Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 188 of 204
Found at i:55848002 original size:82 final size:82
Alignment explanation
Indices: 55847916--55848102 Score: 338
Period size: 82 Copynumber: 2.3 Consensus size: 82
55847906 ATAAGTATAG
* *
55847916 CACTTATCACTTTTTCACTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTATCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
55847981 AGTGTAGCTAAAGCTAC
66 AGTGTAGCTAAAGCTAC
* *
55847998 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTATCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
55848063 AGTGTAGCTAAAGCTAC
66 AGTGTAGCTAAAGCTAC
55848080 CACTTATCACTTTATCTCTTGAT
1 CACTTATCACTTTATCTCTTGAT
55848103 TAGAAGTACT
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 101 1.00
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.38
Consensus pattern (82 bp):
CACTTATCACTTTATCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
AGTGTAGCTAAAGCTAC
Found at i:55848010 original size:118 final size:118
Alignment explanation
Indices: 55847834--55848070 Score: 420
Period size: 118 Copynumber: 2.0 Consensus size: 118
55847824 GCTAGGCTAC
*
55847834 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
55847899 TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
66 TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
* * *
55847952 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
* *
55848017 TGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
55848070 C
1 C
55848071 TAAAGCTACC
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 113 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.36
Consensus pattern (118 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:55851513 original size:23 final size:24
Alignment explanation
Indices: 55851487--55851536 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
55851477 CCGTTACTTG
*
55851487 TTAAGCTC-AATGAGTTTCATGTT
1 TTAAACTCTAATGAGTTTCATGTT
* *
55851510 TTAAACTCTTATGAGTTTCCTGTT
1 TTAAACTCTAATGAGTTTCATGTT
55851534 TTA
1 TTA
55851537 GCCCGGATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (24 bp):
TTAAACTCTAATGAGTTTCATGTT
Found at i:55860016 original size:17 final size:17
Alignment explanation
Indices: 55859994--55860111 Score: 54
Period size: 17 Copynumber: 7.1 Consensus size: 17
55859984 ATATTACTTT
55859994 AATAATATAAATATTAA
1 AATAATATAAATATTAA
*
55860011 AATAATATTAAGATGACT-A
1 AATAATA-TAA-AT-ATTAA
* *
55860030 TATAA-A-AAATTTTAA
1 AATAATATAAATATTAA
* *
55860045 TA-AATATAAAATGTGTAA
1 AATAATAT-AAATAT-TAA
*
55860063 AATTAT-TAAATATTAA
1 AATAATATAAATATTAA
*
55860079 AATAAGATAAA-A-TAA
1 AATAATATAAATATTAA
**
55860094 AATAA-ATATTTATTAA
1 AATAATATAAATATTAA
55860110 AA
1 AA
55860112 AATTTAAAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 25
0.68 0.11 0.22
Matches are distributed among these distances:
14 6 0.08
15 15 0.19
16 15 0.19
17 21 0.27
18 9 0.12
19 9 0.12
20 2 0.03
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (17 bp):
AATAATATAAATATTAA
Found at i:55862145 original size:31 final size:29
Alignment explanation
Indices: 55862103--55862174 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
55862093 AAATATTAAA
*
55862103 ATTATATATGAACTTTCG-TTTAATGTACAAT
1 ATTATACATGAA-TTTCGATTT--TGTACAAT
* *
55862134 ATTATACATGAATTTTGATTTTGTGCAAT
1 ATTATACATGAATTTCGATTTTGTACAAT
*
55862163 TTTATACATGAA
1 ATTATACATGAA
55862175 ATTTTAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 18 0.50
30 4 0.11
31 14 0.39
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.46
Consensus pattern (29 bp):
ATTATACATGAATTTCGATTTTGTACAAT
Found at i:55862185 original size:29 final size:30
Alignment explanation
Indices: 55862130--55862196 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
55862120 GTTTAATGTA
* *
55862130 CAATATTATACATGAATTTTGATTTTG-TG
