCT-ACAACTCCGTGGCATCCTTTTAAAGTCCATAACT
** * *
889362 CAGTGGCACCTTCCCAAAGTTCACAACT-TCGTGGCATTCTTTT
65 CAGTGGCACCTT-TTAAAGTCCACAACTCT-GTGGCATCCTTTT
889405 TAAACCTACA
Statistics
Matches: 201, Mismatches: 37, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
136 44 0.22
137 156 0.78
138 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.34
Consensus pattern (136 bp):
TCCACAACTCCGTGGCATCCTTTTAAGTCTACAACTCCGTGGCATCCTTTTAAAGTCCATAACTC
AGTGGCACCTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCATGGCACCCT
TTTAAG
Found at i:889322 original size:164 final size:164
Alignment explanation
Indices: 889027--889348 Score: 414
Period size: 164 Copynumber: 2.0 Consensus size: 164
889017 TTCAAAATCC
* * * * *
889027 ACAACTTCGTGGCATCCTTTTAAAGTCCACAATTCTGTGGCACCCTTTTAAATTCCACCACTCCG
1 ACAACTCCGTGGCATCCGTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCG
* * * *
889092 TGGCACCTTTTTAAGTTCACAACTCTGTGGTATCCTTTTAAGTCCATAACTCCATGGCACCCTTT
66 TGGCACCTTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCATGACACCCTTT
889157 TAAGTCCACAACTCCGTGGCATCCTTTTAAGTCT
131 TAAGTCCACAACTCCGTGGCATCCTTTTAAGTCT
* * *** * *
889191 ACAACTCCGTGGCATCCGTTTCAAGTCCATAACTCTGTGGCGTTCTTTTAAAGTCCATAACTCTG
1 ACAACTCCGTGGCATCCGTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCG
* * *
889256 TGGCACCTTTTTAAGTCCACAACT-TCGTGGCA-CTCTTTTAAGTCCACAATTCCGTGACATCCT
66 TGGCACCTTTTTAAGTCCACAACTCT-GTGGCATC-CTTTTAAGTCCACAACTCCATGACACCCT
* **
889319 TTTAAGTTCACAACTTGGTGGCATCCTTTT
129 TTTAAGTCCACAACTCCGTGGCATCCTTTT
889349 TAAGGCCATA
Statistics
Matches: 134, Mismatches: 22, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
163 2 0.01
164 132 0.99
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.34
Consensus pattern (164 bp):
ACAACTCCGTGGCATCCGTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCG
TGGCACCTTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCATGACACCCTTT
TAAGTCCACAACTCCGTGGCATCCTTTTAAGTCT
Found at i:889649 original size:57 final size:57
Alignment explanation
Indices: 889400--890090 Score: 326
Period size: 58 Copynumber: 11.8 Consensus size: 57
889390 TCGTGGCATT
* * * * * * *
889400 CTTTTTAAACCTACAAGTTAGTGGCACCC-TTCCAAAGCCCACAAGTCAGTCGCATC
1 CTTTTTAAGCCCACAAGTCAGTGGTACCCATTTCAAAGCCCACAAGTCAGTGGCACC
* * ** * * * *
889456 ATCTCAAAGCCCATACAAGTCGGTGGTAACTCATTTGAAAGCCACACAAGTCGGTGGCAACC
1 CTTTTTAAGCCC--ACAAGTCAGTGGT-ACCCATTTCAAAGCC-CACAAGTCAGTGGC-ACC
** * *
889518 CATTTCAAAGCCCACACAAGTC-GATGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATC
1 C-TTTTTAAG-CC-CACAAGTCAG-TGG-TACCCATTTCAAAGCCCACAAGTCAGTGGCACC
* * *
889579 CTTTTTAAGCCCACAAGTCAGTGGTACCCCTTT-AAAGCCCATAAGTTAGTGGCACCC
1 CTTTTTAAGCCCACAAGTCAGTGGTACCCATTTCAAAGCCCACAAGTCAGTGGCA-CC
* * *
889636 CTTTTTAAGCCCACAAGTCAGTGGCA-TCATTTCAAAGCCCACACAAGTCGGTGGCAACTC
1 CTTTTTAAGCCCACAAGTCAGTGGTACCCATTTCAAAG-CC-CACAAGTCAGTGGC-AC-C
* ** ** ** * *
889696 ATTTGAAAGCTCACACAAGTTGGTGAAAACCTATTTCAAAGCCTACACAAGTCGGTGGCAACC
1 CTTTTTAAGC-C-CACAAGTCAGTG-GTACCCATTTCAAAGCC--CACAAGTCAGTGGC-ACC
** * * *
889759 CATTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATC
1 C-TTTTTAAGCCCACAAGTCAGTGGTACCCATTTCAAAGCCCACAAGTCAGTGGCACC
** * * * * * *
889816 CTTCTCAAAACCCACAAGTTAGTGGCATCC-TTCTCAAAGCCCACACAAATCAGTGGCA-T
1 CTT-TTTAAGCCCACAAGTCAGTGGTACCCATT-TCAAAG-CC-CACAAGTCAGTGGCACC
** * * * * *
889875 CTTTCAAAGCCCATAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATC
1 CTTTTTAAGCCCACAAGTCAGTGGTACCCATTTCAAAGCCCACAAGTCAGTGGCACC
* ** * * * * *
889931 ATTCTCAAAGCCCACAAGTTAAT-GT-CATCTTTCTCAAAGCCCACAAGTCAGTGGCATC
1 CTT-TTTAAGCCCACAAGTCAGTGGTAC-CCATT-TCAAAGCCCACAAGTCAGTGGCACC
* * * *** * *
889989 CTTTTCAAAGCCCACACAAATTAGTGGTA-TTTTTTCAAAGCCCACAAGTCAGTGACATC
1 CTTTT-TAAG-CC-CACAAGTCAGTGGTACCCATTTCAAAGCCCACAAGTCAGTGGCACC
** * * * *
890048 CTTTCAAAGTCCACAAGTTAGTGGCATCC-TTTCAAAGCCCACA
1 CTTTTTAAGCCCACAAGTCAGTGGTACCCATTTCAAAGCCCACA
890091 CAAGTCGGTG
Statistics
Matches: 516, Mismatches: 80, Indels: 78
0.77 0.12 0.12
Matches are distributed among these distances:
55 14 0.03
56 64 0.12
57 93 0.18
58 103 0.20
59 53 0.10
60 60 0.12
61 20 0.04
62 36 0.07
63 35 0.07
64 37 0.07
65 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.23
Consensus pattern (57 bp):
CTTTTTAAGCCCACAAGTCAGTGGTACCCATTTCAAAGCCCACAAGTCAGTGGCACC
Found at i:889780 original size:209 final size:208
Alignment explanation
Indices: 889406--890102 Score: 749
Period size: 209 Copynumber: 3.4 Consensus size: 208
889396 CATTCTTTTT
* * * * *
889406 AAACCTACAAGTTAGTGGCACCCTTCCAAAGCCCACAAGTCAGTCGCATCATCTCAAAGCCCATA
1 AAACCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACA
* **
889471 CAAGTCGGTGGTAACTCATTTGAAAGCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACA
66 CAAGTCGGTGGCAACTCATTTGAAAGCCACACAAGTCGGTGAAAACCCATTTCAAAGCCCACACA
**
889536 AGTCGATGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTTTAAGCCCACAAGTCAGT
131 AGTCGATGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGT
*
889601 GGTACCCCTT-T-A
196 GGCA-CCCTTCTCA
* * **
889613 AAGCCCATAAGTTAGTGGCACCCCTTTTTAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCAC
1 AAACCCACAAGTTAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCAC
* * *
889678 ACAAGTCGGTGGCAACTCATTTGAAAGCTCACACAAGTTGGTGAAAACCTATTTCAAAGCCTACA
65 ACAAGTCGGTGGCAACTCATTTGAAAGC-CACACAAGTCGGTGAAAACCCATTTCAAAGCCCACA
*
889743 CAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
129 CAAGTCGATGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
*
889808 GTGGCATCCTTCTCA
194 GTGGCACCCTTCTCA
* *
889823 AAACCCACAAGTTAGTGGCATCCTTCTCAAAGCCCACACAAATCAGTGGCATC-TTTCAAAG-CC
1 AAACCCACAAGTTAGTGGCACCCTT-TCAAAG-CC-CACAAGTCAGTGGCATCATTTCAAAGCCC
* ** * * * ** *
889886 -CATAAGTTAGTGGC-A-TCCTTTCAAAGCC-CACAAGTCAGTG-GCA-TCATTCTCAAAG-CC-
63 ACACAAGTCGGTGGCAACTCATTTGAAAGCCACACAAGTCGGTGAAAACCCATT-TCAAAGCCCA
** * * *
889943 CACAAGTTAATGTC-A-TCTTTCTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAC
127 CACAAGTCGATGGCAACCCATT-TCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAG-CC-CAC
* * * ** *
890006 AAATTAGTGGTA-TTTTTTCA
188 AAGTCAGTGGCACCCTTCTCA
* * * * * * *
890026 AAGCCCACAAGTCAGTGACATCCTTTCAAAGTCCACAAGTTAGTGGCATCCTTTCAAAGCCCACA
1 AAACCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACA
890091 CAAGTCGGTGGC
66 CAAGTCGGTGGC
890103 TTCAAAGCCC
Statistics
Matches: 416, Mismatches: 59, Indels: 34
0.82 0.12 0.07
Matches are distributed among these distances:
200 18 0.04
201 36 0.09
202 26 0.06
203 44 0.11
204 19 0.05
205 10 0.02
206 1 0.00
207 27 0.06
208 70 0.17
209 114 0.27
210 25 0.06
211 10 0.02
212 16 0.04
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (208 bp):
AAACCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACA
CAAGTCGGTGGCAACTCATTTGAAAGCCACACAAGTCGGTGAAAACCCATTTCAAAGCCCACACA
AGTCGATGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGT
GGCACCCTTCTCA
Found at i:889948 original size:29 final size:28
Alignment explanation
Indices: 889336--890090 Score: 568
Period size: 28 Copynumber: 25.8 Consensus size: 28
889326 TCACAACTTG
** * *
889336 GTGGCATCCTTTTTAAGGCCATAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* ** *
889364 GTGGCA-CCTTCCCAAAGTTCACAACTTC-
1 GTGGCATCCTT-TCAAAGCCCACAA-GTCA
* * * *
889392 GTGGCATTCTTTTTAAA-CCTACAAGTTA
1 GTGGCA-TCCTTTCAAAGCCCACAAGTCA
* *
889420 GTGGCACCCTTCCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * *
889448 GTCGCATCATCTCAAAGCCCATACAAGTCG
1 GTGGCATCCTTTCAAAGCCC--ACAAGTCA
* * * *
889478 GTGGTAACTCATTTGAAAGCCACACAAGTCG
1 GTGG-CA-TCCTTTCAAAGCC-CACAAGTCA
*
889509 GTGGCAACCCATTTCAAAGCCCACACAAGTC-
1 GTGGC-ATCC-TTTCAAAG-CC-CACAAGTCA
*
889540 GATGGCAACCCATTTCAAAGCCCACAAGTCA
1 G-TGGC-ATCC-TTTCAAAGCCCACAAGTCA
