Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 19 of 228
Found at i:6358334 original size:24 final size:23
Alignment explanation
Indices: 6358307--6358354 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
6358297 ATAACAATAC
* *
6358307 GCAGAAAATTCTGCCAGTAAAAAT
1 GCAGAAAA-GCTGCCAATAAAAAT
*
6358331 GCAGACAAGCTGCCAATAAAAAT
1 GCAGAAAAGCTGCCAATAAAAAT
6358354 G
1 G
6358355 TGATAAATCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.17
Consensus pattern (23 bp):
GCAGAAAAGCTGCCAATAAAAAT
Found at i:6366628 original size:2 final size:2
Alignment explanation
Indices: 6366616--6366663 Score: 54
Period size: 2 Copynumber: 27.0 Consensus size: 2
6366606 ACTCAAGCCA
6366616 AT AT AT A- AT AT AT A- AT AT A- AT AT A- AT AT A- AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6366652 AT AT AT AT AT AT
1 AT AT AT AT AT AT
6366664 GGTCCTTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
1 6 0.15
2 34 0.85
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:6366633 original size:5 final size:5
Alignment explanation
Indices: 6366625--6366660 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
6366615 AATATATAAT
6366625 ATATA ATATA ATATA ATATA ATATA ATATA TATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA -ATATA
6366661 TATGGTCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:6366645 original size:15 final size:16
Alignment explanation
Indices: 6366615--6366660 Score: 71
Period size: 15 Copynumber: 3.1 Consensus size: 16
6366605 CACTCAAGCC
6366615 AATAT-ATA-ATATAT
1 AATATAATATATATAT
6366629 AATATAATATA-ATAT
1 AATATAATATATATAT
6366644 AATATAATATATATAT
1 AATATAATATATATAT
6366660 A
1 A
6366661 TATGGTCCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.17
15 18 0.62
16 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATATAATATATATAT
Found at i:6366663 original size:10 final size:10
Alignment explanation
Indices: 6366616--6366663 Score: 54
Period size: 9 Copynumber: 5.4 Consensus size: 10
6366606 ACTCAAGCCA
6366616 ATATATA-AT
1 ATATATATAT
6366625 ATATA-ATAT
1 ATATATATAT
6366634 A-ATATA-AT
1 ATATATATAT
6366642 ATA-ATATA-
1 ATATATATAT
6366650 ATATATATAT
1 ATATATATAT
6366660 ATAT
1 ATAT
6366664 GGTCCTTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
8 13 0.39
9 16 0.48
10 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
ATATATATAT
Found at i:6371304 original size:13 final size:13
Alignment explanation
Indices: 6371288--6371312 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6371278 ACTTTTCCTT
6371288 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
6371301 AAAAAGAAAAAA
1 AAAAAGAAAAAA
6371313 CATGGCCTGA
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:6381475 original size:17 final size:16
Alignment explanation
Indices: 6381453--6381497 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
6381443 TAATTAGAAT
6381453 TTTCTTTCCTCTCCCTA
1 TTTCTTTCCTCT-CCTA
* * *
6381470 TTTCTTCCCTCTCTTT
1 TTTCTTTCCTCTCCTA
6381486 TTTCTTTCCTCT
1 TTTCTTTCCTCT
6381498 TATTTACATC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.02, C:0.38, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTCTTTCCTCTCCTA
Found at i:6383804 original size:31 final size:32
Alignment explanation
Indices: 6383766--6383834 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 32
6383756 TTAATATATA
6383766 TTATAAAAAAT-AGAATA-AAAAGTTT-AAAATT
1 TTATAAAAAATCA-AA-ACAAAAGTTTAAAAATT
*
6383797 TTAT-AAAATTCAAAACAAAAGTTTAAAAATT
1 TTATAAAAAATCAAAACAAAAGTTTAAAAATT
6383828 TTATAAA
1 TTATAAA
6383835 TTAGTAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
29 1 0.03
30 15 0.45
31 15 0.45
32 2 0.06
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.33
Consensus pattern (32 bp):
TTATAAAAAATCAAAACAAAAGTTTAAAAATT
Found at i:6383868 original size:15 final size:15
Alignment explanation
Indices: 6383850--6383878 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6383840 AATTTTTTAA
6383850 TTATATAATATAAAT
1 TTATATAATATAAAT
6383865 TTATATAATATAAA
1 TTATATAATATAAA
6383879 ATATAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTATATAATATAAAT
Found at i:6386092 original size:12 final size:12
Alignment explanation
Indices: 6386075--6386099 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6386065 AGCATAGATT
6386075 AGTGGAGGCAGA
1 AGTGGAGGCAGA
6386087 AGTGGAGGCAGA
1 AGTGGAGGCAGA
6386099 A
1 A
6386100 CAAATTAGTT
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:0.36, C:0.08, G:0.48, T:0.08
Consensus pattern (12 bp):
AGTGGAGGCAGA
Found at i:6399051 original size:45 final size:45
Alignment explanation
Indices: 6399000--6399095 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
6398990 CCAGCGTTTT
* ** *
6399000 ATCCACAACGTACTAGCAGGTTTTATCTACACTGATGGATAGTTC
1 ATCCACAACGTACTAGCAGCTTTTATCTACACAAACGGATAGTTC
* *
6399045 ATCCACAACGTATTAGCAGCTTTTATCTACACAAACGGATGGTTC
1 ATCCACAACGTACTAGCAGCTTTTATCTACACAAACGGATAGTTC
6399090 ATCCAC
1 ATCCAC
6399096 CAATATATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (45 bp):
ATCCACAACGTACTAGCAGCTTTTATCTACACAAACGGATAGTTC
Found at i:6399150 original size:21 final size:21
Alignment explanation
Indices: 6399111--6399150 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6399101 TATTTTCATC
**
6399111 ATTAGCAGTTCATTTACAATG
1 ATTAGCAGTTCATCCACAATG
*
6399132 ATTAGTAGTTCATCCACAA
1 ATTAGCAGTTCATCCACAA
6399151 AGTAGTGTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (21 bp):
ATTAGCAGTTCATCCACAATG
Found at i:6401122 original size:16 final size:15
Alignment explanation
Indices: 6401103--6401138 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
6401093 TCACAAACCT
6401103 TTTTCCTTTTTCTTCA
1 TTTTCCTTTTT-TTCA
*
6401119 TTTTCCTTTTTTTCT
1 TTTTCCTTTTTTTCA
6401134 TTTTC
1 TTTTC
6401139 TACTCAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTCCTTTTTTTCA
Found at i:6401471 original size:48 final size:49
Alignment explanation
Indices: 6401400--6401498 Score: 182
Period size: 48 Copynumber: 2.0 Consensus size: 49
6401390 AAATAAATAC
6401400 ATTCTTTCTTAGTCCATTTTCTCTTTTTC-TTCTCTCTCTTTAACTCAA
1 ATTCTTTCTTAGTCCATTTTCTCTTTTTCTTTCTCTCTCTTTAACTCAA
6401448 ATTCTTTCTTAGTCCATTTTCTCTTTTTCTTTTCTCTCTCTTTAACTCAA
1 ATTCTTTCTTAGTCCATTTTCTCTTTTTC-TTTCTCTCTCTTTAACTCAA
6401498 A
1 A
6401499 AGACTCTGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
48 29 0.59
50 20 0.41
ACGTcount: A:0.15, C:0.26, G:0.02, T:0.57
Consensus pattern (49 bp):
ATTCTTTCTTAGTCCATTTTCTCTTTTTCTTTCTCTCTCTTTAACTCAA
Found at i:6403571 original size:24 final size:24
Alignment explanation
Indices: 6403543--6403595 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
6403533 TTTCTAGAAG
6403543 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGTATTTATTAGTATAATAT
* *
6403567 ATTTAGTATTTATTAGTATAGTTT
1 ATTTAGTATTTATTAGTATAATAT
6403591 ATTTA
1 ATTTA
6403596 ACTCACTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (24 bp):
ATTTAGTATTTATTAGTATAATAT
Found at i:6407306 original size:19 final size:19
Alignment explanation
Indices: 6407277--6407313 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
6407267 TTTTATTAAT
6407277 ATTTTTCTAGTAATGTTTTG
1 ATTTTTCTAGTAAT-TTTTG
6407297 ATTTTT-TAGTAATTTTT
1 ATTTTTCTAGTAATTTTT
6407314 AATAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.22, C:0.03, G:0.11, T:0.65
Consensus pattern (19 bp):
ATTTTTCTAGTAATTTTTG
Found at i:6407492 original size:87 final size:88
Alignment explanation
Indices: 6407308--6407502 Score: 313
Period size: 87 Copynumber: 2.2 Consensus size: 88
6407298 TTTTTTAGTA
*
6407308 ATTTTTAATAAAAATTTTAAGTCTTCTATAAATTTTATTTTTTTATTTTTAATTTCTTTCTAATA
1 ATTTTTAATAAAAATTTTAAGTCTTCTATAAATTTTATTTTTTTATTTTTAATTTATTTCTAATA
6407373 GTTTTTGAATTTATAATAATTTT
66 GTTTTTGAATTTATAATAATTTT
*
6407396 ATTTTTAATAAAAATTTTAAGTCTTCTATAAATTTTA-TTTTTTATTTTTTATTTATTT-TAAAT
1 ATTTTTAATAAAAATTTTAAGTCTTCTATAAATTTTATTTTTTTATTTTTAATTTATTTCT-AAT
*
6407459 ATTTTTTGAATTTATAATAATTTT
65 AGTTTTTGAATTTATAATAATTTT
* *
6407483 GTTTTTAATAATGAATTTTA
1 ATTTTTAATAA-AAATTTTA
6407503 GTTTGGGTTT
Statistics
Matches: 100, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
86 1 0.01
87 55 0.55
88 44 0.44
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.61
Consensus pattern (88 bp):
ATTTTTAATAAAAATTTTAAGTCTTCTATAAATTTTATTTTTTTATTTTTAATTTATTTCTAATA
GTTTTTGAATTTATAATAATTTT
Found at i:6409296 original size:19 final size:19
Alignment explanation
Indices: 6409250--6409296 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
6409240 ATATGTTTGT
*
6409250 AAAATATTATGAAATTTAAA
1 AAAATATTAT-AAATCTAAA
6409270 AAAA-ATTAT-AATCTAAA
1 AAAATATTATAAATCTAAA
6409287 ATAAATATTA
1 A-AAATATTA
6409297 AAACTAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 8 0.33