1 CAATTTTATACATGAATTTTGAATTTGATG
*
55862159 CAATTTTATACATGAAATTTT-AATTTGATT
1 CAATTTTATACATG-AATTTTGAATTTGATG
55862189 CAATTTTA
1 CAATTTTA
55862197 ACAAACCGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 18 0.55
30 15 0.45
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.49
Consensus pattern (30 bp):
CAATTTTATACATGAATTTTGAATTTGATG
Found at i:55866006 original size:31 final size:31
Alignment explanation
Indices: 55865963--55866023 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
55865953 TTGCAAGATC
*
55865963 AACGGCTCTGATATCCTT-GTGATGGACATCT
1 AACGGCTCTGATAT-CTTCATGATGGACATCT
*
55865994 AACGGCTTTGATATCTTCATGATGGACATC
1 AACGGCTCTGATATCTTCATGATGGACATC
55866024 ACACGGGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (31 bp):
AACGGCTCTGATATCTTCATGATGGACATCT
Found at i:55869091 original size:3 final size:3
Alignment explanation
Indices: 55869079--55869109 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
55869069 AGATCTACAA
55869079 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
55869110 CAAACTCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:55882032 original size:30 final size:31
Alignment explanation
Indices: 55881998--55882056 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
55881988 AGAAGAACTT
55881998 AATAGCCCAGTGATTTAAAT-AAAACTTTTG
1 AATAGCCCAGTGATTTAAATAAAAACTTTTG
**
55882028 AATAGTTCAGTGATTTAAATAAAAACTTT
1 AATAGCCCAGTGATTTAAATAAAAACTTT
55882057 CAAATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (31 bp):
AATAGCCCAGTGATTTAAATAAAAACTTTTG
Found at i:55886695 original size:17 final size:17
Alignment explanation
Indices: 55886669--55886702 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
55886659 CAAAGTTTGA
* *
55886669 ATTATTATTTGTATTCC
1 ATTATAATTTATATTCC
55886686 ATTATAATTTATATTCC
1 ATTATAATTTATATTCC
55886703 CAATTTTTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTATAATTTATATTCC
Found at i:55889321 original size:31 final size:29
Alignment explanation
Indices: 55889252--55889325 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
55889242 ACAAAATAAT
**
55889252 AACATAAGTGACTAAAATGTAACATTTCA
1 AACATAAGTGACTAAAATGTAACATGGCA
*
55889281 AACATAAGTGACTAAAATGTAACCTGAGGCA
1 AACATAAGTGACTAAAATGTAACAT--GGCA
*
55889312 AACAAAAGTGACTA
1 AACATAAGTGACTA
55889326 TTTTTGTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.22
Consensus pattern (29 bp):
AACATAAGTGACTAAAATGTAACATGGCA
Found at i:55891657 original size:16 final size:16
Alignment explanation
Indices: 55891638--55891679 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
55891628 GTTTGAGTTG
55891638 TTTCAAGTTCAGATCA
1 TTTCAAGTTCAGATCA
* *
55891654 TTTCAAATTCAGGTCA
1 TTTCAAGTTCAGATCA
*
55891670 TTCCAAGTTC
1 TTTCAAGTTC
55891680 GGGTATGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (16 bp):
TTTCAAGTTCAGATCA
Found at i:55893716 original size:18 final size:20
Alignment explanation
Indices: 55893679--55893719 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
55893669 AAATACTAAC
55893679 AAAAGCTAAAAATTTAATTTA
1 AAAAGCTAAAAA-TTAATTTA
55893700 AAAAG-TAAAAA-TAATTTA
1 AAAAGCTAAAAATTAATTTA
55893718 AA
1 AA
55893720 TTTCAACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.45
20 6 0.30
21 5 0.25
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAAGCTAAAAATTAATTTA
Found at i:55895076 original size:15 final size:17
Alignment explanation
Indices: 55895058--55895089 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
55895048 AATTTTACCA
55895058 TTTATAA-TT-TAAAAT
1 TTTATAAGTTATAAAAT
55895073 TTTATAAGTTATAAAAT
1 TTTATAAGTTATAAAAT
55895090 GCCTAAATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTATAAGTTATAAAAT
Found at i:55896366 original size:40 final size:40
Alignment explanation
Indices: 55896311--55896445 Score: 152
Period size: 40 Copynumber: 3.4 Consensus size: 40