**
889571 GTGGCATCCTTTTTAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * *
889599 GTGGTACCCCTTT-AAAGCCCATAAGTTA
1 GTGGCA-TCCTTTCAAAGCCCACAAGTCA
* **
889627 GTGGCACCCCTTTTTAAGCCCACAAGTCA
1 GTGGCA-TCCTTTCAAAGCCCACAAGTCA
* *
889656 GTGGCATCATTTCAAAGCCCACACAAGTCG
1 GTGGCATCCTTTCAAAG-CC-CACAAGTCA
* * **
889686 GTGGCAACTCATTTGAAAGCTCACACAAGTTG
1 GTGGC-A-TCCTTTCAAAGC-C-CACAAGTCA
** * *
889718 GTGAAAACCTATTTCAAAGCCTACACAAGTCG
1 GTGGCATCC--TTTCAAAGCC--CACAAGTCA
*
889750 GTGGCAACCCATTTCAAAGCCCACAAGTCA
1 GTGGC-ATCC-TTTCAAAGCCCACAAGTCA
889780 GTGGCATCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
889808 GTGGCATCCTTCTCAAAACCCACAAGTTA
1 GTGGCATCCTT-TCAAAGCCCACAAGTCA
*
889837 GTGGCATCCTTCTCAAAGCCCACACAAATCA
1 GTGGCATCCTT-TCAAAG-CC-CACAAGTCA
* *
889868 GTGGCAT-CTTTCAAAGCCCATAAGTTA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
889895 GTGGCATCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
889923 GTGGCATCATTCTCAAAGCCCACAAGTTA
1 GTGGCATCCTT-TCAAAGCCCACAAGTCA
* * *
889952 ATGTCATCTTTCTCAAAGCCCACAAGTCA
1 GTGGCATCCTT-TCAAAGCCCACAAGTCA
* *
889981 GTGGCATCCTTTTCAAAGCCCACACAAATTA
1 GTGGCATCC-TTTCAAAG-CC-CACAAGTCA
* **
890012 GTGGTATTTTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * *
890040 GTGACATCCTTTCAAAGTCCACAAGTTA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
890068 GTGGCATCCTTTCAAAGCCCACA
1 GTGGCATCCTTTCAAAGCCCACA
890091 CAAGTCGGTG
Statistics
Matches: 593, Mismatches: 99, Indels: 70
0.78 0.13 0.09
Matches are distributed among these distances:
27 24 0.04
28 216 0.36
29 129 0.22
30 70 0.12
31 56 0.09
32 94 0.16
33 4 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (28 bp):
GTGGCATCCTTTCAAAGCCCACAAGTCA
Found at i:889950 original size:115 final size:116
Alignment explanation
Indices: 889412--890129 Score: 617
Period size: 115 Copynumber: 6.1 Consensus size: 116
889402 TTTTAAACCT
* * * * *
889412 ACAAGTTAGTGGCACCCTTCCAAAGCCCACAAGTCAGTCGCATCATCTCAAAGCCCATACAAGTC
1 ACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCC--ACAAGTT
* * * * *
889477 GGTGGTAACTCATTTGAAAGCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
64 AGTGG-CA-TCCTTTCAAAGCCACACAAGTCAGTGGC-ACCCATTTCAAAGCCCAC
* * * **
889533 ACAAG-TCGATGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTTTAAGCCCACAAGT
1 ACAAGTTAG-TGGC-ATCC-TTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGT
* * * * * * **
889597 CAGTGGTACCCCTTT-AAAGCC-CATAAGTTAGTGGCACCCCTTTTTAAG-CC-C
63 TAGTGGCA-TCCTTTCAAAGCCACACAAGTCAGTGGCACCCATTTCAAAGCCCAC
* * * *
889648 ACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAAGCTCACACA
1 ACAAGTTAGTGGCATCCTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCATTTCAAAGC-C-CACA
* ** * *
889713 AGTTGGTGAAAACCTATTTCAAAGCCTACACAAGTCGGTGGCAACCCATTTCAAAG-CC-C
60 AGTTAGTGGCATCC--TTTCAAAGCC-ACACAAGTCAGTGGC-ACCCATTTCAAAGCCCAC
* * *
889772 ACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAACCCACAAGTTA
1 ACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCATT-TCAAAGCCCACAAGTTA
* *
889837 GTGGCATCCTTCTCAAAGCCCACACAAATCAGTGGCA-TC-TTTCAAAG-CC-C
65 GTGGCATCCTT-TCAAAG-CCACACAAGTCAGTGGCACCCATTTCAAAGCCCAC
*
889887 ATAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCATTCTCAAAGCCCACAAGTTA
1 ACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCATT-TCAAAGCCCACAAGTTA
* * * * *
889952 ATGTCATCTTTCTCAAAGCC-CACAAGTCAGTGGCATCCTTTTCAAAGCCCAC
65 GTGGCATCCTT-TCAAAGCCACACAAGTCAGTGGCACCCATTTCAAAGCCCAC
* * ** * * *
890004 ACAAATTAGTGGTATTTTTTCAAAGCCCACAAGTCAGTGACATCCTTTCAAAGTCCACAAGTTAG
1 ACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTTAG
*
890069 TGGCATCCTTTCAAAGCCCACACAAGTCGGTGG----C--TTCAAAGCCCAC
66 TGGCATCCTTTCAAAG-CCACACAAGTCAGTGGCACCCATTTCAAAGCCCAC
*
890115 ATAAGTTAGTGGCAT
1 ACAAGTTAGTGGCAT
890130 ATTTTTTTAA
Statistics
Matches: 500, Mismatches: 72, Indels: 60
0.79 0.11 0.09
Matches are distributed among these distances:
111 24 0.05
113 23 0.05
114 7 0.01
115 124 0.25
116 33 0.07
117 75 0.15
118 33 0.07
119 33 0.07
120 16 0.03
121 32 0.06
122 17 0.03
123 46 0.09
124 37 0.07
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (116 bp):
ACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTTAG
TGGCATCCTTTCAAAGCCACACAAGTCAGTGGCACCCATTTCAAAGCCCAC
Found at i:890126 original size:25 final size:25
Alignment explanation
Indices: 890078--890127 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
890068 GTGGCATCCT
*
890078 TTCAAAGCCCACACAAGTCGGTGGC
1 TTCAAAGCCCACACAAGTCAGTGGC
* *
890103 TTCAAAGCCCACATAAGTTAGTGGC
1 TTCAAAGCCCACACAAGTCAGTGGC
890128 ATATTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (25 bp):
TTCAAAGCCCACACAAGTCAGTGGC
Found at i:890299 original size:48 final size:48
Alignment explanation
Indices: 890238--890369 Score: 228
Period size: 48 Copynumber: 2.8 Consensus size: 48
890228 GGCACCTTTA
890238 TTAGCTCAATGTCGCTGGCCTTGAATTAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATTAGCACATTGTCCACTTTTCCC
* *
890286 TTAGCTCAATGTCGCTTGCCTTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATTAGCACATTGTCCACTTTTCCC
* *
890334 TTAGCTCGATGTCGCTGGCCTTGAATTGGCACATTG
1 TTAGCTCAATGTCGCTGGCCTTGAATTAGCACATTG
890370 GCACCCCTCT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.35
Consensus pattern (48 bp):
TTAGCTCAATGTCGCTGGCCTTGAATTAGCACATTGTCCACTTTTCCC
Found at i:890815 original size:13 final size:13
Alignment explanation
Indices: 890797--890822 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
890787 TACACCAAGT
890797 ATGTATCGATACA
1 ATGTATCGATACA
890810 ATGTATCGATACA
1 ATGTATCGATACA
890823 CCAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:890841 original size:34 final size:32
Alignment explanation
Indices: 890779--890843 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
890769 TAGCCAAACT
**
890779 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
890811 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
890844 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:897034 original size:13 final size:13
Alignment explanation
Indices: 897012--897049 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
897002 CATTTTTCTT
*
897012 TGTATTGATACAA
1 TGTATCGATACAA
*
897025 TGTATCGATACAC
1 TGTATCGATACAA
897038 TGTATCGATACA
1 TGTATCGATACA
897050 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:903126 original size:13 final size:13
Alignment explanation
Indices: 903108--903133 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
903098 TACACCAAGT
903108 ATGTATCGATACA
1 ATGTATCGATACA
903121 ATGTATCGATACA
1 ATGTATCGATACA
903134 CCAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:903152 original size:34 final size:32
Alignment explanation
Indices: 903090--903154 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
903080 TAGCCAAACT
**
903090 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
903122 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
903155 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:904904 original size:20 final size:19
Alignment explanation
Indices: 904879--904932 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
904869 TTGGTTAGGT
*
904879 AAGAAAGAAAAAAAATGAAG
1 AAGAAAGAAAAAAAA-GAAA
*
904899 AAGAAAGGAAGAAAAAGAAA
1 AAGAAA-GAAAAAAAAGAAA
*
904919 AAAAAAGAAAAAAA
1 AAGAAAGAAAAAAA
904933 CATATGAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 7 0.24
20 14 0.48
21 8 0.28
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.02
Consensus pattern (19 bp):
AAGAAAGAAAAAAAAGAAA
Found at i:904923 original size:10 final size:10
Alignment explanation
Indices: 904882--904932 Score: 57
Period size: 10 Copynumber: 5.1 Consensus size: 10
904872 GTTAGGTAAG
904882 AAAGAAAAAA
1 AAAGAAAAAA
* * *