18 3 0.12
19 9 0.38
20 4 0.17
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAATATTATAAATCTAAA
Found at i:6414354 original size:16 final size:17
Alignment explanation
Indices: 6414326--6414363 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
6414316 ACTTTTAATT
*
6414326 TTATTTATTATTTTTTC
1 TTATTTATTATTTTTGC
6414343 TTATTT-TTATTTTTGC
1 TTATTTATTATTTTTGC
6414359 TTATT
1 TTATT
6414364 CTGAATGGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (17 bp):
TTATTTATTATTTTTGC
Found at i:6415777 original size:22 final size:23
Alignment explanation
Indices: 6415729--6415778 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
6415719 CAAAAAAAAT
* *
6415729 ATAATCATCTAAAAGCTTATTCT
1 ATAATCATCTAAAAGATTATTCG
*
6415752 ATAATCATC-AAAAGATTCTTCG
1 ATAATCATCTAAAAGATTATTCG
6415774 ATAAT
1 ATAAT
6415779 AATTTACTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (23 bp):
ATAATCATCTAAAAGATTATTCG
Found at i:6417565 original size:6 final size:6
Alignment explanation
Indices: 6417556--6417589 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
6417546 CACTGATCTT
* *
6417556 CCCTTT CCCTTC CTCTTC CCCTTC CCCTTC CCCT
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCT
6417590 ATCCTTGACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
CCCTTC
Found at i:6417579 original size:12 final size:12
Alignment explanation
Indices: 6417553--6417594 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
6417543 AGACACTGAT
*
6417553 CTTCC-CTTTCC
1 CTTCCTCTTCCC
6417564 CTTCCTCTTCCC
1 CTTCCTCTTCCC
*
6417576 CTTCCCCTTCCC
1 CTTCCTCTTCCC
6417588 CTATCCT
1 CT-TCCT
6417595 TGACACCTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 5 0.19
12 18 0.69
13 3 0.12
ACGTcount: A:0.02, C:0.57, G:0.00, T:0.40
Consensus pattern (12 bp):
CTTCCTCTTCCC
Found at i:6417583 original size:18 final size:17
Alignment explanation
Indices: 6417552--6417586 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6417542 TAGACACTGA
*
6417552 TCTTCCCTTTCCCTTCC
1 TCTTCCCTTCCCCTTCC
6417569 TCTTCCCCTTCCCCTTCC
1 TCTT-CCCTTCCCCTTCC
6417587 CCTATCCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (17 bp):
TCTTCCCTTCCCCTTCC
Found at i:6420388 original size:18 final size:20
Alignment explanation
Indices: 6420345--6420397 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
6420335 AATATTTTTC
*
6420345 AGTAAATTATTTTACAGAAA
1 AGTAAAATATTTTACAGAAA
*
6420365 AGTAAAATATTTTTCA-AAA
1 AGTAAAATATTTTACAGAAA
6420384 A-TAAAATATTTTAC
1 AGTAAAATATTTTAC
6420398 TGGCAATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 12 0.40
19 4 0.13
20 14 0.47
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.38
Consensus pattern (20 bp):
AGTAAAATATTTTACAGAAA
Found at i:6423922 original size:13 final size:13
Alignment explanation
Indices: 6423906--6423945 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
6423896 TTTAAACTAA
6423906 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
6423919 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
6423932 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
6423945 A
1 A
6423946 ATGAAGAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.40, C:0.25, G:0.07, T:0.28
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:6426231 original size:16 final size:16
Alignment explanation
Indices: 6426212--6426253 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
6426202 GCTTTTTGAG
6426212 TTCAGGTTTTTTCAGA
1 TTCAGGTTTTTTCAGA
*
6426228 TTCA-GTTCTTTTCAGG
1 TTCAGGTT-TTTTCAGA
*
6426244 TTCAGATTTT
1 TTCAGGTTTT
6426254 ATCGGGTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 3 0.14
16 17 0.77
17 2 0.09
ACGTcount: A:0.17, C:0.14, G:0.17, T:0.52
Consensus pattern (16 bp):
TTCAGGTTTTTTCAGA
Found at i:6427586 original size:3 final size:3
Alignment explanation
Indices: 6427578--6427610 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
6427568 TAGTCTTTTG
*
6427578 TTC TTC TTC TTC TTC TTC ATC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
6427611 CATGTAACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:6432219 original size:23 final size:23
Alignment explanation
Indices: 6432193--6432244 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
6432183 TAGTTGAAAG
* *
6432193 CTGTAATATCCCGAAAATTACTA
1 CTGTAATACCCCAAAAATTACTA
6432216 CTGTAATACCCCAAAAATTACTA
1 CTGTAATACCCCAAAAATTACTA
*
6432239 CAGTAA
1 CTGTAA
6432245 GAAAGTACGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (23 bp):
CTGTAATACCCCAAAAATTACTA
Found at i:6438241 original size:23 final size:23
Alignment explanation
Indices: 6438215--6438258 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
6438205 ATAAATTATT
6438215 TTTATTACTTTAAAT-ATAAAACA
1 TTTATTAC-TTAAATCATAAAACA
*
6438238 TTTATTTCTTAAATCATAAAA
1 TTTATTACTTAAATCATAAAA
6438259 TAGAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (23 bp):
TTTATTACTTAAATCATAAAACA
Found at i:6447348 original size:16 final size:16
Alignment explanation
Indices: 6447327--6447358 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6447317 ATTTTGTTGC
*
6447327 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
6447343 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
6447359 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:6447644 original size:51 final size:50
Alignment explanation
Indices: 6447577--6447772 Score: 236
Period size: 51 Copynumber: 3.9 Consensus size: 50
6447567 TTAATGATAC
* * *
6447577 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT-ACTATT
* *
6447628 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATA-CTATT
* * * * *
6447679 CGGTACGCATAGTAGCCTGCACATAGTACTAGACATGCGACC-TA-TCATT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACT-ATT
6447728 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 C-GGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
6447773 CACTTTCACT
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
48 1 0.01
49 4 0.03
50 39 0.32
51 76 0.62
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACTATT
Found at i:6447752 original size:101 final size:102
Alignment explanation
Indices: 6447584--6447768 Score: 304
Period size: 101 Copynumber: 1.8 Consensus size: 102
6447574 TACCGGTTCA
*
6447584 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATTCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATTCGATACACGTAGTAGCCTGCA
6447649 CATAGTACTACACACGTGATCGAAGCTATTCGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATTCGGTACG
* *
6447686 CATAGTAGCCTGCACATAGTACTAGACATGCGACC-T-A-TCATTCTGGTACACGTAGTAGCCTG
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACT-ATTC-GATACACGTAGTAGCCTG
6447748 CACATAGTACTACACACGTGA
64 CACATAGTACTACACACGTGA
6447769 CCATCACTTT
Statistics
Matches: 78, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
99 1 0.01
100 5 0.06
101 39 0.50
102 33 0.42
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATTCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATTCGGTACG
Found at i:6449461 original size:30 final size:31
Alignment explanation
Indices: 6449422--6449481 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
6449412 AGAGGTGAGA
*
6449422 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
6449453 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
6449482 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:6449728 original size:9 final size:9
Alignment explanation
Indices: 6449716--6449764 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
6449706 TTCGAGTTAT
6449716 TCGAATAAC
1 TCGAATAAC
*
6449725 TCGATTAAC
1 TCGAATAAC
6449734 TCGAATAAC
1 TCGAATAAC
*
6449743 TCGATTAAC
1 TCGAATAAC
6449752 TCGAATAAC
1 TCGAATAAC
6449761 TCGA
1 TCGA
6449765 TTCGTTTAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (9 bp):
TCGAATAAC
Found at i:6449779 original size:23 final size:18
Alignment explanation
Indices: 6449716--6449766 Score: 102
Period size: 18 Copynumber: 2.8 Consensus size: 18
6449706 TTCGAGTTAT
6449716 TCGAATAACTCGATTAAC
1 TCGAATAACTCGATTAAC
6449734 TCGAATAACTCGATTAAC
1 TCGAATAACTCGATTAAC
6449752 TCGAATAACTCGATT
1 TCGAATAACTCGATT
6449767 CGTTTAACTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (18 bp):
TCGAATAACTCGATTAAC
Found at i:6452005 original size:24 final size:23
Alignment explanation
Indices: 6451936--6452011 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 23
6451926 CCAATAGGAA
*
6451936 AAGTGATAGTAACACTATGGTGC
1 AAGTGATAGTAGCACTATGGTGC
* *** *
6451959 AAGTGATAGAAGTGTTATAGTGC
1 AAGTGATAGTAGCACTATGGTGC
*
6451982 AAAGTGATAGTGGCACTATGGTGC
1 -AAGTGATAGTAGCACTATGGTGC
6452006 AAGTGA
1 AAGTGA
6452012 CAGAGGCATT
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