55896301 ACCAGTTTGG
* *
55896311 CACCCGGTGTCTCATCGGATAATTCGAAGTAATAAATTGA
1 CACCCAGTGTCTCATCGGATAATCCGAAGTAATAAATTGA
* * * *
55896351 CACCCAATGTCTCATCGGTTAAACCGAAG---TAAATTGG
1 CACCCAGTGTCTCATCGGATAATCCGAAGTAATAAATTGA
*
55896388 CACCCAGTG-CATCATCGAATTAATCCGAAGTAATAAATTGA
1 CACCCAGTGTC-TCATCGGA-TAATCCGAAGTAATAAATTGA
*
55896429 CACCTAGTGTCTCATCG
1 CACCCAGTGTCTCATCG
55896446 ACTCGAAGTC
Statistics
Matches: 77, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
36 1 0.01
37 21 0.27
38 9 0.12
40 24 0.31
41 21 0.27
42 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (40 bp):
CACCCAGTGTCTCATCGGATAATCCGAAGTAATAAATTGA
Found at i:55896647 original size:24 final size:24
Alignment explanation
Indices: 55896602--55896648 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
55896592 TATATATACC
55896602 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
55896626 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
55896649 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:55896996 original size:18 final size:19
Alignment explanation
Indices: 55896970--55897005 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
55896960 TAAACTAAAT
*
55896970 TTAACTCCCT-AATTTCAC
1 TTAAATCCCTAAATTTCAC
55896988 TTAAATCCCTAAATTTCA
1 TTAAATCCCTAAATTTCA
55897006 ATTTTTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAATCCCTAAATTTCAC
Found at i:55898989 original size:13 final size:13
Alignment explanation
Indices: 55898973--55898998 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55898963 TTTATAAATT
55898973 ATAAAAATAAAAA
1 ATAAAAATAAAAA
55898986 ATAAAAATAAAAA
1 ATAAAAATAAAAA
55898999 TCTATTTTAG
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
ATAAAAATAAAAA
Found at i:55901738 original size:15 final size:15
Alignment explanation
Indices: 55901718--55901754 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
55901708 AGGAAAAAAT
55901718 TAAAAAACA-ATATGA
1 TAAAAAACATATAT-A
55901733 TAAAAAACATATATA
1 TAAAAAACATATATA
55901748 TAAAAAA
1 TAAAAAA
55901755 AACATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.22
Consensus pattern (15 bp):
TAAAAAACATATATA
Found at i:55907393 original size:16 final size:16
Alignment explanation
Indices: 55907360--55907393 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
55907350 CATAAGTGTT
* *
55907360 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
55907376 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
55907392 AA
1 AA
55907394 TACAAAGTGG
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:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:55910183 original size:21 final size:21
Alignment explanation
Indices: 55910157--55910197 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
55910147 AGACGAGCAA
* *
55910157 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
55910178 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
55910198 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:55912135 original size:16 final size:16
Alignment explanation
Indices: 55912102--55912135 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
55912092 GGAGATTGTT
* *
55912102 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
55912118 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
55912134 AA
1 AA
55912136 TACAAAGTGG
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:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:55921096 original size:18 final size:18
Alignment explanation
Indices: 55921073--55921107 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
55921063 CCTCACTTCT
55921073 TGCATTATAATTAACTTG
1 TGCATTATAATTAACTTG
*
55921091 TGCATTATAGTTAACTT
1 TGCATTATAATTAACTT
55921108 TTTGTAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (18 bp):
TGCATTATAATTAACTTG
Found at i:55921414 original size:23 final size:22