904892 AATGAAGAAG
1 AAAGAAAAAA
* *
904902 AAAGGAAGAA
1 AAAGAAAAAA
904912 AAAGAAAAAA
1 AAAGAAAAAA
904922 AAAGAAAAAA
1 AAAGAAAAAA
904932 A
1 A
904933 CATATGAAAT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:905326 original size:2 final size:2
Alignment explanation
Indices: 905321--905353 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
905311 TATAGGTGTG
905321 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
905354 TGAAAATCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:912162 original size:14 final size:14
Alignment explanation
Indices: 912143--912170 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
912133 TTTTTCAGTT
912143 TTAAATATATTTTA
1 TTAAATATATTTTA
912157 TTAAATATATTTTA
1 TTAAATATATTTTA
912171 AATATTAATT
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:0.00, T:0.57
Consensus pattern (14 bp):
TTAAATATATTTTA
Found at i:912912 original size:25 final size:26
Alignment explanation
Indices: 912863--912914 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
912853 TAGTAAATCC
**
912863 AAAATATTGGATGTTTAAATTTTAAAA
1 AAAATATTGGATGTTT-AAGGTTAAAA
912890 AAAATATTGGATGTTT-AGGTTAAAA
1 AAAATATTGGATGTTTAAGGTTAAAA
912915 TATATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
27 16 0.70
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (26 bp):
AAAATATTGGATGTTTAAGGTTAAAA
Found at i:916805 original size:23 final size:26
Alignment explanation
Indices: 916747--916800 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
916737 AAATTAATAA
916747 AAATT-AA-AAAATATTTTTATAATT
1 AAATTAAATAAAATATTTTTATAATT
*
916771 AAATTTAAATAAAAT-TTTTTATTATT
1 AAA-TTAAATAAAATATTTTTATAATT
916797 AAAT
1 AAAT
916801 AATAATTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 3 0.12
25 3 0.12
26 15 0.58
27 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
AAATTAAATAAAATATTTTTATAATT
Found at i:917165 original size:13 final size:13
Alignment explanation
Indices: 917147--917194 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
917137 AACATGGGGT
917147 GAAAGAAAAGAGA
1 GAAAGAAAAGAGA
917160 GAAAG-AAAGCAGA
1 GAAAGAAAAG-AGA
917173 GAAAGAGAAA-A-A
1 GAAAGA-AAAGAGA
917185 -AAAGAAAAGA
1 GAAAGAAAAGA
917195 AAGAGAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
10 3 0.10
11 6 0.19
12 5 0.16
13 14 0.45
15 3 0.10
ACGTcount: A:0.71, C:0.02, G:0.27, T:0.00
Consensus pattern (13 bp):
GAAAGAAAAGAGA
Found at i:917195 original size:20 final size:20
Alignment explanation
Indices: 917148--917203 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
917138 ACATGGGGTG
* *
917148 AAAGAAAAGAGAGAAAGAAAGC
1 AAAG-AAAGAGA-AAAAAAAGA
*
917170 AGAGAAAGAGAAAAAAAAGA
1 AAAGAAAGAGAAAAAAAAGA
917190 AAAGAAAGAGAAAA
1 AAAGAAAGAGAAAA
917204 GGAAAAAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 20 0.67
21 7 0.23
22 3 0.10
ACGTcount: A:0.73, C:0.02, G:0.25, T:0.00
Consensus pattern (20 bp):
AAAGAAAGAGAAAAAAAAGA
Found at i:917199 original size:26 final size:25
Alignment explanation
Indices: 917161--917235 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 25
917151 GAAAAGAGAG
*
917161 AAAG-AAAGCAGAGAAAGAGAAAAA
1 AAAGAAAAGAAGAGAAAGAGAAAAA
917185 AAAGAAAAGAAAGAGAAA-AGGAAAAA
1 AAAGAAAAG-AAGAGAAAGA-GAAAAA
* * *
917211 GAATAAAAGAAG-GAGAGAGAAAAA
1 AAAGAAAAGAAGAGAAAGAGAAAAA
917235 A
1 A
917236 GAATAAATTG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
24 13 0.31
25 9 0.21
26 20 0.48
ACGTcount: A:0.72, C:0.01, G:0.25, T:0.01
Consensus pattern (25 bp):
AAAGAAAAGAAGAGAAAGAGAAAAA
Found at i:917201 original size:11 final size:11
Alignment explanation
Indices: 917172--917204 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
917162 AAGAAAGCAG
917172 AGAAAGAGAAA
1 AGAAAGAGAAA
917183 A-AAA-AGAAA
1 AGAAAGAGAAA
917192 AGAAAGAGAAA
1 AGAAAGAGAAA
917203 AG
1 AG
917205 GAAAAAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 6 0.30
10 6 0.30
11 8 0.40
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AGAAAGAGAAA
Found at i:917223 original size:18 final size:17
Alignment explanation
Indices: 917159--917238 Score: 51
Period size: 18 Copynumber: 4.6 Consensus size: 17
917149 AAGAAAAGAG
* *
917159 AGAAAGAAAGCAGAGAAAG
1 AGAAA-AAAGAAG-GAAAA
917178 AGAAAAAA-AA-G-AAA
1 AGAAAAAAGAAGGAAAA
917192 AGAAAGAGAA-AAGGAAAA
1 AGAAA-A-AAGAAGGAAAA
* *
917210 AGAATAAAAGAAGGAGAG
1 AGAA-AAAAGAAGGAAAA
917228 AGAAAAAAGAA
1 AGAAAAAAGAA
917239 TAAATTGTGC
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
14 7 0.14
15 2 0.04
16 4 0.08
17 11 0.22
18 21 0.41
19 6 0.12
ACGTcount: A:0.71, C:0.01, G:0.26, T:0.01
Consensus pattern (17 bp):
AGAAAAAAGAAGGAAAA
Found at i:917234 original size:25 final size:26
Alignment explanation
Indices: 917170--917242 Score: 87
Period size: 25 Copynumber: 2.8 Consensus size: 26
917160 GAAAGAAAGC
*
917170 AGAGAAAGAGAAAAAA-AAGAAAAGAA
1 AGAG-AAGAGAAAAAAGAATAAAAGAA
* *
917196 AGAGAAAAGGAAAAAGAATAAAAGAA
1 AGAGAAGAGAAAAAAGAATAAAAGAA
*
917222 GGAG-AGAGAAAAAAGAATAAA
1 AGAGAAGAGAAAAAAGAATAAA
917243 TTGTGCGTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
25 24 0.60
26 16 0.40
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.03
Consensus pattern (26 bp):
AGAGAAGAGAAAAAAGAATAAAAGAA
Found at i:917779 original size:31 final size:33
Alignment explanation
Indices: 917737--917806 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
917727 TATTATAAAT
*
917737 TTATATCTATTTT-AGATG-TCA-ATAATTAATA
1 TTATATATATTTTGAGATGTTCATAT-ATTAATA
* *
917768 TTATATATATTTTGATATGTTCATATATTTATA
1 TTATATATATTTTGAGATGTTCATATATTAATA
917801 TTATAT
1 TTATAT
917807 TCATATCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 12 0.36
32 4 0.12
33 15 0.45
34 2 0.06
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (33 bp):
TTATATATATTTTGAGATGTTCATATATTAATA
Found at i:921861 original size:2 final size:2
Alignment explanation
Indices: 921854--921881 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
921844 CTAAGCTACA
921854 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
921882 TCAATTTCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:923076 original size:16 final size:16
Alignment explanation
Indices: 923047--923098 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
923037 AATTTTTGTG
**
923047 TTTTGAGTTGTTTTGA
1 TTTTGAGTCATTTTGA
* *
923063 TTTTGGGTCATTTTAA
1 TTTTGAGTCATTTTGA
*
923079 GTTTGAGTCATTTTAGA
1 TTTTGAGTCATTTT-GA
923096 TTT
1 TTT
923099 AAATTATTCT
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 24 0.89
17 3 0.11
ACGTcount: A:0.17, C:0.04, G:0.21, T:0.58
Consensus pattern (16 bp):
TTTTGAGTCATTTTGA
Found at i:924521 original size:9 final size:9
Alignment explanation
Indices: 924507--924536 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
924497 ATGCCAATTC
924507 AATCAAGAA
1 AATCAAGAA
924516 AATCAAGAA
1 AATCAAGAA
924525 AATCAAGAA
1 AATCAAGAA
924534 AAT
1 AAT
924537 AAAAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.67, C:0.10, G:0.10, T:0.13
Consensus pattern (9 bp):
AATCAAGAA
Found at i:925699 original size:13 final size:13
Alignment explanation
Indices: 925681--925706 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
925671 CAATTTTTTG
925681 TGTATCGATACAT
1 TGTATCGATACAT
925694 TGTATCGATACAT
1 TGTATCGATACAT
925707 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:926435 original size:21 final size:21
Alignment explanation
Indices: 926394--926437 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
926384 CTCCCCTTTA
* *
926394 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
926415 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
926436 TC
1 TC
926438 ATATAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:928260 original size:13 final size:13