23 23 0.57
24 17 0.43
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.26
Consensus pattern (23 bp):
AAGTGATAGTAGCACTATGGTGC
Found at i:6452019 original size:23 final size:23
Alignment explanation
Indices: 6451978--6452103 Score: 92
Period size: 23 Copynumber: 5.4 Consensus size: 23
6451968 AAGTGTTATA
* *
6451978 GTGCAAAGTGATAGTGGCACTATG
1 GTGC-AAGTGATAGAGGCACTACG
* *
6452002 GTGCAAGTGACAGAGGCATTACG
1 GTGCAAGTGATAGAGGCACTACG
* * * * *
6452025 ATGCAAGTGATTGTGACGCTACG
1 GTGCAAGTGATAGAGGCACTACG
* * *
6452048 ATGCAAGTGACAGAGGCACTACA
1 GTGCAAGTGATAGAGGCACTACG
* *
6452071 GTGCAAG-CAGTAGTGGCACTACG
1 GTGCAAGTGA-TAGAGGCACTACG
*
6452094 GCGCAAGTGA
1 GTGCAAGTGA
6452104 ATGGCACTTC
Statistics
Matches: 76, Mismatches: 24, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
22 1 0.01
23 70 0.92
24 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.33, T:0.19
Consensus pattern (23 bp):
GTGCAAGTGATAGAGGCACTACG
Found at i:6452030 original size:47 final size:46
Alignment explanation
Indices: 6451936--6452103 Score: 151
Period size: 46 Copynumber: 3.6 Consensus size: 46
6451926 CCAATAGGAA
* * * * ** *
6451936 AAGTGATAGTAACACTATGGTGCAAGTGATAGAAGTGTTATAGTGC
1 AAGTGATAGTGACACTACGGTGCAAGTGACAGAGGCATTACAGTGC
* *
6451982 AAAGTGATAGTGGCACTATGGTGCAAGTGACAGAGGCATTAC-GATGC
1 -AAGTGATAGTGACACTACGGTGCAAGTGACAGAGGCATTACAG-TGC
* * * *
6452029 AAGTGATTGTGACGCTACGATGCAAGTGACAGAGGCACTACAGTGC
1 AAGTGATAGTGACACTACGGTGCAAGTGACAGAGGCATTACAGTGC
* * *
6452075 AAG-CAGTAGTGGCACTACGGCGCAAGTGA
1 AAGTGA-TAGTGACACTACGGTGCAAGTGA
6452104 ATGGCACTTC
Statistics
Matches: 99, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
45 1 0.01
46 60 0.61
47 38 0.38
ACGTcount: A:0.32, C:0.15, G:0.31, T:0.21
Consensus pattern (46 bp):
AAGTGATAGTGACACTACGGTGCAAGTGACAGAGGCATTACAGTGC
Found at i:6454959 original size:43 final size:44
Alignment explanation
Indices: 6454893--6455063 Score: 167
Period size: 43 Copynumber: 4.0 Consensus size: 44
6454883 GACTCGTACA
* * * * *
6454893 ATGCCAATATCCCAGAC-GTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACAGCGGTCTTACACGAAAACACATATCG
* * *
6454936 ATGCCACTGTCCCAGACAG-GGTCTTACAC-AAATCAAATA-CG
1 ATGCCAATGTCCCAGACAGCGGTCTTACACGAAAACACATATCG
* * *
6454977 ATGCCAATGTCCCAGACA-TGGTCTTACACGTAAACACA-AGTTG
1 ATGCCAATGTCCCAGACAGCGGTCTTACACGAAAACACATA-TCG
* *
6455020 ATGCCAACGTCCCAGA-TGCGGTCTTACACGAAAACACATATCG
1 ATGCCAATGTCCCAGACAGCGGTCTTACACGAAAACACATATCG
6455063 A
1 A
6455064 AATCCTATGT
Statistics
Matches: 106, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
41 30 0.28
42 13 0.12
43 61 0.58
44 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACAGCGGTCTTACACGAAAACACATATCG
Found at i:6454991 original size:41 final size:42
Alignment explanation
Indices: 6454893--6455005 Score: 140
Period size: 41 Copynumber: 2.7 Consensus size: 42
6454883 GACTCGTACA
* ** *
6454893 ATGCCAATATCCCAGAC-GTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACA-CAAATCAAATATCG
*
6454936 ATGCCACTGTCCCAGACAGGGTCTTACACAAATCAAATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACAAATCAAATATCG
*
6454977 ATGCCAATGTCCCAGACATGGTCTTACAC
1 ATGCCAATGTCCCAGACAGGGTCTTACAC
6455006 GTAAACACAA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 29 0.47
42 8 0.13
43 24 0.39
44 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACAAATCAAATATCG
Found at i:6455034 original size:84 final size:84
Alignment explanation
Indices: 6454893--6455048 Score: 210
Period size: 84 Copynumber: 1.9 Consensus size: 84
6454883 GACTCGTACA
* * *
6454893 ATGCCAATATCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAG-GG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAGA-AGCGG
6454957 TCTTACACAAATCAAATACG
65 TCTTACACAAATCAAATACG
* * *
6454977 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTTGATGCCAAC-GTCCCAGATGCG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAAACACATA-TCGATGCC-ACTGTCCCAGAAGCG
6455040 GTCTTACAC
64 GTCTTACAC
6455049 GAAAACACAT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
83 2 0.03
84 59 0.94
85 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (84 bp):
ATGCCAATATCCCAGACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAGAAGCGGT
CTTACACAAATCAAATACG
Found at i:6458360 original size:63 final size:64
Alignment explanation
Indices: 6458241--6458363 Score: 160
Period size: 63 Copynumber: 1.9 Consensus size: 64
6458231 AATAGCATAA
* * **
6458241 AAAAAAGATGTTTAAATGACAAATATACCCTTTAATAGAATTTTTGTGAATGTATAAAAATCCC
1 AAAAAAGATATTTAAATGACAAATATACCCTTTAATAGAATTTTTGTAAAAATATAAAAATCCC
* * *
6458305 AAAAAA-ATATTTAAATGACCATTATACCCTTTAATA-ATTTTTTTGTAAAAATATAAAAA
1 AAAAAAGATATTTAAATGACAAATATACCCTTTAATAGA-ATTTTTGTAAAAATATAAAAA
6458364 AACTAAAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
62 1 0.02
63 44 0.86
64 6 0.12
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (64 bp):
AAAAAAGATATTTAAATGACAAATATACCCTTTAATAGAATTTTTGTAAAAATATAAAAATCCC
Found at i:6462172 original size:18 final size:18
Alignment explanation
Indices: 6462134--6462172 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6462124 AATTGGTTTG
* * *
6462134 TTTTTGTTTAACATTGTT
1 TTTTTATTTAACATGGAT
6462152 TTTTTATTTAACATGGAT
1 TTTTTATTTAACATGGAT
6462170 TTT
1 TTT
6462173 ATATATTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.05, G:0.10, T:0.64
Consensus pattern (18 bp):
TTTTTATTTAACATGGAT
Found at i:6487442 original size:44 final size:44
Alignment explanation
Indices: 6487176--6487543 Score: 183
Period size: 44 Copynumber: 8.5 Consensus size: 44
6487166 AAAAATTGCA
* * * *
6487176 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATT-GAATATAG
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCGGATTAAAATAAAG
* * *
6487219 TAATCCTATCTCCCTGAAGTTACAATGGAGCGGA-T----TAAAG
1 -GATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG
* * * *** **
6487259 GATCTTATCTCTCTGAAGTTACAGTAGAGCAGA-TCGCA-CCAG
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG
* * * * **
6487301 G-TCTTATTTCCCTG-AGATTACAGTGGAACAGACTAAAAATTTCA-
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCGGA-TTAAAA-TAAAG
* * * ****
6487345 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAGGCCAGAA-
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAAAATA-AAG
* *
6487390 -ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAG
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG
* * ** * * *
6487433 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGA-TCGAAGACAC
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCGGATTAAAATAAAG
* *
6487476 TATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG
* *
6487520 GATCTTATCTCTCTGAGGTTACAG
1 GATCTTATCTCCCTGAAGTTACAG
6487544 CAGAGTAGAT
Statistics
Matches: 241, Mismatches: 64, Indels: 38
0.70 0.19 0.11
Matches are distributed among these distances:
39 28 0.12
40 6 0.02
41 24 0.10
42 5 0.02
43 37 0.15
44 108 0.45
45 32 0.13
46 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
GATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG
Found at i:6487516 original size:87 final size:86
Alignment explanation
Indices: 6487176--6487555 Score: 364
Period size: 87 Copynumber: 4.4 Consensus size: 86
6487166 AAAAATTGCA
* * *
6487176 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-T-ATCCTATCTCCCTGAAGTTA
*
6487241 CAATGGAGCGGA-T----TAAAG
64 CAGTGGAGCGGATTAAAATAAAG
* ** * * ** * *
6487259 GATCTTATCTCTCTGA-AGTTACAGTAGAGCAGATCGCA-CCAGGTCTTATTTCCCTG-AGATTA
1 GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGACATATCCTATCTCCCTGAAG-TTA
* * * **
6487321 CAGTGGAACAGACTAAAAATTTCA-
64 CAGTGGAGCGGA-TTAAAA-TAAAG
* * * * * *
6487345 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAGGCCAGAAATCCTATCTCTCTGAAGTTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG--ACATATCCTATCTCCCTGAAGTTA
6487410 CAGTGGAGCGGATTAAAATAAAG
64 CAGTGGAGCGGATTAAAATAAAG
6487433 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTAC
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-TATCCTATCTCCCTGAAGTTAC
6487498 AGTGGAGCGGATTAAAATAAAG
65 AGTGGAGCGGATTAAAATAAAG
* * * *
6487520 GATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCG
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCG
6487556 CATCAGGTCT
Statistics
Matches: 237, Mismatches: 44, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
79 2 0.01
80 23 0.10
82 2 0.01
83 31 0.13
86 34 0.14
87 78 0.33
88 41 0.17
89 24 0.10
90 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (86 bp):
GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACATATCCTATCTCCCTGAAGTTACA
GTGGAGCGGATTAAAATAAAG
Found at i:6487668 original size:261 final size:257
Alignment explanation
Indices: 6487176--6487668 Score: 598