Alignment explanation
Indices: 55921380--55921455 Score: 63
Period size: 23 Copynumber: 3.5 Consensus size: 22
55921370 GTAAACTTGT
55921380 TTGTGATCTAAAAGTATGTTAAC
1 TTGTGATCTAAAA-TATGTTAAC
* *
55921403 TTGTGATGT-AAATTTG-T---
1 TTGTGATCTAAAATATGTTAAC
55921420 TTGTGATCTAAAAATATGTTTAAC
1 TTGTGATCT-AAAATATG-TTAAC
*
55921444 TTGTGATGTAAA
1 TTGTGATCTAAA
55921456 TTTGTTTGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
17 8 0.20
19 6 0.15
20 1 0.02
21 4 0.10
22 3 0.07
23 11 0.27
24 8 0.20
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.43
Consensus pattern (22 bp):
TTGTGATCTAAAATATGTTAAC
Found at i:55921425 original size:17 final size:17
Alignment explanation
Indices: 55921403--55921472 Score: 50
Period size: 17 Copynumber: 3.7 Consensus size: 17
55921393 GTATGTTAAC
55921403 TTGTGATGTAAATTTGT
1 TTGTGATGTAAATTTGT
* *
55921420 TTGTGATCTAAAAATATGTTT
1 TTGTGATGT--AAAT-T-TGT
55921441 AACTTGTGATGTAAATTTGT
1 ---TTGTGATGTAAATTTGT
*
55921461 TTGTGATTTAAA
1 TTGTGATGTAAA
55921473 AATATGTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
17 19 0.46
19 4 0.10
20 3 0.07
21 3 0.07
22 4 0.10
24 8 0.20
ACGTcount: A:0.30, C:0.03, G:0.19, T:0.49
Consensus pattern (17 bp):
TTGTGATGTAAATTTGT
Found at i:55921439 original size:19 final size:19
Alignment explanation
Indices: 55921377--55921440 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
55921367 GATGTAAACT
*
55921377 TGTTTGTGATCTAAAAGTA
1 TGTTTGTGATCTAAAAATA
* *
55921396 TGTTAACTTGTGATGT--AAATT
1 TG-T---TTGTGATCTAAAAATA
55921417 TGTTTGTGATCTAAAAATA
1 TGTTTGTGATCTAAAAATA
55921436 TGTTT
1 TGTTT
55921441 AACTTGTGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 12
0.67 0.10 0.24
Matches are distributed among these distances:
17 8 0.24
19 11 0.32
20 2 0.06
21 5 0.15
23 8 0.24
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.47
Consensus pattern (19 bp):
TGTTTGTGATCTAAAAATA
Found at i:55921455 original size:41 final size:40
Alignment explanation
Indices: 55921366--55921485 Score: 204
Period size: 41 Copynumber: 3.0 Consensus size: 40
55921356 ATGCCTAGTT
* *
55921366 TGATGTAAACTTGTTTGTGATCTAAAAGTATGTTAACTTG
1 TGATGTAAATTTGTTTGTGATCTAAAAATATGTTAACTTG
55921406 TGATGTAAATTTGTTTGTGATCTAAAAATATGTTTAACTTG
1 TGATGTAAATTTGTTTGTGATCTAAAAATATG-TTAACTTG
*
55921447 TGATGTAAATTTGTTTGTGATTTAAAAATATGTTAACTT
1 TGATGTAAATTTGTTTGTGATCTAAAAATATGTTAACTT
55921486 CCTACTTAGA
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 37 0.49
41 39 0.51
ACGTcount: A:0.32, C:0.05, G:0.17, T:0.46
Consensus pattern (40 bp):
TGATGTAAATTTGTTTGTGATCTAAAAATATGTTAACTTG
Found at i:55923535 original size:33 final size:33
Alignment explanation
Indices: 55923496--55923582 Score: 165
Period size: 33 Copynumber: 2.6 Consensus size: 33
55923486 TTTAAAGGAG
55923496 ATAGTCTCCGCTCAGACAGTGGTAAGCAAAGTA
1 ATAGTCTCCGCTCAGACAGTGGTAAGCAAAGTA
*
55923529 ATAGTCTCCGCTCAGACAGCGGTAAGCAAAGTA
1 ATAGTCTCCGCTCAGACAGTGGTAAGCAAAGTA
55923562 ATAGTCTCCGCTCAGACAGTG
1 ATAGTCTCCGCTCAGACAGTG
55923583 CGAAACGTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.21
Consensus pattern (33 bp):
ATAGTCTCCGCTCAGACAGTGGTAAGCAAAGTA
Found at i:55930187 original size:13 final size:13
Alignment explanation
Indices: 55930171--55930218 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
55930161 TAAATTAAAT
*
55930171 TTTTTAAAAGTAC
1 TTTTCAAAAGTAC
55930184 TTTTCAAAAGTAC
1 TTTTCAAAAGTAC
**
55930197 TTTTCCCAAGTAC
1 TTTTCAAAAGTAC
55930210 TTTTCAAAA
1 TTTTCAAAA
55930219 ACAATGAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.42
Consensus pattern (13 bp):
TTTTCAAAAGTAC
Found at i:55933118 original size:16 final size:16
Alignment explanation
Indices: 55933097--55933131 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
55933087 GATTGGCTAG
*
55933097 CATACAAATATGCATA
1 CATACAAATATACATA
*
55933113 CATACATATATACATA