Alignment explanation
Indices: 928242--928267 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
928232 ATAATCACCC
928242 TGTATCGATACAA
1 TGTATCGATACAA
928255 TGTATCGATACAA
1 TGTATCGATACAA
928268 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:930330 original size:15 final size:15
Alignment explanation
Indices: 930310--930340 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
930300 ATTTCGTTTG
*
930310 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
930325 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
930340 G
1 G
930341 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:932173 original size:21 final size:21
Alignment explanation
Indices: 932144--932188 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
932134 AAGTTTTCAT
*
932144 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
932164 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
932186 TTT
1 TTT
932189 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:935155 original size:26 final size:26
Alignment explanation
Indices: 935123--935192 Score: 140
Period size: 26 Copynumber: 2.7 Consensus size: 26
935113 ATTTCAATAT
935123 AATCCCTTGCTTCTTCAACCCCTATA
1 AATCCCTTGCTTCTTCAACCCCTATA
935149 AATCCCTTGCTTCTTCAACCCCTATA
1 AATCCCTTGCTTCTTCAACCCCTATA
935175 AATCCCTTGCTTCTTCAA
1 AATCCCTTGCTTCTTCAA
935193 ATTCGAGTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.23, C:0.37, G:0.04, T:0.36
Consensus pattern (26 bp):
AATCCCTTGCTTCTTCAACCCCTATA
Found at i:935326 original size:196 final size:195
Alignment explanation
Indices: 934993--935345 Score: 679
Period size: 196 Copynumber: 1.8 Consensus size: 195
934983 TTAGAGTCAT
934993 TTCAAATTCGAGTTAGTTAGTTTTGAGTTATTAACTTTTTTTGATCACATCGAATTAAATCAAAT
1 TTCAAATTCGAGTTAGTTAGTTTTGAGTTATTAACTTTTTTTGATCACATCGAATTAAATCAAAT
*
935058 TTAGATGAATTGATCGAACTTTTCGAGTTCGATTAGAATTGATAGATTTACTTGCATTTCAATAT
66 TTAGATGAATTGATCGAACTTTTCGAGTTCGATTAGAATTGACAGATTTACTTGCATTTCAATAT
935123 AATCCCTTGCTTCTTCAACCCCTATAAATCCCTTGCTTCTTCAACCCCTATAAATCCCTTGCTTC
131 AATCCCTTGCTTCTTCAACCCCTATAAATCCCTTGCTTCTTCAACCCCTATAAATCCCTTGCTTC
935188 TTCAAATTCGAGTTAGTTAGTTTTGAGTTATTAACTTTTTTTTGATCACATCGAATTAAATCAAA
1 TTCAAATTCGAGTTAGTTAGTTTTGAGTTATTAAC-TTTTTTTGATCACATCGAATTAAATCAAA
*
935253 TTTAGATGAATTGATCGAACTTTTCGAGTTCGATTAGAATTGACAGATTTACTTGCATTTTAATA
65 TTTAGATGAATTGATCGAACTTTTCGAGTTCGATTAGAATTGACAGATTTACTTGCATTTCAATA
935318 TAATCCCTTGCTTCTTCAACCCCTATAA
130 TAATCCCTTGCTTCTTCAACCCCTATAA
935346 TACTGACTAT
Statistics
Matches: 155, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
195 35 0.23
196 120 0.77
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (195 bp):
TTCAAATTCGAGTTAGTTAGTTTTGAGTTATTAACTTTTTTTGATCACATCGAATTAAATCAAAT
TTAGATGAATTGATCGAACTTTTCGAGTTCGATTAGAATTGACAGATTTACTTGCATTTCAATAT
AATCCCTTGCTTCTTCAACCCCTATAAATCCCTTGCTTCTTCAACCCCTATAAATCCCTTGCTTC
Found at i:936720 original size:17 final size:17
Alignment explanation
Indices: 936698--936736 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
936688 CAAAAAATTT
*
936698 ATCAAACTCTTGATATC
1 ATCAAACTCTTAATATC
*
936715 ATCAAACTTTTAATATC
1 ATCAAACTCTTAATATC
936732 ATCAA
1 ATCAA
936737 TATAACCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.36
Consensus pattern (17 bp):
ATCAAACTCTTAATATC
Found at i:938405 original size:2 final size:2
Alignment explanation
Indices: 938398--938499 Score: 105
Period size: 2 Copynumber: 49.0 Consensus size: 2
938388 TTAAGAAATA
* *
938398 AT AT AT AT AT AT AT AT AT AT AGT AT AT AT AT AC ACT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT
* * * * *
938442 AT AT AT AGT GT AT AT AT AT AC AC AGT GT AT AT AT AT AT CT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
938486 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
938500 GCATATGTTT
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
2 80 0.95
3 4 0.05
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (2 bp):
AT
Found at i:938447 original size:32 final size:33
Alignment explanation
Indices: 938400--938494 Score: 124
Period size: 32 Copynumber: 2.9 Consensus size: 33
938390 AAGAAATAAT
938400 ATATATATATATATATATAGTATATATATACAC
1 ATATATATATATATATATAGTATATATATACAC
*
938433 -TATACATATATATATAGT-GTATATATATACAC
1 ATATATATATATATATA-TAGTATATATATACAC
* *
938465 AGTGTATATATATATCTATA-TATATATATA
1 A-TATATATATATATATATAGTATATATATA
938495 TATATGCATA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
32 29 0.54
33 12 0.22
34 13 0.24
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.43
Consensus pattern (33 bp):
ATATATATATATATATATAGTATATATATACAC
Found at i:941883 original size:114 final size:114
Alignment explanation
Indices: 941675--941899 Score: 274
Period size: 114 Copynumber: 2.0 Consensus size: 114
941665 GATACTTCCT
* * * *
941675 GAACTTATATCGATACACAAGCTTGTGTATGGATACATTTTGCCAAAAACCCTAATCATAGCTAC
1 GAACTTATATCGATACACAAGCTGGTGTATGGATACATTCTGCCAAAAACACTAATCATAGCCAC
** *
941740 TACCAAGGCCTATATTGATACAATCATGATAGGTATCGATACATCTCAA
66 TACCAAGGCCTATATCAATACAATCATGATAGGTATCAATACATCTCAA
* ** **
941789 GAACTTGTATCGATACACAAGCTGGTGTATGGATACATTCTGTTGAAAGTCAC-AA-CTATAGCC
1 GAACTTATATCGATACACAAGCTGGTGTATGGATACATTCTG-CCAAAAACACTAATC-ATAGCC
* * * *
941852 ACTACCAAGGTCTGTATCAATATAATTATGATAGGTATCAATACATCT
64 ACTACCAAGGCCTATATCAATACAATCATGATAGGTATCAATACATCT
941900 TATAAAAATT
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
113 1 0.01
114 87 0.94
115 5 0.05
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.30
Consensus pattern (114 bp):
GAACTTATATCGATACACAAGCTGGTGTATGGATACATTCTGCCAAAAACACTAATCATAGCCAC
TACCAAGGCCTATATCAATACAATCATGATAGGTATCAATACATCTCAA
Found at i:946119 original size:32 final size:33
Alignment explanation
Indices: 946066--946132 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 33
946056 CAATGATTTG
946066 TATCGATACATAAAGTGTTGTATCGATACAATA
1 TATCGATACATAAAGTGTTGTATCGATACAATA
*
946099 TATCGATACA-AAAGTTTTGTATCGATACAATA
1 TATCGATACATAAAGTGTTGTATCGATACAATA
946131 TA
1 TA
946133 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 23 0.70
33 10 0.30
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.34
Consensus pattern (33 bp):
TATCGATACATAAAGTGTTGTATCGATACAATA
Found at i:946259 original size:52 final size:52
Alignment explanation
Indices: 946203--946331 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
946193 CACTGATCTT
946203 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
946255 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
946307 TGTATCGATACATACAGGAAAATTT
1 TGTATCGATACATGCAGGCAAATTT
946332 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:952743 original size:23 final size:22
Alignment explanation
Indices: 952709--952752 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
952699 ATTGATTGAT
952709 TATCTTTATGGTT-TATTTAAAG
1 TATCTTTATGGTTCT-TTTAAAG
*
952731 TATCATTTCTGGTTCTTTTAAA
1 TATC-TTTATGGTTCTTTTAAA
952753 ACTTCTCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 14 0.74
24 1 0.05
ACGTcount: A:0.25, C:0.09, G:0.11, T:0.55
Consensus pattern (22 bp):
TATCTTTATGGTTCTTTTAAAG
Found at i:955232 original size:19 final size:20
Alignment explanation
Indices: 955187--955238 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
955177 TTACAAGCCA
*
955187 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATATTGGG
*
955207 ATGTATCGATACATATTGTG
1 ATGTATCGATACATATTGGG
955227 -TGTATCGATACA
1 ATGTATCGATACA
955239 AACATTAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATATTGGG
Found at i:956678 original size:20 final size:19
Alignment explanation
Indices: 956633--956687 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
956623 TGTACCGATA
*
956633 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGAT
956652 CATTGTATCGATACATGGCAT
1 CATTGTATCGATACAT-G-AT
956673 -ATTGTATCGATACAT
1 CATTGTATCGATACAT
956688 TGCTTCAAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 16 0.48
20 16 0.48
21 1 0.03
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:958156 original size:79 final size:79
Alignment explanation
Indices: 958025--958205 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 79
958015 TTTTGGAGAT
* ** * * *
958025 AATAACGGGGTTGGAGTATCCTCGGTTGTGAAAAATCGATGATTAGGAAATAAAATCGAGATTGG
1 AATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTAGGAAATAAAACCGAGATTGG
958090 AGTATCCCCTCGGA
66 AGTATCCCCTCGGA
* * * * * *
958104 AATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTTGGGAATAAAGCCGGGGTTG
1 AATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGA-TTAGGAAATAAAACCGAGATTG
958168 GAGTATCCCCTCGGA
65 GAGTATCCCCTCGGA
**
958183 GGTAACGGGGTTGGAGTATCCCC
1 AATAACGGGGTTGGAGTATCCCC
958206 GATGAAATAA
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 1 0.01
79 86 0.99
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (79 bp):
AATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTAGGAAATAAAACCGAGATTGG
AGTATCCCCTCGGA
Found at i:958216 original size:28 final size:28
Alignment explanation
Indices: 958160--958236 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
958150 GGAATAAAGC
*** **
958160 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
958188 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
958216 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
958237 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:958284 original size:52 final size:51
Alignment explanation
Indices: 958219--958615 Score: 292
Period size: 52 Copynumber: 7.6 Consensus size: 51
958209 GAAATAACGA
* * *
958219 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGAAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTG-TTTTGAAAATAAAATCGG
* * * *
958271 AGTTGGAGTATCCTCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGAAAATAAAATCGG
* * * *
958323 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAATCGG
* *** * * **
958374 GGTTGGAGTATCCCCGATTATGAGAAATCAATATTTT-AGGAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGA-AAATAAAATCGG
**** * *** * * ***** * *
958425 GGTTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGA
1 GGTTGGAGTATCCCCGATTATG-AA--AAATTGGTGTTTTGAAAAT-AAA-ATCGG
* * * *
958481 GGTTGGAATATCCTCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGA-AAATAAAATCGG
* * * *
958533 AGTCGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGAAAATAAAATCGG
*
958585 GGTTGGAGTATCCCCGATTATGAACAATTGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGG
958616 GAAACTTAAC
Statistics
Matches: 260, Mismatches: 75, Indels: 21
0.73 0.21 0.06
Matches are distributed among these distances:
50 1 0.00
51 94 0.36
52 100 0.38
53 37 0.14
54 7 0.03
55 5 0.02
56 16 0.06
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAATCGG
Found at i:958375 original size:51 final size:51
Alignment explanation
Indices: 958219--958439 Score: 235
Period size: 51 Copynumber: 4.3 Consensus size: 51
958209 GAAATAACGA
* * * * * *
958219 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGAAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTG-TTTTAAAAATAAAACCGG
* * * * * * *
958271 AGTTGGAGTATCCTCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTAGTGTTTTAAAAATAAAACCGG
*
958323 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAAAAATAAAACCGG
* * * * ** *
958374 GGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAAAAATAAAACCGG
958425 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
958440 TCGGAGGTAA
Statistics
Matches: 147, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
51 84 0.57
52 52 0.35
53 11 0.07
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAAAAATAAAACCGG
Found at i:958478 original size:28 final size:28
Alignment explanation
Indices: 958422--958498 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
958412 GGAATAAAGC
*** **
958422 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
958450 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* * *
958478 CGAGGTTGGAATATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
958499 TGTGAAAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:958574 original size:262 final size:262
Alignment explanation
Indices: 958109--958613 Score: 922
Period size: 262 Copynumber: 1.9 Consensus size: 262
958099 TCGGAAATAA
*
958109 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTAT
*
958174 CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
66 CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAATATCCTCGATTG
* *
958239 TGAAAAATTGGTGTTTTTGAAAATAAAATCAGAGTTGGAGTATCCTCGATTAAAGGAAAATTGGT
131 TGAAAAATTGGTGTTTTTGAAAATAAAATCAGAGTCGGAGTATCCCCGATTAAAGGAAAATTGGT
*
958304 GTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAAAAATAAA
196 GTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAAAAATAAA
958369 AC
261 AC
*
958371 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTAT
958436 CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAATATCCTCGATTG
66 CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAATATCCTCGATTG
*
958501 TGAAAAATTGGTGTTTTT-AGAAATAAAATCGGAGTCGGAGTATCCCCGATTAAAGGAAAATTGG
131 TGAAAAATTGGTGTTTTTGA-AAATAAAATCAGAGTCGGAGTATCCCCGATTAAAGGAAAATTGG
*
958565 TGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATGAACAATT
195 TGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATGAAAAATT
958614 GGGAAACTTA
Statistics
Matches: 234, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
261 1 0.00
262 233 1.00
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (262 bp):
CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTAT
CCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAATATCCTCGATTG
TGAAAAATTGGTGTTTTTGAAAATAAAATCAGAGTCGGAGTATCCCCGATTAAAGGAAAATTGGT
GTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAAAAATAAA
AC
Found at i:960373 original size:11 final size:10
Alignment explanation
Indices: 960341--960370 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
960331 GTGAGGAATA
960341 TGGA-GTTTT
1 TGGAGGTTTT
960350 TGGAGGTTTT
1 TGGAGGTTTT
960360 TGGAGGTTTT
1 TGGAGGTTTT
960370 T
1 T
960371 TGGTGGTGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.10, C:0.00, G:0.37, T:0.53
Consensus pattern (10 bp):
TGGAGGTTTT
Found at i:961007 original size:13 final size:13
Alignment explanation
Indices: 960989--961014 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
960979 ACAAAGATCG
960989 ATGTATCGATACA
1 ATGTATCGATACA
961002 ATGTATCGATACA
1 ATGTATCGATACA
961015 TTTCCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:961025 original size:21 final size:21
Alignment explanation
Indices: 961001--961042 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
960991 GTATCGATAC
961001 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
961022 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
961043 GGCAGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:961091 original size:19 final size:20
Alignment explanation
Indices: 961067--961115 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
961057 AGCGATACAT
961067 TGTATCGATACCAA-ACTTA
1 TGTATCGATACCAACACTTA
961086 TGTATCGATA-CAACACTTA
1 TGTATCGATACCAACACTTA
961105 TGTATCGATAC
1 TGTATCGATAC
961116 ATTTACGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.11
19 25 0.89
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (20 bp):
TGTATCGATACCAACACTTA
Found at i:961247 original size:17 final size:16
Alignment explanation
Indices: 961225--961265 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