Period size: 261 Copynumber: 1.9 Consensus size: 257
6487166 AAAAATTGCA
* * * *
6487176 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTAATCCTATCTCCCTGAAGTTA
*
6487241 CAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTT
66 CAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCACCAGGTCTT
* *** * * * * *
6487306 ATTTCCCTGAGATTACAGTGGAACAGACTAAAAATTTCAGATCTTATCTCCCTGAGGTTACAGTG
131 ATTTCCCTGAGATTACAGTGGAACAGAATAAAAACCACAAATCTCATCTCCCTAAAGTTACAGTA
* * * * ** *
6487371 GAGCAGATCGAGGCCAGAAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAG
196 AAGAAGATCGAAGCCACAAATCAGATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG
6487433 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTAATCCTATCTCCCTGAAGTTA
* * * *
6487497 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAG
66 CAATGGAGCGGA-T----TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCACCAG
* * *
6487562 GTCTTATTTCCCTGAAGA-TGCAGTGGAATAGAAT-AAAACCACAAATCTCGTC-CCCATAAAGT
126 GTCTTATTTCCCTG-AGATTACAGTGGAACAGAATAAAAACCACAAATCTCATCTCCC-TAAAGT
* * * *
6487624 TACTGTAAAAGAAGATTGAAGCTACAAGTCAGATCTCCCTGAAGT
189 TACAGT-AAAGAAGATCGAAGCCACAAATCAGATCTCCCTGAAGT
6487669 GCAGTAGATC
Statistics
Matches: 196, Mismatches: 32, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
256 31 0.16
257 41 0.21
259 3 0.02
260 21 0.11
261 97 0.49
262 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26
Consensus pattern (257 bp):
GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTAATCCTATCTCCCTGAAGTTA
CAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCACCAGGTCTT
ATTTCCCTGAGATTACAGTGGAACAGAATAAAAACCACAAATCTCATCTCCCTAAAGTTACAGTA
AAGAAGATCGAAGCCACAAATCAGATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG
Found at i:6488909 original size:3 final size:3
Alignment explanation
Indices: 6488903--6488940 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
6488893 ATTATTGAGT
*
6488903 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6488941 TCTTCCTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:6488968 original size:9 final size:10
Alignment explanation
Indices: 6488887--6488971 Score: 70
Period size: 9 Copynumber: 8.7 Consensus size: 10
6488877 TCCCATCATT
6488887 TTATTTATTA
1 TTATTTATTA
6488897 TTGAGTTTATTA
1 TT-A-TTTATTA
6488909 TTA-TTATTA
1 TTATTTATTA
*
6488918 TTA-TTATCA
1 TTATTTATTA
6488927 TTA-TTATTA
1 TTATTTATTA
* *
6488936 TTATTTCTTC
1 TTATTTATTA
* * *
6488946 CTATTCATTT
1 TTATTTATTA
6488956 TTATTTATT-
1 TTATTTATTA
6488965 TTATTTA
1 TTATTTA
6488972 AACCTTTGGT
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
9 32 0.52
10 19 0.31
11 2 0.03
12 9 0.15
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (10 bp):
TTATTTATTA
Found at i:6492354 original size:14 final size:14
Alignment explanation
Indices: 6492335--6492361 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6492325 ACCGCTCAAA
6492335 ACCATTGCTACATT
1 ACCATTGCTACATT
6492349 ACCATTGCTACAT
1 ACCATTGCTACAT
6492362 CTTACAACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (14 bp):
ACCATTGCTACATT
Found at i:6493305 original size:30 final size:31
Alignment explanation
Indices: 6493264--6493328 Score: 105
Period size: 30 Copynumber: 2.1 Consensus size: 31
6493254 GTCAATAAAT
*
6493264 TATTTAAAACTTTTCATTTAAGTCACT-AAC
1 TATTCAAAACTTTTCATTTAAGTCACTGAAC
*
6493294 TATTCAAAACTTTTTATTTAAGTCACTGAAC
1 TATTCAAAACTTTTCATTTAAGTCACTGAAC
6493325 TATT
1 TATT
6493329 AAGTTTCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.78
31 7 0.22
ACGTcount: A:0.35, C:0.15, G:0.05, T:0.45
Consensus pattern (31 bp):
TATTCAAAACTTTTCATTTAAGTCACTGAAC
Found at i:6505200 original size:24 final size:24
Alignment explanation
Indices: 6505172--6505223 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
6505162 TTAGTAAGTC
* *
6505172 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
6505196 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
6505220 AAAT
1 AAAT
6505224 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:6511753 original size:22 final size:22
Alignment explanation
Indices: 6511725--6511773 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
6511715 TGACAGGTCA
* *
6511725 TGTCTCGAGACATATAGGCTTT
1 TGTCTCGAGACAAACAGGCTTT
*
6511747 TGTCTCGAGACAAACATGCTTT
1 TGTCTCGAGACAAACAGGCTTT
6511769 TGTCT
1 TGTCT
6511774 AAAGACATGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (22 bp):
TGTCTCGAGACAAACAGGCTTT
Found at i:6514621 original size:14 final size:14
Alignment explanation
Indices: 6514596--6514636 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
6514586 ATATGAAGAA
6514596 TATTACTTAAAATTAT
1 TATTA-TTAAAATT-T
6514612 TATT-TTAAAATTT
1 TATTATTAAAATTT
6514625 TATTATTAAAAT
1 TATTATTAAAAT
6514637 AAAATTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.21
14 15 0.62
16 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (14 bp):
TATTATTAAAATTT
Found at i:6516991 original size:17 final size:17
Alignment explanation
Indices: 6516969--6517008 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
6516959 ACTTTGCAGT
6516969 AGAATGGAGTTGTAAAA
1 AGAATGGAGTTGTAAAA
6516986 AGAATGGAGTTGTAAAA
1 AGAATGGAGTTGTAAAA
6517003 AGAATG
1 AGAATG
6517009 AACAGAACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (17 bp):
AGAATGGAGTTGTAAAA
Found at i:6519864 original size:51 final size:50
Alignment explanation
Indices: 6519788--6520006 Score: 192
Period size: 51 Copynumber: 4.3 Consensus size: 50
6519778 TTAACACGTA
* *
6519788 TGTAGTACTAAGTGCAGGCTACTATGTGTATC-GATAGATAATGGTCACATG
1 TGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGAT--TGGTCACATG
* * * * * *
6519839 TGTAGTACTATGTGCAGGCTACTATGTGTA-CCGAATGGCCTTGGTCGCGTG
1 TGTAGTACTATGTGCAGGCTACTACGTGTATCAG-ATAG-ATTGGTCACATG
* * * * * *
6519890 TGTAGTACTATGTGCAAGCTACTACGTGAATCGGA-AGGCTTGATCACGTG
1 TGTAGTACTATGTGCAGGCTACTACGTGTATCAGATA-GATTGGTCACATG
* * *
6519940 TGTAGTACTATGTGTAGGCTACTACGTGTATCAGATGACAATGGTCACATG
1 TGTAGTACTATGTGCAGGCTACTACGTGTATCAGAT-AGATTGGTCACATG
* *
6519991 GGTGGTACTATGTGCA
1 TGTAGTACTATGTGCA
6520007 AACCGCCGAA
Statistics
Matches: 137, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
50 42 0.31
51 88 0.64
52 6 0.04
53 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (50 bp):
TGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGATTGGTCACATG
Found at i:6519961 original size:50 final size:51
Alignment explanation
Indices: 6519832--6519967 Score: 177
Period size: 50 Copynumber: 2.7 Consensus size: 51
6519822 TAGATAATGG
* * * *
6519832 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGGCCTTGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAATGGCCTTGA
* * *
6519883 TCGCGTGTGTAGTACTATGTGCAAGCTACTACGTGAATCGGAA-GG-CTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAA-CCGAATGGCCTTGA
*
6519933 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTG
6519968 TATCAGATGA
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
50 36 0.49
51 34 0.46
52 4 0.05
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAATGGCCTTGA
Found at i:6523301 original size:6 final size:6
Alignment explanation
Indices: 6523290--6523324 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
6523280 GAAAAGGTAC
* *
6523290 GTTTTA GTTTTA GTTTTA GTTTTA ATTTTA ATTTT
1 GTTTTA GTTTTA GTTTTA GTTTTA GTTTTA GTTTT
6523325 GATGATTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (6 bp):
GTTTTA
Found at i:6523763 original size:44 final size:42
Alignment explanation
Indices: 6523713--6523827 Score: 106
Period size: 43 Copynumber: 2.6 Consensus size: 42
6523703 TTCTATTCTA
* *
6523713 GGTTTTTA-TCTCTCTTTTACGACTTTCTCTTTTCTGGGTTTATG
1 GGTTTTTAGTCTCTCTTTGACG--GTTCT-TTTTCTGGGTTTATG
* * *
6523757 GGTTTTTAGTTGTTTCTTTGATGGTTCTTTTTCTGGGTTTATG
1 GGTTTTTAG-TCTCTCTTTGACGGTTCTTTTTCTGGGTTTATG
* * *
6523800 GGTTTTTAGTTGTTTCTTTGATGGTTCT
1 GGTTTTTAG-TCTCTCTTTGACGGTTCT
6523828 AGTTGCATGT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
43 43 0.67
44 12 0.19
46 9 0.14
ACGTcount: A:0.08, C:0.11, G:0.22, T:0.59
Consensus pattern (42 bp):
GGTTTTTAGTCTCTCTTTGACGGTTCTTTTTCTGGGTTTATG
Found at i:6523792 original size:43 final size:44
Alignment explanation
Indices: 6523737--6523827 Score: 175
Period size: 43 Copynumber: 2.1 Consensus size: 44
6523727 TTTTACGACT
6523737 TTCTCTTTTCTGGGTTTATGGGTTTTTAGTTGTTTCTTTGATGG
1 TTCTCTTTTCTGGGTTTATGGGTTTTTAGTTGTTTCTTTGATGG
6523781 TTCT-TTTTCTGGGTTTATGGGTTTTTAGTTGTTTCTTTGATGG
1 TTCTCTTTTCTGGGTTTATGGGTTTTTAGTTGTTTCTTTGATGG
6523824 TTCT
1 TTCT
6523828 AGTTGCATGT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 43 0.91
44 4 0.09
ACGTcount: A:0.07, C:0.09, G:0.24, T:0.60
Consensus pattern (44 bp):
TTCTCTTTTCTGGGTTTATGGGTTTTTAGTTGTTTCTTTGATGG