1 CATACAAATATACATA
55933129 CAT
1 CAT
55933132 CATACATGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.20, G:0.03, T:0.29
Consensus pattern (16 bp):
CATACAAATATACATA
Found at i:55937940 original size:9 final size:9
Alignment explanation
Indices: 55937926--55937952 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
55937916 CTTCCTCACT
55937926 GTCTCCGCC
1 GTCTCCGCC
55937935 GTCTCCGCC
1 GTCTCCGCC
55937944 GTCTCCGCC
1 GTCTCCGCC
55937953 ATCAATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.00, C:0.56, G:0.22, T:0.22
Consensus pattern (9 bp):
GTCTCCGCC
Found at i:55939334 original size:33 final size:34
Alignment explanation
Indices: 55939297--55939393 Score: 87
Period size: 33 Copynumber: 2.9 Consensus size: 34
55939287 ATGATTATAT
55939297 TTAAATATTTAAAATATAATTTATATATT-TTAA
1 TTAAATATTTAAAATATAATTTATATATTCTTAA
* *
55939330 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATT-CTTAA
*
55939365 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAATATA-ATTT-ATATATT
55939394 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 7 0.14
35 12 0.24
36 3 0.06
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (34 bp):
TTAAATATTTAAAATATAATTTATATATTCTTAA
Found at i:55939595 original size:13 final size:13
Alignment explanation
Indices: 55939579--55939614 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
55939569 TAAATCAAAC
55939579 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
* *
55939592 TTTTCTACAGCAT
1 TTTTCAAAAGCAT
55939605 TTTTCAAAAG
1 TTTTCAAAAG
55939615 TAATGAAGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:55944677 original size:15 final size:15
Alignment explanation
Indices: 55944657--55944691 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
55944647 AAAGTAAAAA
55944657 AATTAAAAATTTTAT
1 AATTAAAAATTTTAT
* *
55944672 AATTAAGATTTTTAT
1 AATTAAAAATTTTAT
55944687 AATTA
1 AATTA
55944692 TTTTTACAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (15 bp):
AATTAAAAATTTTAT
Found at i:55951923 original size:43 final size:43
Alignment explanation
Indices: 55951862--55952027 Score: 187
Period size: 43 Copynumber: 3.9 Consensus size: 43
55951852 TTTCCGATAA
55951862 GTGTTTTCGTGTAAGACCACGTCT-GAGACGTTGGCATCGACTT
1 GTGTTTTCGTGTAAGACCACGTCTAG-GACGTTGGCATCGACTT
55951905 GTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGACTT
1 GTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGACTT
* * * * *
55951948 GTGTTTTCGTATAAGACC-CTGCCTGGGATAG-TCGCATCGA-TCT
1 GTGTTTTCGTGTAAGACCAC-GTCTAGGA-CGTTGGCATCGACT-T
* * * *
55951991 GTGATTACATGTAAGACCACGTTTAGGACGTTGGCAT
1 GTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCAT
55952028 TGTACGAGCC
Statistics
Matches: 103, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
42 3 0.03
43 97 0.94
44 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32
Consensus pattern (43 bp):
GTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGACTT
Found at i:55956533 original size:21 final size:21
Alignment explanation
Indices: 55956509--55956555 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
55956499 AATTTTTATC
*
55956509 ATTTTTT-TAGAATTTTAATAT
1 ATTTTTTATAAAATTTTAA-AT
55956530 ATTTTTTATAAAATTTTAAAT
1 ATTTTTTATAAAATTTTAAAT
55956551 ATTTT
1 ATTTT
55956556 AAACATGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTTTTTATAAAATTTTAAAT
Found at i:55956594 original size:26 final size:28
Alignment explanation
Indices: 55956565--55956619 Score: 87
Period size: 26 Copynumber: 2.0 Consensus size: 28
55956555 TAAACATGTT
*
55956565 TTTATTAATTTTATGAA-TTT-TTATAA
1 TTTATTAAATTTATGAAGTTTATTATAA
55956591 TTTATTAAATTTATGAAGTTTATTATAA
1 TTTATTAAATTTATGAAGTTTATTATAA
55956619 T
1 T
55956620 ATTTACAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 16 0.62
27 3 0.12
28 7 0.27
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTATTAAATTTATGAAGTTTATTATAA