961215 CAAAAATGTA
*
961225 TTTTTTTTAATTTAAT
1 TTTTTTTTTATTTAAT
961241 TTTTTTTATTATTTAAT
1 TTTTTTT-TTATTTAAT
961258 TTTTTTTT
1 TTTTTTTT
961266 CGTTTTGCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTTTTATTTAAT
Found at i:967804 original size:33 final size:33
Alignment explanation
Indices: 967767--967833 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
967757 CGAGAGTTGA
* ** *
967767 TCACTTCACTTTTGCAGCACATGAGTGAGCACT
1 TCACTTCACTCTCACAGCACATGAATGAGCACT
*
967800 TCACTTCACTCTCACAGCGCATGAATGAGCACT
1 TCACTTCACTCTCACAGCACATGAATGAGCACT
967833 T
1 T
967834 TAGTGTACTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.28
Consensus pattern (33 bp):
TCACTTCACTCTCACAGCACATGAATGAGCACT
Found at i:968826 original size:33 final size:33
Alignment explanation
Indices: 968789--968851 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
968779 CCACTGTTTA
* *
968789 TATCGATACATGGCACATTATATCGATACAATG
1 TATCGATACATGACAAATTATATCGATACAATG
* *
968822 TATCGATACATGATAAATTGTATCGATACA
1 TATCGATACATGACAAATTATATCGATACA
968852 TTGCTTCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (33 bp):
TATCGATACATGACAAATTATATCGATACAATG
Found at i:972825 original size:31 final size:33
Alignment explanation
Indices: 972756--972827 Score: 80
Period size: 31 Copynumber: 2.3 Consensus size: 33
972746 TTTTTGGTAA
* *
972756 TAAAAAATATTGATATTAATATAAAAATATAAT
1 TAAAAAATATTCATATTAATACAAAAATATAAT
*
972789 T-AAAAATA-TCATATT-ATACAAAAACT-TATT
1 TAAAAAATATTCATATTAATACAAAAA-TATAAT
972819 TAAAAAATA
1 TAAAAAATA
972828 ATAATTTGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
30 12 0.35
31 14 0.41
32 7 0.21
33 1 0.03
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (33 bp):
TAAAAAATATTCATATTAATACAAAAATATAAT
Found at i:973187 original size:14 final size:15
Alignment explanation
Indices: 973160--973214 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
973150 AACTATAATT
*
973160 TAAAA-ATTAAAAAA
1 TAAAATATTAAAATA
973174 TATAAATATTAAAAT-
1 TA-AAATATTAAAATA
* *
973189 TCAAATATTAAACTTA
1 TAAAATATTAAA-ATA
973205 TAAAATATTA
1 TAAAATATTA
973215 CTTTTTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 12 0.36
15 5 0.15
16 16 0.48
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAAATATTAAAATA
Found at i:977631 original size:24 final size:25
Alignment explanation
Indices: 977599--977646 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 25
977589 CTTTGATATC
977599 TGATAAAACTGAACCAGA-AAAAAT
1 TGATAAAACTGAACCAGAGAAAAAT
977623 TGATAAAACTGAACCAGAGAAAAA
1 TGATAAAACTGAACCAGAGAAAAA
977647 ATGTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.58, C:0.12, G:0.15, T:0.15
Consensus pattern (25 bp):
TGATAAAACTGAACCAGAGAAAAAT
Found at i:981712 original size:190 final size:190
Alignment explanation
Indices: 981389--981737 Score: 545
Period size: 190 Copynumber: 1.8 Consensus size: 190
981379 ATAGCCCCAA
* * * * *
981389 TCTAGTATGCCTTGGTTTCTTGCAGTAGGTACATCAAAGGTTTTCTCTGTTATTCTTTTTTGCAG
1 TCTAGTATGCCTCGGCTTCTTGCAGTAGGTACACCAAAGGTTTTCTCTGTCATCCTTTTTTGCAG
* * * * *
981454 ATCTTAAAAATCTAAGCAGATCTATTTTTTTGCCATTCTATATTGAAGCTGGTATCTTTTTTGTC
66 ATCTTAAAAATCTAAGCAGATCTATTATTTTGCCATTCTATATTGAAGCTAGTACCCTCTTTGTC
981519 ACCATAGCTGATCCGTCTTGATTCGCCAATATAACCCTTTTATGACTTTCAACACTTCTC
131 ACCATAGCTGATCCGTCTTGATTCGCCAATATAACCCTTTTATGACTTTCAACACTTCTC
981579 TCTAGTATGCCTCGGCTTCTTGCAGTAGGTACACCAAAGGTTTTCTCTGTCATCCTTTTTTGCAG
1 TCTAGTATGCCTCGGCTTCTTGCAGTAGGTACACCAAAGGTTTTCTCTGTCATCCTTTTTTGCAG
* ** * * *
981644 ATCTTGAAAATCTGGGCAGATTTATTATTTTGCCATTCTGTATTGAAGTTAGTACCCTCTTTGTC
66 ATCTTAAAAATCTAAGCAGATCTATTATTTTGCCATTCTATATTGAAGCTAGTACCCTCTTTGTC
*
981709 ACCATAGCTGATCCGTCTTGATTCTCCAA
131 ACCATAGCTGATCCGTCTTGATTCGCCAA
981738 CTTAACACCT
Statistics
Matches: 142, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
190 142 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (190 bp):
TCTAGTATGCCTCGGCTTCTTGCAGTAGGTACACCAAAGGTTTTCTCTGTCATCCTTTTTTGCAG
ATCTTAAAAATCTAAGCAGATCTATTATTTTGCCATTCTATATTGAAGCTAGTACCCTCTTTGTC
ACCATAGCTGATCCGTCTTGATTCGCCAATATAACCCTTTTATGACTTTCAACACTTCTC
Found at i:985130 original size:15 final size:15
Alignment explanation
Indices: 985110--985140 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
985100 CTTAGCTTCT
985110 ATGTTTTAAAAACTA
1 ATGTTTTAAAAACTA
985125 ATGTTTTAAAAACTA
1 ATGTTTTAAAAACTA
985140 A
1 A
985141 CACTTACTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (15 bp):
ATGTTTTAAAAACTA
Found at i:996501 original size:15 final size:15
Alignment explanation
Indices: 996459--996501 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
996449 AAGTTAAAAT
*
996459 TTAATATATAAAAAA
1 TTAATATATAATAAA
* *
996474 TTTATATAAAATAAA
1 TTAATATATAATAAA
*
996489 TTAAGATATAATA
1 TTAATATATAATA
996502 TAAACACAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (15 bp):
TTAATATATAATAAA
Found at i:997206 original size:20 final size:20
Alignment explanation
Indices: 997181--997234 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
997171 AAAACCCTTA
997181 AAAGTATCGATACACAATTC
1 AAAGTATCGATACACAATTC
997201 AAAGTATCGATACACAATTC
1 AAAGTATCGATACACAATTC
997221 AAAGTATCGATACA
1 AAAGTATCGATACA
997235 TGTTGCAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (20 bp):
AAAGTATCGATACACAATTC
Found at i:997333 original size:13 final size:13
Alignment explanation
Indices: 997315--997340 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
997305 TACACCAAGT
997315 ATGTATCGATACA
1 ATGTATCGATACA
997328 ATGTATCGATACA
1 ATGTATCGATACA
997341 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:997338 original size:32 final size:33
Alignment explanation
Indices: 997297--997360 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
997287 TAGCCAAACT
* **
997297 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
997329 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
997361 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:998355 original size:16 final size:18
Alignment explanation
Indices: 998311--998356 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 18
998301 CGATATGAAC
998311 ATAACATAAATAAAAAATA
1 ATAACAT-AATAAAAAATA
998330 ATTAAACATAAT-AAAAA-A
1 A-T-AACATAATAAAAAATA
998348 ATAACATAA
1 ATAACATAA
998357 ATATGATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 7 0.28
17 1 0.04
18 2 0.08
19 6 0.24
20 4 0.16
21 5 0.20
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.22
Consensus pattern (18 bp):
ATAACATAATAAAAAATA
Found at i:998831 original size:32 final size:35
Alignment explanation
Indices: 998756--998833 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 35
998746 ATACACGTAC
*
998756 ATAT-AAAAA-ATACATAAAATAAAATGAATTATTA
1 ATATAAAAAATATACAAAAAATAAAAT-AATTATTA
*
998790 ATATAAAAAATATACAAAAAATATAAT-ATT-TT-
1 ATATAAAAAATATACAAAAAATAAAATAATTATTA
998822 ATATAAAAAATA
1 ATATAAAAAATA
998834 ACACAAATAC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
32 12 0.30
33 2 0.05
34 7 0.17
35 5 0.12
36 14 0.35
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (35 bp):
ATATAAAAAATATACAAAAAATAAAATAATTATTA
Found at i:998891 original size:21 final size:19
Alignment explanation
Indices: 998855--998894 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
998845 AATACATAAA
998855 TTTTTTCCCATTTTTCTTT
1 TTTTTTCCCATTTTTCTTT
*
998874 TTTTTTCTCCTTTCTTTCTTT
1 TTTTTTC-CCATT-TTTCTTT
998895 CATTTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 4 0.22
21 7 0.39
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTTCCCATTTTTCTTT
Found at i:999986 original size:8 final size:8
Alignment explanation
Indices: 999973--1000014 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
999963 TTATTATTGT