Found at i:6530800 original size:9 final size:9
Alignment explanation
Indices: 6530784--6530826 Score: 77
Period size: 9 Copynumber: 4.8 Consensus size: 9
6530774 GGTATTTTTC
6530784 GGTAATTCG
1 GGTAATTCG
*
6530793 GTTAATTCG
1 GGTAATTCG
6530802 GGTAATTCG
1 GGTAATTCG
6530811 GGTAATTCG
1 GGTAATTCG
6530820 GGTAATT
1 GGTAATT
6530827 TTTAACCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.37
Consensus pattern (9 bp):
GGTAATTCG
Found at i:6542036 original size:20 final size:20
Alignment explanation
Indices: 6542011--6542048 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6542001 TTTGGTTATC
6542011 ACATGTTCAAATATCTAACT
1 ACATGTTCAAATATCTAACT
**
6542031 ACATGTTTGAATATCTAA
1 ACATGTTCAAATATCTAA
6542049 TCCCATTGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (20 bp):
ACATGTTCAAATATCTAACT
Found at i:6544789 original size:7 final size:7
Alignment explanation
Indices: 6544755--6544787 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
6544745 TTATCTGATT
6544755 AGTGACA
1 AGTGACA
6544762 AGTGACA
1 AGTGACA
6544769 AGTGACA
1 AGTGACA
*
6544776 AGTGATA
1 AGTGACA
6544783 AGTGA
1 AGTGA
6544788 TAGCTTTAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.42, C:0.09, G:0.30, T:0.18
Consensus pattern (7 bp):
AGTGACA
Found at i:6544801 original size:58 final size:58
Alignment explanation
Indices: 6544711--6544831 Score: 206
Period size: 58 Copynumber: 2.1 Consensus size: 58
6544701 ACTTCTGATC
* * *
6544711 AGTGACAAGTGATGAGTGGTAGCTTTAGCTACACTTATCTGATTAGTGACAAGTGACA
1 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
*
6544769 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGATA
1 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
6544827 AGTGA
1 AGTGA
6544832 TAGCTTTAGC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (58 bp):
AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
Found at i:6544832 original size:44 final size:44
Alignment explanation
Indices: 6544769--6544877 Score: 191
Period size: 44 Copynumber: 2.5 Consensus size: 44
6544759 ACAAGTGACA
6544769 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
6544813 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
* * *
6544857 AGGGACAAATGACAAGTGATA
1 AGTGACAAGTGATAAGTGATA
6544878 AATATGATCC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (44 bp):
AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
Found at i:6549854 original size:13 final size:13
Alignment explanation
Indices: 6549836--6549929 Score: 91
Period size: 13 Copynumber: 7.0 Consensus size: 13
6549826 TATCCAATGT
6549836 TCTATTTCATATA
1 TCTATTTCATATA
6549849 TCTATTTCCATATA
1 TCTATTT-CATATA
*
6549863 ACTGA-TTCATATA
1 TCT-ATTTCATATA
* *
6549876 ACCATTTCATATA
1 TCTATTTCATATA
6549889 TCTATTTCCATATA
1 TCTATTT-CATATA
* * *
6549903 ACCATTTAATATA
1 TCTATTTCATATA
6549916 TCTACTTTCATATA
1 TCTA-TTTCATATA
6549930 ATCGATTCAT
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
12 1 0.02
13 35 0.53
14 29 0.44
15 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.01, T:0.46
Consensus pattern (13 bp):
TCTATTTCATATA
Found at i:6549900 original size:27 final size:26
Alignment explanation
Indices: 6549836--6549930 Score: 111
Period size: 27 Copynumber: 3.5 Consensus size: 26
6549826 TATCCAATGT
* *
6549836 TCTATTTCATATATCTATTTCCATATA
1 TCTATTTCATATAACCATTT-CATATA
*
6549863 ACTGA-TTCATATAACCATTTCATATA
1 TCT-ATTTCATATAACCATTTCATATA
*
6549889 TCTATTTCCATATAACCATTTAATATA
1 TCTATTT-CATATAACCATTTCATATA
6549916 TCTACTTTCATATAA
1 TCTA-TTTCATATAA
6549931 TCGATTCATA
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
25 1 0.02
26 10 0.17
27 44 0.75
28 4 0.07
ACGTcount: A:0.35, C:0.19, G:0.01, T:0.45
Consensus pattern (26 bp):
TCTATTTCATATAACCATTTCATATA
Found at i:6549915 original size:40 final size:40
Alignment explanation
Indices: 6549839--6549929 Score: 121
Period size: 40 Copynumber: 2.2 Consensus size: 40
6549829 CCAATGTTCT
* *
6549839 ATTTCATATATCTATTTCCATATAACTGATTCATATAACC
1 ATTTCATATATCTATTTCCATATAACTCATTAATATAACC
* *
6549879 ATTTCATATATCTATTTCCATATAAC-CATTTAATATATCT
1 ATTTCATATATCTATTTCCATATAACTCA-TTAATATAACC
6549919 ACTTTCATATA
1 A-TTTCATATA
6549930 ATCGATTCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
39 1 0.02
40 35 0.78
41 9 0.20
ACGTcount: A:0.35, C:0.19, G:0.01, T:0.45
Consensus pattern (40 bp):
ATTTCATATATCTATTTCCATATAACTCATTAATATAACC
Found at i:6555081 original size:14 final size:15
Alignment explanation
Indices: 6555064--6555092 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6555054 AAATATGTTG
6555064 GTGAAATA-ATAGAA
1 GTGAAATACATAGAA
6555078 GTGAAATACATAGAA
1 GTGAAATACATAGAA
6555093 ATTTGATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.03, G:0.21, T:0.21
Consensus pattern (15 bp):
GTGAAATACATAGAA
Found at i:6560165 original size:16 final size:16
Alignment explanation
Indices: 6560140--6560173 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6560130 TTTTCGCTTA
*
6560140 TTAATTATAAACTCAT
1 TTAATCATAAACTCAT
*
6560156 TTAATCATAAAGTCAT
1 TTAATCATAAACTCAT
6560172 TT
1 TT
6560174 CACTATAGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (16 bp):
TTAATCATAAACTCAT
Found at i:6561769 original size:8 final size:8
Alignment explanation
Indices: 6561756--6561815 Score: 50
Period size: 8 Copynumber: 6.9 Consensus size: 8
6561746 TAAAAATTGA
6561756 TATAAAAT
1 TATAAAAT
6561764 TATAAATAT
1 TATAAA-AT
*
6561773 TATAAAAA
1 TATAAAAT
6561781 TATAAAAGT
1 TATAAAA-T
6561790 CTA-ATAAAT
1 -TATA-AAAT
6561799 TATAAAAAAT
1 TAT--AAAAT
6561809 TATAAAA
1 TATAAAA
6561816 CATATTTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
8 20 0.47
9 10 0.23
10 12 0.28
11 1 0.02
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (8 bp):
TATAAAAT
Found at i:6561810 original size:10 final size:10
Alignment explanation
Indices: 6561742--6561912 Score: 60
Period size: 10 Copynumber: 17.8 Consensus size: 10
6561732 TATTAAAGTA
6561742 TATATAAAAAT
1 TATA-AAAAAT
*
6561753 TGATATAAAAT
1 T-ATAAAAAAT
*
6561764 TAT-AAATAT
1 TATAAAAAAT
6561773 TAT-AAAAA-
1 TATAAAAAAT
*
6561781 TAT--AAAAG
1 TATAAAAAAT
* *
6561789 TCTAATAAAT
1 TATAAAAAAT
6561799 TATAAAAAAT
1 TATAAAAAAT
6561809 TATAAAACATAT
1 TATAAAA-A-AT
**
6561821 T-TAAAATTT
1 TATAAAAAAT
**
6561830 TATAAAAACG
1 TATAAAAAAT
*
6561840 TAT-GAAAAT
1 TATAAAAAAT
*
6561849 TCTATAAAAAT
1 TATA-AAAAAT
*
6561860 TAT-AAAAAG
1 TATAAAAAAT
*
6561869 TAT--TAAAT
1 TATAAAAAAT
* *
6561877 TATATAAACT
1 TATAAAAAAT
6561887 TAT-AAAAA-
1 TATAAAAAAT
*
6561895 TAAAAAAAAT
1 TATAAAAAAT
*
6561905 CATAAAAA
1 TATAAAAA
6561913 CTTTAATTGA
Statistics
Matches: 117, Mismatches: 30, Indels: 27
0.67 0.17 0.16
Matches are distributed among these distances:
7 4 0.03
8 13 0.11
9 34 0.29
10 40 0.34
11 20 0.17
12 6 0.05
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.33
Consensus pattern (10 bp):
TATAAAAAAT
Found at i:6561865 original size:9 final size:9
Alignment explanation
Indices: 6561744--6561912 Score: 101
Period size: 9 Copynumber: 17.9 Consensus size: 9
6561734 TTAAAGTATA
6561744 TATAAAAAT
1 TATAAAAAT
6561753 TGATATAAAAT
1 T-ATA-AAAAT
*
6561764 TATAAATAT
1 TATAAAAAT
6561773 TATAAAAA-
1 TATAAAAAT
*
6561781 TATAAAAGT
1 TATAAAAAT
*
6561790 CTA-ATAAAT
1 -TATAAAAAT
6561799 TATAAAAAAT
1 TAT-AAAAAT
6561809 TATAAAACAT
1 TATAAAA-AT
* *
6561819 ATTTAAAATTT
1 -TATAAAA-AT
*
6561830 TATAAAAACG
1 TATAAAAA-T
*
6561840 TATGAAAATT
1 TAT-AAAAAT
6561850 CTATAAAAAT
1 -TATAAAAAT
*
6561860 TATAAAAAG
1 TATAAAAAT
*
6561869 TAT-TAAAT
1 TATAAAAAT
*
6561877 TATATAAACT
1 TATA-AAAAT
6561887 TATAAAAAT
1 TATAAAAAT
* *
6561896 AAAAAAAAT
1 TATAAAAAT
*
6561905 CATAAAAA
1 TATAAAAA
6561913 CTTTAATTGA
Statistics
Matches: 122, Mismatches: 25, Indels: 26
0.71 0.14 0.15
Matches are distributed among these distances:
8 15 0.12
9 48 0.39
10 39 0.32
11 20 0.16
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.33
Consensus pattern (9 bp):
TATAAAAAT
Found at i:6561867 original size:20 final size:19
Alignment explanation
Indices: 6561744--6561895 Score: 98
Period size: 20 Copynumber: 8.0 Consensus size: 19
6561734 TTAAAGTATA
*
6561744 TATAAAAATTGATATAAAAT
1 TATAAAAATTTATA-AAAAT
*
6561764 TATAAATA-TTATAAAAA-
1 TATAAAAATTTATAAAAAT
* * *
6561781 TATAAAAGTCTA-ATAAAT
1 TATAAAAATTTATAAAAAT
*
6561799 TATAAAAAATTATAAAACAT
1 TATAAAAATTTATAAAA-AT
* * *
6561819 ATTTAAAATTTTATAAAAACG
1 -TATAAAAATTTATAAAAA-T
*
6561840 TATGAAAATTCTATAAAAAT
1 TATAAAAATT-TATAAAAAT
* *
6561860 TATAAAAA-GTAT-TAAAT
1 TATAAAAATTTATAAAAAT
* *
6561877 TATATAAACTTATAAAAAT
1 TATAAAAATTTATAAAAAT
6561896 AAAAAAAATC
Statistics
Matches: 99, Mismatches: 24, Indels: 19
0.70 0.17 0.13
Matches are distributed among these distances:
17 21 0.21
18 21 0.21
19 11 0.11
20 24 0.24
21 22 0.22
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
TATAAAAATTTATAAAAAT
Found at i:6567133 original size:98 final size:98
Alignment explanation
Indices: 6566962--6567141 Score: 297
Period size: 98 Copynumber: 1.8 Consensus size: 98
6566952 GTGCAATAAA
* * * *
6566962 ACTTTAAAAGAACATCCACTTATCCAATATTTAAGAAATCACACCCAATGCGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTACGGCACAATT
*
6567027 CCTCTAAAATCTCAAACTCAGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
*
6567060 ACTTTAAAAGAACATTCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTACGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTACGGCACAATT
*
6567125 CCTTTAAAATCCCAAAC
66 CCTCTAAAATCCCAAAC
6567142 AATATTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 75 1.00
ACGTcount: A:0.39, C:0.25, G:0.08, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTACGGCACAATT
CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
Found at i:6573109 original size:29 final size:31
Alignment explanation
Indices: 6573058--6573119 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
6573048 AGTCTATATC
*
6573058 TTTATAATTTTTGAAGGATTAAATTA-AATT
1 TTTATAATTTTTGAAGGATTAAAGTATAATT
*
6573088 TTTATAA-TTTT-AAGAGTTTAAAGTATAATT
1 TTTATAATTTTTGAAG-GATTAAAGTATAATT
6573118 TT
1 TT
6573120 ATCTTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 3 0.11
29 12 0.43
30 13 0.46
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (31 bp):
TTTATAATTTTTGAAGGATTAAAGTATAATT
Found at i:6575764 original size:11 final size:11
Alignment explanation
Indices: 6575748--6575788 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
6575738 ATATAACTTT
6575748 ATATATTTTTA
1 ATATATTTTTA
6575759 ATATATTTTT-
1 ATATATTTTTA
6575769 A-ATATTTTTA
1 ATATATTTTTA
6575779 ATAT-TTTTTA
1 ATATATTTTTA
6575789 TTTTTCATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 8 0.29
10 8 0.29
11 12 0.43
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
ATATATTTTTA
Found at i:6575785 original size:8 final size:9
Alignment explanation
Indices: 6575745--6575815 Score: 58
Period size: 9 Copynumber: 7.7 Consensus size: 9
6575735 TAAATATAAC
6575745 TTTATATATT
1 TTTA-ATATT
6575755 TTTAATATATT
1 TTT-A-ATATT
6575766 TTTAATATT
1 TTTAATATT
6575775 TTTAATATT
1 TTTAATATT
6575784 TTT--TATT
1 TTTAATATT
* *
6575791 TTTCATA-A
1 TTTAATATT
6575799 TTTATATAATT
1 TTTA-AT-ATT
6575810 TTTAAT
1 TTTAAT
6575816 TTCATATTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
7 7 0.13
8 3 0.06
9 21 0.40
10 7 0.13
11 14 0.27
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (9 bp):
TTTAATATT
Found at i:6575790 original size:25 final size:25
Alignment explanation
Indices: 6575762--6575842 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
6575752 ATTTTTAATA
* *
6575762 TATTTTTAATATTTTTAATATTTTT
1 TATTTTTCATATTTTTAATAATTTT
*
6575787 TATTTTTCATA-ATTTATATAATTTT
1 TATTTTTCATATTTTTA-ATAATTTT
* * * *
6575812 TA-ATTTCATATTTTTATTACTTTG
1 TATTTTTCATATTTTTAATAATTTT
6575836 TATTTTT
1 TATTTTT
6575843 TCTAGGATGA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
24 18 0.41
25 26 0.59
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (25 bp):
TATTTTTCATATTTTTAATAATTTT
Found at i:6577606 original size:21 final size:21
Alignment explanation
Indices: 6577580--6577620 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6577570 AATAATGAAA
*
6577580 ATAAAAAAATTAAATTAATAC
1 ATAAAAAAATTAAACTAATAC
**
6577601 ATAAAACTATTAAACTAATA
1 ATAAAAAAATTAAACTAATA
6577621 TACAAATTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (21 bp):
ATAAAAAAATTAAACTAATAC
Found at i:6583439 original size:21 final size:21
Alignment explanation
Indices: 6583406--6583445 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6583396 TAATTACATA
6583406 TTTAAAATAATTATAATTTAG
1 TTTAAAATAATTATAATTTAG
* * *
6583427 TTTATAATTATTATTATTT
1 TTTAAAATAATTATAATTT
6583446 TTAAAGTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTAAAATAATTATAATTTAG
Found at i:6584552 original size:16 final size:16
Alignment explanation
Indices: 6584531--6584566 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
6584521 TTTGGTTCGC
6584531 TGTATTAGATTAGAGG
1 TGTATTAGATTAGAGG
*
6584547 TGTATTGGATTAGAGG
1 TGTATTAGATTAGAGG
6584563 TGTA
1 TGTA
6584567 ATAGCTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (16 bp):
TGTATTAGATTAGAGG
Found at i:6584780 original size:16 final size:16
Alignment explanation
Indices: 6584743--6584797 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
6584733 TTAATCATAT
*
6584743 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
6584759 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
6584774 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
6584792 -TAAAAT
1 TTAAAAT
6584798 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:6584790 original size:18 final size:18
Alignment explanation
Indices: 6584749--6584797 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
6584739 ATATTTAAAC
6584749 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
6584767 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
6584783 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
6584798 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:6584934 original size:156 final size:156
Alignment explanation
Indices: 6584650--6585120 Score: 807
Period size: 156 Copynumber: 3.0 Consensus size: 156
6584640 TAGAATACCC
*
6584650 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
6584715 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
6584780 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
6584806 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
6584871 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
6584936 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
* *
6584962 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * * * ****
6585027 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATACATTATAATTTTGG
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
6585092 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTT-ATAA
6585119 TT
1 TT
6585121 CATATTCTTA
Statistics
Matches: 299, Mismatches: 15, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
156 293 0.98
157 6 0.02
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:6584940 original size:18 final size:17
Alignment explanation
Indices: 6584919--6584953 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6584909 TTATTATTAA
*
6584919 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6584937 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6584954 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6589363 original size:15 final size:16
Alignment explanation
Indices: 6589343--6589381 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
6589333 AGAGTTAGAG
6589343 GTTTTCTA-AACCTAA
1 GTTTTCTATAACCTAA
6589358 GTTTTCTATAACCTAA
1 GTTTTCTATAACCTAA
6589374 GTTTTCTA
1 GTTTTCTA
6589382 GAGTTCCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.28, C:0.18, G:0.08, T:0.46
Consensus pattern (16 bp):
GTTTTCTATAACCTAA
Found at i:6595165 original size:30 final size:31
Alignment explanation
Indices: 6595124--6595189 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
6595114 AAATGAAAAC
** *
6595124 AAAAATGAAAAATTTA-TTTTAAAAATATTT
1 AAAAATGAAAAAAGTATTTTTAAAAAAATTT
* *
6595154 TAAAATTAAAAAAGTATTTTTAAAAAAATTT
1 AAAAATGAAAAAAGTATTTTTAAAAAAATTT
6595185 AAAAA
1 AAAAA
6595190 AATTTTAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
30 12 0.41
31 17 0.59
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (31 bp):
AAAAATGAAAAAAGTATTTTTAAAAAAATTT
Found at i:6595187 original size:10 final size:10
Alignment explanation
Indices: 6595172--6595218 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
6595162 AAAAAGTATT
6595172 TTTAAAAAAA
1 TTTAAAAAAA
6595182 TTTAAAAAAA
1 TTTAAAAAAA
*
6595192 TTT--TAAAA
1 TTTAAAAAAA
6595200 -TTAAAAAAA
1 TTTAAAAAAA
6595209 TTTAAAAAAA
1 TTTAAAAAAA
6595219 GTATTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 2 0.06
8 4 0.12
9 4 0.12
10 22 0.69
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
TTTAAAAAAA
Found at i:6595216 original size:17 final size:18
Alignment explanation
Indices: 6595177--6595216 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
6595167 GTATTTTTAA
6595177 AAAAATTTAAAAAAATTT
1 AAAAATTTAAAAAAATTT
*
6595195 TAAAA-TTAAAAAAATTT
1 AAAAATTTAAAAAAATTT
6595212 AAAAA
1 AAAAA
6595217 AAGTATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAATTTAAAAAAATTT
Found at i:6595227 original size:41 final size:42
Alignment explanation
Indices: 6595138--6595248 Score: 131