999973 TTTTTTTC
1 TTTTTTTC
999981 TTTTTTCTC
1 TTTTTT-TC
999990 TTTTTTTC
1 TTTTTTTC
999998 --TTTTTC
1 TTTTTTTC
*
1000004 TTTTTCTC
1 TTTTTTTC
1000012 TTT
1 TTT
1000015 CTTTACTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
6 6 0.20
8 16 0.53
9 8 0.27
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTTC
Found at i:1000001 original size:22 final size:21
Alignment explanation
Indices: 999972--1000014 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
999962 TTTATTATTG
999972 TTTTTTTTCTTTTTTCTCTTTT
1 TTTTTTTTC-TTTTTCTCTTTT
999994 TTTCTTTTTCTTTTTCTCTTT
1 TTT-TTTTTCTTTTTCTCTTT
1000015 CTTTACTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTTTTTCTTTTTCTCTTTT
Found at i:1003776 original size:9 final size:10
Alignment explanation
Indices: 1003758--1003783 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1003748 AAAAGTTTTT
1003758 ATGAAAAAAA
1 ATGAAAAAAA
1003768 ATGAAAAAAA
1 ATGAAAAAAA
1003778 ATGAAA
1 ATGAAA
1003784 CTAAAATAAA
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:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (10 bp):
ATGAAAAAAA
Found at i:1004359 original size:19 final size:19
Alignment explanation
Indices: 1004335--1004379 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
1004325 TTATGATATA
1004335 GCAAATATATAAATACGAT
1 GCAAATATATAAATACGAT
*
1004354 GCAAATATATAAATATGAT
1 GCAAATATATAAATACGAT
*
1004373 ACAAATA
1 GCAAATA
1004380 CATGAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.27
Consensus pattern (19 bp):
GCAAATATATAAATACGAT
Found at i:1007374 original size:14 final size:14
Alignment explanation
Indices: 1007357--1007386 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1007347 TAATATTGAC
1007357 ATATAAATAAATAT
1 ATATAAATAAATAT
*
1007371 ATATATATAAATAT
1 ATATAAATAAATAT
1007385 AT
1 AT
1007387 TATGAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATAAATAAATAT
Found at i:1021377 original size:12 final size:11
Alignment explanation
Indices: 1021357--1021386 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
1021347 TTGAGGTGTC
1021357 TTTTTTATTTA
1 TTTTTTATTTA
1021368 TTTATTTATTTA
1 TTT-TTTATTTA
1021380 TTTTTTA
1 TTTTTTA
1021387 AATTTGTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTATTTA
Found at i:1026979 original size:35 final size:35
Alignment explanation
Indices: 1026883--1026965 Score: 121
Period size: 35 Copynumber: 2.3 Consensus size: 35
1026873 GATTTTTCAC
* *
1026883 TATCAAATAGATGCTTTGACTTTTATTTTCACAAAA
1 TATCAAATA-TTGCTTTAACTTTTATTTTCACAAAA
*
1026919 TATCAAATATTGCTTTAACTTTTATTTTCATAAAA
1 TATCAAATATTGCTTTAACTTTTATTTTCACAAAA
*
1026954 TATTAAATATTG
1 TATCAAATATTG
1026966 AGTATTACTT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
35 34 0.79
36 9 0.21
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (35 bp):
TATCAAATATTGCTTTAACTTTTATTTTCACAAAA
Found at i:1027599 original size:31 final size:30
Alignment explanation
Indices: 1027557--1027615 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 30
1027547 TTCTCTACCC
1027557 AAAAAAAAGAGTTAGAAATTTAAGACTACG
1 AAAAAAAAGAGTTAGAAATTTAAGACTACG
1027587 AAAAAGAAAGAGTTAGAAATTTAAGACTA
1 AAAAA-AAAGAGTTAGAAATTTAAGACTA
1027616 AGCATGGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.58, C:0.05, G:0.17, T:0.20
Consensus pattern (30 bp):
AAAAAAAAGAGTTAGAAATTTAAGACTACG
Found at i:1028364 original size:17 final size:18
Alignment explanation
Indices: 1028333--1028376 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
1028323 ATTTCTTTCT
*
1028333 TTATTAAA-AATATTTAC
1 TTATTAAATAATATTTAA
1028350 TTATTAAATAA-ATTTAA
1 TTATTAAATAATATTTAA
*
1028367 TTACTAAATA
1 TTATTAAATA
1028377 TTCTACAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 22 0.92
18 2 0.08
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
TTATTAAATAATATTTAA
Found at i:1029002 original size:47 final size:47
Alignment explanation
Indices: 1028942--1029031 Score: 135
Period size: 47 Copynumber: 1.9 Consensus size: 47
1028932 AATTTCCCTC
*
1028942 ACAAATAACTTATAACTTTTGCAAGAATAAAGTTACAAACTATACTT
1 ACAAATAACTTATAACTTTGGCAAGAATAAAGTTACAAACTATACTT
* * * *
1028989 ACAATTAATTTATAACTTTGGCATGGATAAAGTTACAAACTAT
1 ACAAATAACTTATAACTTTGGCAAGAATAAAGTTACAAACTAT
1029032 CCAGCACATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.33
Consensus pattern (47 bp):
ACAAATAACTTATAACTTTGGCAAGAATAAAGTTACAAACTATACTT
Found at i:1030782 original size:156 final size:155
Alignment explanation
Indices: 1030338--1031155 Score: 738
Period size: 155 Copynumber: 5.3 Consensus size: 155
1030328 TTTAAGAAAG
* * * * *
1030338 ATTACGAAAATACCCTTA-GGGGATACTTTCAACGTAAAAGTA-CCCGATACCCCTAAAGGACTT
1 ATTACGAAAATGCCCTTATGGGTATACCTTCGACGTAAAAGTATCCCGATAACCCTAAAGGACTT
* * * * *
1030401 TAAAA-GAATTACAAAT-GGGATGAACCTATCCTAAATGCCCACCTTT-GGCATAAAAG-TGAAC
66 AAAAATG-A-TAGAAATAGGG-TGAACCTATCCTAAATACCCA-CTTTCGGCATGAAAGCAG-AC
** * *
1030462 CCGGTGATGACTTAGGAGTTGGTTTTAAAAA
126 CCGGTGACAACCTAGGAGTTGGTTCT-AAAA
* * * * * *
1030493 ATTACGAAAAGGCCTTTATGGGTAAACTTTCGACGTAAAAGTA-CCCGATACCCCTAAAGGACCT
1 ATTACGAAAATGCCCTTATGGGTATACCTTCGACGTAAAAGTATCCCGATAACCCTAAAGGACTT
* * ** * * * **
1030557 AAAAAGGATTTAG-AA-AGGATGAATATATCCTAAATACCCACATTT-TGTATAAAAGC-GAAAT
66 AAAAATGA--TAGAAATAGGGTGAACCTATCCTAAATACCCAC-TTTCGGCATGAAAGCAG-ACC
1030618 CGGTGACAACCTAGGAGTTGGTTCTATAAA
127 CGGTGACAACCTAGGAGTTGGTTCTA-AAA
* * * * * *
1030648 ATTACAAAAATACCCTTATAGGTATACCTTCGACGTAAAAGTATCCCGGTAACACTAAAGGATTT
1 ATTACGAAAATGCCCTTATGGGTATACCTTCGACGTAAAAGTATCCCGATAACCCTAAAGGACTT
*
1030713 AAAAATGATAGAAATAGGGTGAACCTATCCTAAATACCCACTTTCTGCATGAAAGCAGACCCAGG
66 AAAAATGATAGAAATAGGGTGAACCTATCCTAAATACCCACTTTCGGCATGAAAGCAGACCC-GG
*
1030778 -GACAACTTAGGAGTT-GTTCTAAAAA
130 TGACAACCTAGGAGTTGGTTCT-AAAA
* * * ** * *
1030803 ATTATGAAAATG-CTTCTATGGGTATACCTTCGACGTGAAAGTATTTCGATAACCCTAAAAGACG
1 ATTACGAAAATGCCCT-TATGGGTATACCTTCGACGTAAAAGTATCCCGATAACCCTAAAGGACT
* * * * * *
1030867 AAAAAATGATAGAAATGGGGTGAACCTATCCTAAATACCCATTTTCGACTTGAAAGCGGACCCGG
65 TAAAAATGATAGAAATAGGGTGAACCTATCCTAAATACCCACTTTCGGCATGAAAGCAGACCCGG
1030932 TGACAACCTAGGAGTTGGTTCTAAAA
130 TGACAACCTAGGAGTTGGTTCTAAAA
* * * * * * * *
1030958 ATTTACAAAAATGCCCCTATAGATATACTTTTGACATAAAAGTA-CCCCAGTAACCCTAAAGGAC
1 A-TTACGAAAATGCCCTTATGGGTATACCTTCGACGTAAAAGTATCCCGA-TAACCCTAAAGGAC
* * * * * **
1031022 TTAAAAAAGATAAAAATAGGGTGAACCTATCCTAAATACCTACCTTCGGCATGAAAGCAAACCTA
64 TTAAAAATGATAGAAATAGGGTGAACCTATCCTAAATACCCACTTTCGGCATGAAAGCAGACCCG
1031087 GTGACAACCTAGGAG-T--TT-TAAAA
129 GTGACAACCTAGGAGTTGGTTCTAAAA
* * *
1031110 ATTTACGAAAATGCCCTTATGGATATACCTTCGACTTGAAAGTATC
1 A-TTACGAAAATGCCCTTATGGGTATACCTTCGACGTAAAAGTATC
1031156 TCGGGGATCC
Statistics
Matches: 544, Mismatches: 98, Indels: 44
0.79 0.14 0.06
Matches are distributed among these distances:
152 42 0.08
153 3 0.01
154 9 0.02
155 246 0.45
156 236 0.43
157 8 0.01
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (155 bp):
ATTACGAAAATGCCCTTATGGGTATACCTTCGACGTAAAAGTATCCCGATAACCCTAAAGGACTT
AAAAATGATAGAAATAGGGTGAACCTATCCTAAATACCCACTTTCGGCATGAAAGCAGACCCGGT
GACAACCTAGGAGTTGGTTCTAAAA
Found at i:1030906 original size:311 final size:305
Alignment explanation
Indices: 1030338--1031155 Score: 845
Period size: 311 Copynumber: 2.6 Consensus size: 305
1030328 TTTAAGAAAG
* * * * * *
1030338 ATTACGAAAATACCCTTA-GGGGATACTTTCAACGTAAAAGTACCCGATACCCCTAAAGGACTTT
1 ATTACAAAAATACCCTTATAGGTATACTTTCGACGTAAAAGTACCCGGTAACCCTAAAGGA-TTT
* * * *
1030402 -AAAAGAATTACAAAT-GGGATGAACCTATCCTAAATGCCCACCTTT-GGCATAAAAG-TGAACC
65 AAAAAG-A-TAAAAATAGGG-TGAACCTATCCTAAATACCCA-CTTTCGGCATGAAAGCAG-ACC
** * * *
1030463 C-GGTGATGACTTAGGAGTTGGTTTTAAAAAATTACGAAAAGGCCTT-TATGGGTAAACTTTCGA
125 CAGG-GACAACTTAGGAGTT-G-TTTAAAAAATTACGAAAATG-CTTCTATGGGTATACCTTCGA