Period size: 41 Copynumber: 2.7 Consensus size: 42
6595128 ATGAAAAATT
*
6595138 TATTTTAAAAATATTTTAAAATTAAAAAAGTATTTTTAAAAAA
1 TATTTTAAAAATATTTTAAAATTAAAAAAG-ATTTTAAAAAAA
*
6595181 -A-TTTAAAAAAATTTTAAAATTAAAAAA-A-TTTAAAAAAA
1 TATTTTAAAAATATTTTAAAATTAAAAAAGATTTTAAAAAAA
* * *
6595219 GTATTTTAAAAGTCTTTTAAAAATAAAAAA
1 -TATTTTAAAAATATTTTAAAATTAAAAAA
6595249 TAAAAATATT
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
38 9 0.15
39 1 0.02
40 1 0.02
41 47 0.80
42 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (42 bp):
TATTTTAAAAATATTTTAAAATTAAAAAAGATTTTAAAAAAA
Found at i:6597425 original size:13 final size:13
Alignment explanation
Indices: 6597407--6597432 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6597397 AGGATGAATC
6597407 AAATGAAAATAAA
1 AAATGAAAATAAA
6597420 AAATGAAAATAAA
1 AAATGAAAATAAA
6597433 TGAATAGAAA
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:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
AAATGAAAATAAA
Found at i:6604160 original size:14 final size:14
Alignment explanation
Indices: 6604096--6604161 Score: 51
Period size: 15 Copynumber: 4.5 Consensus size: 14
6604086 ATATTATATT
*
6604096 TTTTAAAATTTTCA
1 TTTTAAAATTTTTA
*
6604110 TTTATAAAATTTATA
1 TTT-TAAAATTTTTA
** * *
6604125 TGATAACATTTTATTT
1 TTTTAA-AATTT-TTA
6604141 TTTTAAAATTTTTA
1 TTTTAAAATTTTTA
6604155 TTTTAAA
1 TTTTAAA
6604162 TTTAATTATA
Statistics
Matches: 38, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
14 15 0.39
15 18 0.47
16 5 0.13
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (14 bp):
TTTTAAAATTTTTA
Found at i:6606788 original size:3 final size:3
Alignment explanation
Indices: 6606780--6606805 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6606770 AAGGGGCAAG
6606780 CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CA
6606806 GTTAATAACA
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:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:6611366 original size:2 final size:2
Alignment explanation
Indices: 6611359--6611385 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6611349 AAACTTTCCA
6611359 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
6611386 ATATATATAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6617130 original size:77 final size:77
Alignment explanation
Indices: 6617011--6617162 Score: 277
Period size: 77 Copynumber: 2.0 Consensus size: 77
6617001 TCTTAAAGTT
*
6617011 TTATCTCAATAAAATTTTATACATTTCAAGTTTAAAGATTAAAATATATCTAATTGTCAAGTTCA
1 TTATCTCAATAAAATTTTATACATTTCAAGTTCAAAGATTAAAATATATCTAATTGTCAAGTTCA
6617076 ATTATTAAAGAG
66 ATTATTAAAGAG
* *
6617088 TTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGTCAAGTTCA
1 TTATCTCAATAAAATTTTATACATTTCAAGTTCAAAGATTAAAATATATCTAATTGTCAAGTTCA
6617153 ATTATTAAAG
66 ATTATTAAAG
6617163 TGGACAAAAA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.41
Consensus pattern (77 bp):
TTATCTCAATAAAATTTTATACATTTCAAGTTCAAAGATTAAAATATATCTAATTGTCAAGTTCA
ATTATTAAAGAG
Found at i:6617538 original size:24 final size:24
Alignment explanation
Indices: 6617511--6617588 Score: 58
Period size: 26 Copynumber: 3.3 Consensus size: 24
6617501 TATATATTTT
6617511 TTATTAAATTATATTTAATAATAA
1 TTATTAAATTATATTTAATAATAA
* *
6617535 TTATTTTAAATTAT-TATTAA-ATTAT
1 TTA--TTAAATTATAT-TTAATAATAA
* *
6617560 TTATT-ATTTATA-TTAATAAT-C
1 TTATTAAATTATATTTAATAATAA
6617581 TTATTAAA
1 TTATTAAA
6617589 ATTTAATAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
21 9 0.21
22 8 0.19
23 2 0.05
24 3 0.07
25 7 0.17
26 13 0.31
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (24 bp):
TTATTAAATTATATTTAATAATAA
Found at i:6617552 original size:56 final size:57
Alignment explanation
Indices: 6617443--6617575 Score: 155
Period size: 56 Copynumber: 2.3 Consensus size: 57
6617433 TATATTATTA
* *
6617443 TATATTATGATTTTAGTAAATTAATATAAGAATAATTATATTAAGAATTTTATTAAAT
1 TATA-TATTATTTTATTAAATTAATATAAGAATAATTATATTAAGAATTTTATTAAAT
* * *
6617501 TATATATT-TTTTATTAAATTATATTTAATAATAATTAT-TTTA-AATTATTATTAAAT
1 TATATATTATTTTATTAAATTA-ATATAAGAATAATTATATTAAGAATT-TTATTAAAT
*
6617557 TATTTATTATTTATATTAA
1 TATATATTATTT-TATTAA
6617576 TAATCTTATT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
55 4 0.06
56 31 0.48
57 20 0.31
58 10 0.15
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (57 bp):
TATATATTATTTTATTAAATTAATATAAGAATAATTATATTAAGAATTTTATTAAAT
Found at i:6617560 original size:11 final size:11
Alignment explanation
Indices: 6617533--6617565 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
6617523 ATTTAATAAT
6617533 AATTATT-TTA
1 AATTATTATTA
6617543 AATTATTATTA
1 AATTATTATTA
6617554 AATTATTTATTA
1 AATTA-TTATTA
6617566 TTTATATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 8 0.38
12 6 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
AATTATTATTA
Found at i:6617783 original size:16 final size:15
Alignment explanation
Indices: 6617764--6617809 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 15
6617754 GCTATTACAC
6617764 CTCTATTCCATTACG
1 CTCTATTCCATTACG
6617779 TCTCTATTCCATTACG
1 -CTCTATTCCATTACG
6617795 CTTCTATTCCATTAC
1 C-TCTATTCCATTAC
6617810 AGCGAACCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 1 0.03
16 28 0.97
ACGTcount: A:0.20, C:0.33, G:0.04, T:0.43
Consensus pattern (15 bp):
CTCTATTCCATTACG
Found at i:6623620 original size:30 final size:30
Alignment explanation
Indices: 6623581--6623650 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
6623571 TTTTTTATTC
6623581 AAATAATATTAAAAA-ATAATTAATTACGAAA
1 AAAT-ATATTAAAAACAT-ATTAATTACGAAA
*
6623612 AAATATATTAAAAACATATTAATTATGAAA
1 AAATATATTAAAAACATATTAATTACGAAA
*
6623642 ATATATATT
1 AAATATATT
6623651 TATTATAGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 30 0.83
31 6 0.17
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (30 bp):
AAATATATTAAAAACATATTAATTACGAAA
Found at i:6624403 original size:25 final size:24
Alignment explanation
Indices: 6624375--6624430 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
6624365 ATAAAAAATA
6624375 TTTATTTTCGTAATTAATCTATTTT
1 TTTATTTTCGTAATTAAT-TATTTT
**
6624400 TTTATATTTTTTAATTAATTATTTT
1 TTTAT-TTTCGTAATTAATTATTTT
*
6624425 TGTATT
1 TTTATT
6624431 ATTTAGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 15 0.56
26 11 0.41
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (24 bp):
TTTATTTTCGTAATTAATTATTTT
Found at i:6624416 original size:26 final size:26
Alignment explanation
Indices: 6624376--6624434 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
6624366 TAAAAAATAT
* *
6624376 TTATTTTCGTAATTAATCTATTTTTTTA
1 TTATTTT-TTAATTAAT-TATTTTTGTA
6624404 -TATTTTTTAATTAATTATTTTTGTA
1 TTATTTTTTAATTAATTATTTTTGTA
6624429 TTATTT
1 TTATTT
6624435 AGATAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 9 0.32
26 13 0.46
27 6 0.21
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.68
Consensus pattern (26 bp):
TTATTTTTTAATTAATTATTTTTGTA
Found at i:6630720 original size:24 final size:25
Alignment explanation
Indices: 6630672--6630721 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
6630662 ATAAAATAAT
* * *
6630672 ATAAACTAATCAGAGTTTGATTGAA
1 ATAAACTAAACAGAGTTTAACTGAA
6630697 ATAAA-TAAACAGAGTTTAACTGAA
1 ATAAACTAAACAGAGTTTAACTGAA
6630721 A
1 A
6630722 AATTATTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.50, C:0.08, G:0.14, T:0.28
Consensus pattern (25 bp):
ATAAACTAAACAGAGTTTAACTGAA
Found at i:6631593 original size:12 final size:12
Alignment explanation
Indices: 6631576--6631602 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6631566 AAAAACCCCA
6631576 CATCACCATCAT
1 CATCACCATCAT
6631588 CATCACCATCAT
1 CATCACCATCAT
6631600 CAT
1 CAT
6631603 GAAGGCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.41, G:0.00, T:0.26
Consensus pattern (12 bp):
CATCACCATCAT
Found at i:6635994 original size:16 final size:15
Alignment explanation
Indices: 6635978--6636007 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
6635968 AACAAAAAGA
6635978 AATAGAAAGAAACAG
1 AATAGAAAGAAACAG
6635993 AATAGAAACGAAACA
1 AATAGAAA-GAAACA
6636008 AGGAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.67, C:0.10, G:0.17, T:0.07
Consensus pattern (15 bp):
AATAGAAAGAAACAG
Found at i:6635998 original size:15 final size:16
Alignment explanation
Indices: 6635965--6636007 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
6635955 TATATATAAA
*
6635965 AGAAAC-AAAAAGAAAT
1 AGAAACGAAACAG-AAT
6635981 AGAAA-GAAACAGAAT
1 AGAAACGAAACAGAAT
6635996 AGAAACGAAACA
1 AGAAACGAAACA
6636008 AGGAGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.70, C:0.09, G:0.16, T:0.05
Consensus pattern (16 bp):
AGAAACGAAACAGAAT
Found at i:6636025 original size:26 final size:25
Alignment explanation
Indices: 6635982--6636048 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 25
6635972 AAAAGAAATA
*
6635982 GAAAGAAACAGAATAGAAACGAAACAAGG
1 GAAAGAAA-A-AA-AGAAAAGAAA-AAGG
6636011 AGAAA-AAAAAAAGAAAAGAAAAAGG
1 -GAAAGAAAAAAAGAAAAGAAAAAGG
*
6636036 GAAAGAAAGAAAG
1 GAAAGAAAAAAAG
6636049 GAGAAATTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
24 4 0.12
25 11 0.32
26 9 0.26
27 2 0.06
28 1 0.03
29 3 0.09
30 4 0.12
ACGTcount: A:0.70, C:0.04, G:0.24, T:0.01
Consensus pattern (25 bp):
GAAAGAAAAAAAGAAAAGAAAAAGG
Found at i:6639666 original size:58 final size:58
Alignment explanation
Indices: 6639599--6639716 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
6639589 TCATAATAAC
6639599 ATAACTACCCAAAATGGATTGTCGTATCTTTAGCAATAAACATAATTATTCAATAGAT
1 ATAACTACCCAAAATGGATTGTCGTATCTTTAGCAATAAACATAATTATTCAATAGAT
6639657 ATAACTACCCAAAATGGATTGTCGTATCTTTAGCAATAAACATAATTATTCAATAGAT
1 ATAACTACCCAAAATGGATTGTCGTATCTTTAGCAATAAACATAATTATTCAATAGAT
6639715 AT
1 AT
6639717 CTACTTGAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (58 bp):
ATAACTACCCAAAATGGATTGTCGTATCTTTAGCAATAAACATAATTATTCAATAGAT
Found at i:6644792 original size:20 final size:20
Alignment explanation
Indices: 6644747--6644806 Score: 54
Period size: 19 Copynumber: 3.0 Consensus size: 20
6644737 CAAAAATTAC
*
6644747 AAAACAATTCAAACTAATTT-T
1 AAAA-AATTCAAAAT-ATTTAT
*
6644768 CAAAAATTCAAAATATTTAT
1 AAAAAATTCAAAATATTTAT
*
6644788 -AAAAATTCCAAAT-TTTAT
1 AAAAAATTCAAAATATTTAT
6644806 A
1 A
6644807 TTATTTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.15
19 16 0.47
20 10 0.29
21 3 0.09
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAAATTCAAAATATTTAT
Found at i:6644804 original size:18 final size:19
Alignment explanation
Indices: 6644769--6644806 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
6644759 ACTAATTTTC
6644769 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
6644788 AAAAATTCCAAAT-TTTAT
1 AAAAATTCAAAATATTTAT
6644806 A
1 A
6644807 TTATTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:6644844 original size:11 final size:10
Alignment explanation
Indices: 6644829--6644876 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
6644819 TTGTAAAATT
6644829 TTAAAAAAAA
1 TTAAAAAAAA
*
6644839 TCTAAAAAATA
1 T-TAAAAAAAA
* *
6644850 TATAAAGAAAG
1 T-TAAAAAAAA
6644861 TTAAAAAAAA
1 TTAAAAAAAA
6644871 TTAAAA
1 TTAAAA
6644877 TTTTCTAGAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
10 14 0.47
11 16 0.53
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (10 bp):
TTAAAAAAAA
Found at i:6651561 original size:12 final size:12
Alignment explanation
Indices: 6651531--6651573 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
6651521 TTATATTTAT
6651531 TTAATATTCATA
1 TTAATATTCATA
*
6651543 TTCATATTCATA
1 TTAATATTCATA
* *
6651555 TAAATATTAATA
1 TTAATATTCATA
6651567 TTAATAT
1 TTAATAT
6651574 AAAATTTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (12 bp):
TTAATATTCATA
Found at i:6651582 original size:18 final size:18
Alignment explanation
Indices: 6651540--6651576 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6651530 TTTAATATTC
* *
6651540 ATATTCATATTCATATAA
1 ATATTAATATTAATATAA
6651558 ATATTAATATTAATATAA
1 ATATTAATATTAATATAA
6651576 A
1 A
6651577 ATTTAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATTAATATTAATATAA
Found at i:6655756 original size:30 final size:30
Alignment explanation
Indices: 6655691--6655747 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
6655681 CAAACGAAAT
6655691 AAAAG-AATAGA-AAAGAGAAGAAGAACAG
1 AAAAGAAATAGAGAAAGAGAAGAAGAACAG
*
6655719 AAAAGAAATAGAGAAAGAGACGAA-AACAG
1 AAAAGAAATAGAGAAAGAGAAGAAGAACAG
6655748 GGGAAGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 5 0.19
29 11 0.42
30 10 0.38
ACGTcount: A:0.67, C:0.05, G:0.25, T:0.04
Consensus pattern (30 bp):
AAAAGAAATAGAGAAAGAGAAGAAGAACAG
Found at i:6659168 original size:19 final size:19
Alignment explanation
Indices: 6659135--6659179 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
6659125 TTTTCTTCCC
6659135 CTGTT-TTCGTCTCTTTCT
1 CTGTTCTTCGTCTCTTTCT
* *
6659153 CTGTTCTTCTTCTCTTTTT
1 CTGTTCTTCGTCTCTTTCT
*
6659172 CTATTCTT
1 CTGTTCTT
6659180 TTATTTCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.02, C:0.27, G:0.07, T:0.64
Consensus pattern (19 bp):
CTGTTCTTCGTCTCTTTCT
Found at i:6659843 original size:274 final size:277
Alignment explanation
Indices: 6659355--6659908 Score: 943
Period size: 274 Copynumber: 2.0 Consensus size: 277
6659345 AAAATCTTAG
* * *
6659355 ATTTTTATGCTTATGTCGCCTTAAATTTGGCAATTGGCATAATTGCCCATTTGACCCCTATTATT
1 ATTTTTATACTTATGCCGCCTCAAATTTGGCAATTGGCATAATTGCCCATTTGACCCCTATTATT
6659420 TTCCTTTAATCTATAATTAAACTTTCACTTCTATTATAATTTAATCCTTTTTACTAATTACTCTT
66 TTCCTTTAATCTATAATTAAACTTTCACTTCTATTATAATTTAATCCTTTTTAC--A-TACTCTT
6659485 AATTAGACTAAATTCACCTAATTAATACCTATTTAAGCACCAAACTAAATTCATAATTACTTCTA
128 AATTAGACTAAATTCACCTAATTAATACCTATTTAAGCACCAAACTAAATTCATAATTACTTCTA
*
6659550 ATAATTATTTTTAAACTCAATTTACTAAGACAGAGGCCCAATATTATACTTTTCCGATGCCCGTG
193 ATAATTATTTTTAAACTCAATTTACTAAAACAGAGGCCCAATATTATACTTTTCCGATGCCCGTG
6659615 AATTTTGGGTCATTACATTT
258 AATTTTGGGTCATTACATTT
* *
6659635 ATTTTTATACTTATGCCGCCTCAATTTTGGTAATTGGCATAATTGCCCATTTGACCCCTATTATT
1 ATTTTTATACTTATGCCGCCTCAAATTTGGCAATTGGCATAATTGCCCATTTGACCCCTATTATT
6659700 TTCCTTTAATCTATAATTAAACTTTCACTTCTATTATAATTTAATCCTTTTTAC-T-CT-TTAAT
66 TTCCTTTAATCTATAATTAAACTTTCACTTCTATTATAATTTAATCCTTTTTACATACTCTTAAT
* *
6659762 TAGACTAAATTCACCTAGTTAATACCTATTTATGCACCAAACTAAATTCATAATTACTTCTAATA
131 TAGACTAAATTCACCTAATTAATACCTATTTAAGCACCAAACTAAATTCATAATTACTTCTAATA
* * * **
6659827 ATTATTTTTGAACTCAATTTACTAAAACGGAGGCCCGATATTATACTTTTTTGATGCCCGTGAAT
196 ATTATTTTTAAACTCAATTTACTAAAACAGAGGCCCAATATTATACTTTTCCGATGCCCGTGAAT
6659892 TTTGGGTCATTACATTT
261 TTTGGGTCATTACATTT
6659909 TAATTTCCAA
Statistics
Matches: 261, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
274 144 0.55
275 2 0.01
276 1 0.00
280 114 0.44
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (277 bp):
ATTTTTATACTTATGCCGCCTCAAATTTGGCAATTGGCATAATTGCCCATTTGACCCCTATTATT
TTCCTTTAATCTATAATTAAACTTTCACTTCTATTATAATTTAATCCTTTTTACATACTCTTAAT
TAGACTAAATTCACCTAATTAATACCTATTTAAGCACCAAACTAAATTCATAATTACTTCTAATA
ATTATTTTTAAACTCAATTTACTAAAACAGAGGCCCAATATTATACTTTTCCGATGCCCGTGAAT
TTTGGGTCATTACATTT
Found at i:6660078 original size:46 final size:46
Alignment explanation
Indices: 6660018--6660126 Score: 173
Period size: 46 Copynumber: 2.4 Consensus size: 46
6660008 TGATTTGGAC
* *
6660018 AAAAATGGACAGCATTTAAAAAACATTCGGACAGCATAGTATCCTT
1 AAAAATGGACAGCATTTAAAAAACATTCGGACAGCATAATATCCTA
* *
6660064 AAAAATGGACAGCATTTAAACAACATTCGGACAGCATAATATGCTA
1 AAAAATGGACAGCATTTAAAAAACATTCGGACAGCATAATATCCTA
*
6660110 AAAAATGGATAGCATTT
1 AAAAATGGACAGCATTT
6660127 TGTTATCACA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 58 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.24
Consensus pattern (46 bp):
AAAAATGGACAGCATTTAAAAAACATTCGGACAGCATAATATCCTA
Found at i:6660098 original size:22 final size:22
Alignment explanation
Indices: 6660024--6660100 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
6660014 GGACAAAAAT
*
6660024 GGACAGCATTTAAAAAACATTC
1 GGACAGCATTTAAACAACATTC
* ** * *
6660046 GGACAGCATAGTATCCTTAAAAAT-
1 GGACAGCAT-TTAAAC--AACATTC
6660070 GGACAGCATTTAAACAACATTC
1 GGACAGCATTTAAACAACATTC
6660092 GGACAGCAT
1 GGACAGCAT
6660101 AATATGCTAA
Statistics
Matches: 40, Mismatches: 11, Indels: 8
0.68 0.19 0.14
Matches are distributed among these distances:
21 4 0.10
22 18 0.45
23 5 0.12
24 9 0.22
25 4 0.10
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (22 bp):
GGACAGCATTTAAACAACATTC
Found at i:6663197 original size:8 final size:8
Alignment explanation
Indices: 6663184--6663211 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
6663174 CTTGACACAT
6663184 AATTATTA
1 AATTATTA
6663192 AATTATTA
1 AATTATTA
6663200 AATTATTA
1 AATTATTA
6663208 AATT
1 AATT
6663212 TTCAAGCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
AATTATTA
Found at i:6667449 original size:44 final size:43
Alignment explanation
Indices: 6667375--6667467 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 43
6667365 CAGAGGATTC
* *
6667375 CGATATGAGATTTTCTGTAAGACCACGTCTGGGACATTGGCAT
1 CGATATGAGACTTTCTGTAAGACCACGTCTGGGACAGTGGCAT
* *
6667418 CGATTTGAGACTTTCGTGTAAGATCC-TGTCTGGGACAGTGGCAT
1 CGATATGAGACTTTC-TGTAAGA-CCACGTCTGGGACAGTGGCAT
6667462 CGATAT
1 CGATAT
6667468 TTGATTACGT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 13 0.30
44 28 0.65
45 2 0.05
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
CGATATGAGACTTTCTGTAAGACCACGTCTGGGACAGTGGCAT
Done.