* * * * *
1030526 CGTAAAAGTA-CCCGATACCCCTAAAGGACCTAAAAAGGATTTAGAAAGGATGAATATATCCTAA
186 CGTGAAAGTATCCCGATAACCCTAAAAGACCAAAAAAGGA-TTAGAAAGGATGAACATATCCTAA
*
1030590 ATACCCACATTTT-GTA-TAAAAGCGAAATCGGTGACAACCTAGGAGTTGGTTCTATAAA
250 ATA-CC-CATTTTCG-ACTAAAAGCGAAACCGGTGACAACCTAGGAGTTGGTTCTA-AAA
* *
1030648 ATTACAAAAATACCCTTATAGGTATACCTTCGACGTAAAAGTATCCCGGTAACACTAAAGGATTT
1 ATTACAAAAATACCCTTATAGGTATACTTTCGACGTAAAAGTA-CCCGGTAACCCTAAAGGATTT
* *
1030713 AAAAATGATAGAAATAGGGTGAACCTATCCTAAATACCCACTTTCTGCATGAAAGCAGACCCAGG
65 AAAAA-GATAAAAATAGGGTGAACCTATCCTAAATACCCACTTTCGGCATGAAAGCAGACCCAGG
*
1030778 GACAACTTAGGAGTTGTTCTAAAAAATTATGAAAATGCTTCTATGGGTATACCTTCGACGTGAAA
129 GACAACTTAGGAGTTGTT-TAAAAAATTACGAAAATGCTTCTATGGGTATACCTTCGACGTGAAA
** * * * *
1030843 GTATTTCGATAACCCTAAAAGACGAAAAAATGA-TAGAAATGGGGTGAACCTATCCTAAATACCC
193 GTATCCCGATAACCCTAAAAGACCAAAAAAGGATTAGAAA--GGATGAACATATCCTAAATACCC
* * *
1030907 ATTTTCGACTTGAAAGCGGACCCGGTGACAACCTAGGAGTTGGTTCTAAAA
256 ATTTTCGAC-TAAAAGCGAAACCGGTGACAACCTAGGAGTTGGTTCTAAAA
* * * * * *
1030958 ATTTACAAAAATGCCCCTATAGATATACTTTTGACATAAAAGTACCCCAGTAACCCTAAAGGACT
1 A-TTACAAAAATACCCTTATAGGTATACTTTCGACGTAAAAGTA-CCCGGTAACCCTAAAGGA-T
* * * * *
1031023 TAAAAAAGATAAAAATAGGGTGAACCTATCCTAAATACCTACCTTCGGCATGAAAGCAAACCTAG
63 TTAAAAAGATAAAAATAGGGTGAACCTATCCTAAATACCCACTTTCGGCATGAAAGCAGACCCAG
* * * * * *
1031088 TGACAACCTAGGAG-T-TTTAAAAATTTACGAAAATGC-CCTTATGGATATACCTTCGACTTGAA
128 GGACAACTTAGGAGTTGTTTAAAAAATTACGAAAATGCTTC-TATGGGTATACCTTCGACGTGAA
1031150 AGTATC
192 AGTATC
1031156 TCGGGGATCC
Statistics
Matches: 431, Mismatches: 58, Indels: 40
0.81 0.11 0.08
Matches are distributed among these distances:
307 1 0.00
308 43 0.10
309 20 0.05
310 70 0.16
311 263 0.61
312 33 0.08
313 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (305 bp):
ATTACAAAAATACCCTTATAGGTATACTTTCGACGTAAAAGTACCCGGTAACCCTAAAGGATTTA
AAAAGATAAAAATAGGGTGAACCTATCCTAAATACCCACTTTCGGCATGAAAGCAGACCCAGGGA
CAACTTAGGAGTTGTTTAAAAAATTACGAAAATGCTTCTATGGGTATACCTTCGACGTGAAAGTA
TCCCGATAACCCTAAAAGACCAAAAAAGGATTAGAAAGGATGAACATATCCTAAATACCCATTTT
CGACTAAAAGCGAAACCGGTGACAACCTAGGAGTTGGTTCTAAAA
Found at i:1031801 original size:127 final size:126
Alignment explanation
Indices: 1031663--1031989 Score: 422
Period size: 128 Copynumber: 2.6 Consensus size: 126
1031653 ATATGAAAAA
1031663 TTTTGAAATCTTTTAATACCCCTACGATACCCATAGGAATATAAAAGATTTAAAATGATTAATAT
1 TTTTGAAATCTTTT-ATACCCCTACGATACCCATAGGAATATAAAAGATTTAAAATGATTAATAT
* * **
1031728 TTATTTATGC-ATGGAAAAAATCATTTCATATCTTAATAGATACCCAAAAAGATACGAAATTT
65 TTATTTATGCTA-GGAAAAAATCATTTCATACCTTAATAGATACCCAAAAAGACACGAAAAGT
** * ** * *
1031790 TTTTGAAATCTTTTATACCTTTACGGATACCTATAAAAATATAAAAGACTTATAAATAATTAATA
1 TTTTGAAATCTTTTATACCCCTAC-GATACCCATAGGAATATAAAAGATTTA-AAATGATTAATA
* *
1031855 TTTATTTATGCTAGGAAAAAATCATTTCATACCTTAATGGATACCTAAAAAGACACGAAAAGT
64 TTTATTTATGCTAGGAAAAAATCATTTCATACCTTAATAGATACCCAAAAAGACACGAAAAGT
* * * * * *
1031918 TTTTGAAATTTTTTATACCCCTATGGATAGCCATTGGAATATAAAAGATTAAAAATGATTAACAT
1 TTTTGAAATCTTTTATACCCCTA-CGATACCCATAGGAATATAAAAGATTTAAAATGATTAATAT
*
1031983 TTGTTTA
65 TTATTTA
1031990 AATTAACAGG
Statistics
Matches: 169, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
126 8 0.05
127 54 0.32
128 106 0.63
129 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (126 bp):
TTTTGAAATCTTTTATACCCCTACGATACCCATAGGAATATAAAAGATTTAAAATGATTAATATT
TATTTATGCTAGGAAAAAATCATTTCATACCTTAATAGATACCCAAAAAGACACGAAAAGT
Found at i:1033388 original size:13 final size:13
Alignment explanation
Indices: 1033370--1033394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1033360 CATTTTATGG
1033370 TGTATCGATACAA
1 TGTATCGATACAA
1033383 TGTATCGATACA
1 TGTATCGATACA
1033395 TACTATGTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1033410 original size:32 final size:33
Alignment explanation
Indices: 1033347--1033414 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
1033337 CGTTACAAGC
**
1033347 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
1033380 CAATGTATCGATACATACTAT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
1033412 CAA
1 CAA
1033415 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:1035934 original size:13 final size:13
Alignment explanation
Indices: 1035916--1035941 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1035906 ATAATCCCCC
1035916 TGTATCGATACAA
1 TGTATCGATACAA
1035929 TGTATCGATACAA
1 TGTATCGATACAA
1035942 AGAATGCTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1040644 original size:19 final size:19
Alignment explanation
Indices: 1040590--1040645 Score: 103
Period size: 19 Copynumber: 2.9 Consensus size: 19
1040580 ATTCAACGAT
*
1040590 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAATTG
1040609 TTGTATCGATACATAATTG
1 TTGTATCGATACATAATTG
1040628 TTGTATCGATACATAATT
1 TTGTATCGATACATAATT
1040646 AGCTACTGCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (19 bp):
TTGTATCGATACATAATTG
Found at i:1040702 original size:13 final size:13
Alignment explanation
Indices: 1040684--1040708 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1040674 ATTACTCAAA
1040684 TGTATCGATACAT
1 TGTATCGATACAT
1040697 TGTATCGATACA
1 TGTATCGATACA
1040709 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1047726 original size:16 final size:15
Alignment explanation
Indices: 1047707--1047743 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
1047697 AAGTATACAT
1047707 AAAAAAAACAAAACAA
1 AAAAAAAAC-AAACAA
*
1047723 AAAAAAAACACACAA
1 AAAAAAAACAAACAA
1047738 AAAAAA
1 AAAAAA
1047744 GTGCAAAGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAACAAACAA
Found at i:1048990 original size:32 final size:31
Alignment explanation
Indices: 1048944--1049315 Score: 353
Period size: 32 Copynumber: 11.7 Consensus size: 31
1048934 ATACCTTCTT
1048944 AAAGTCCACGACTCAGTGGCATCTTTTTTCTC
1 AAAGTCCACGACTCAGTGGCATCTTTTTT-TC
* **
1048976 AAAGCCCACGACTCAGTGGCATCTTTCCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTTTTC
*
1049007 AAAGTCCACGACTCCGTGGCATCCTTGTTCTTTC
1 AAAGTCCACGACTCAGTGGCAT-CTT-TT-TTTC
1049041 AAAGTCCACGACTCAGTGGCATCTTTTCCTTTC
1 AAAGTCCACGACTCAGTGGCATCTTTT--TTTC
* **
1049074 -AAGTCCACGACTCTGTGGCA-C-CCTTTT-
1 AAAGTCCACGACTCAGTGGCATCTTTTTTTC
* * *
1049101 -AAGCCCACAACTCCGTGGCACTCTTTTTCCTTC
1 AAAGTCCACGACTCAGTGGCA-TCTTTTT--TTC
* * **
1049134 TTAAGTCCACGACTCAGTGGCAATC-TCTTCCC
1 -AAAGTCCACGACTCAGTGGC-ATCTTTTTTTC
*
1049166 AAAGTCCACGGCTCAGTGGCATCTTTTTTCTC
1 AAAGTCCACGACTCAGTGGCATCTTTTTT-TC
* **
1049198 AAAGCCCACGACTCAGTGGCATCTTTCCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTTTTTC
*
1049229 AAAGTCCACGACTCCGTGGCATCCTTGTTTTTTC
1 AAAGTCCACGACTCAGTGGCAT-C-T-TTTTTTC
1049263 AAAGTCCACGACTCAGTGGCATCTTTTTCTTTC
1 AAAGTCCACGACTCAGTGGCATC-TTTT-TTTC
* *
1049296 -AAGTCCATGACTCTGTGGCA
1 AAAGTCCACGACTCAGTGGCA
1049316 CCCTTTTAAG
Statistics
Matches: 283, Mismatches: 38, Indels: 38
0.79 0.11 0.11
Matches are distributed among these distances:
27 17 0.06
28 3 0.01
29 1 0.00
30 6 0.02
31 66 0.23
32 101 0.36
33 17 0.06
34 53 0.19
35 18 0.06
36 1 0.00
ACGTcount: A:0.20, C:0.32, G:0.17, T:0.31
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATCTTTTTTTC
Found at i:1049108 original size:27 final size:27
Alignment explanation
Indices: 1049068--1049127 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
1049058 GGCATCTTTT
* * * *
1049068 CCTTTCAAGTCCACGACTCTGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
1049095 CCTTTTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
1049122 TCTTTT
1 CCTTTT
1049128 TCCTTCTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.37, G:0.15, T:0.30
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Done.