Found at i:55957583 original size:17 final size:18
Alignment explanation
Indices: 55957563--55957600 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
55957553 TGAAGATATT
*
55957563 TATAAAATT-TAAAGTTA
1 TATAAAATTATAAAATTA
55957580 TAT-AAATTATAAAATTA
1 TATAAAATTATAAAATTA
55957597 TATA
1 TATA
55957601 TTAATGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
TATAAAATTATAAAATTA
Found at i:55958412 original size:24 final size:24
Alignment explanation
Indices: 55958368--55958414 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
55958358 ATTAAAATGG
55958368 ATTGATTTAGTATGTGATGAATTT
1 ATTGATTTAGTATGTGATGAATTT
55958392 ATTGAATTTA-TAT-TGATTGAATT
1 ATTG-ATTTAGTATGTGA-TGAATT
55958415 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGATTTAGTATGTGATGAATTT
Found at i:55964157 original size:23 final size:23
Alignment explanation
Indices: 55964105--55964158 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
55964095 TTAAAATACT
*
55964105 TTAAAAATATTTTTATTTTTATT
1 TTAAAAATATTTTTATTTTTATA
*
55964128 TTTAAAATATTTTT-TTGTGTT-TA
1 TTAAAAATATTTTTATT-T-TTATA
55964151 TTAAAAAT
1 TTAAAAAT
55964159 CGAGCCGGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 2 0.08
23 22 0.85
24 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (23 bp):
TTAAAAATATTTTTATTTTTATA
Found at i:55972434 original size:26 final size:26
Alignment explanation
Indices: 55972385--55972436 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
55972375 CCGGTCTGCC
* *
55972385 TATTTTTAAAATAAACATTAAAAATT
1 TATTTTTAAAATAAAAAATAAAAATT
55972411 TATTTTTAAAATAAAAAAATAAAAAT
1 TATTTTTAAAAT-AAAAAATAAAAAT
55972437 AAAATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
TATTTTTAAAATAAAAAATAAAAATT
Found at i:55972450 original size:11 final size:11
Alignment explanation
Indices: 55972436--55972465 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
55972426 AAAATAAAAA
55972436 TAAAATTATTT
1 TAAAATTATTT
*
55972447 TAAAAGTATTT
1 TAAAATTATTT
55972458 TAAAATTA
1 TAAAATTA
55972466 AAAAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (11 bp):
TAAAATTATTT
Found at i:55974528 original size:2 final size:2
Alignment explanation
Indices: 55974521--55974545 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
55974511 ACATGATGAG
55974521 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 T
55974546 GAATACAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55975428 original size:29 final size:32
Alignment explanation
Indices: 55975387--55975451 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 32
55975377 TTAAAAAATG
55975387 AGGGACTTAAATAA-AATTTTCAAAAGTTTTA
1 AGGGACTTAAATAATAATTTTCAAAAGTTTTA
* * *
55975418 AGGG-CTT-AATAATAGTTTTCTAAATTTTTA
1 AGGGACTTAAATAATAATTTTCAAAAGTTTTA
55975448 AGGG
1 AGGG
55975452 TATGCAAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 5 0.17
30 21 0.70
31 4 0.13
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.38
Consensus pattern (32 bp):
AGGGACTTAAATAATAATTTTCAAAAGTTTTA
Found at i:55978820 original size:31 final size:31
Alignment explanation
Indices: 55978782--55978844 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
55978772 TTAATAAACC
* *
55978782 AGTGACTTAAATGATAACTTTTGAATAGTTT
1 AGTGACTTAAATGAAAACTTTTGAATAATTT
55978813 AGTGACTTAAATGAAAACTTTTGAATAATTT
1 AGTGACTTAAATGAAAACTTTTGAATAATTT
55978844 A
1 A
55978845 ATGATCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (31 bp):
AGTGACTTAAATGAAAACTTTTGAATAATTT
Found at i:55980986 original size:16 final size:16
Alignment explanation
Indices: 55980941--55980986 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
55980931 GCGGTTTTTT
55980941 ACTTAAATAATATA-A
1 ACTTAAATAATATATA
* * *
55980956 A-ATAAACAATTTATA
1 ACTTAAATAATATATA
55980971 ACTTAAATAATATATA
1 ACTTAAATAATATATA
55980987 CCCAATATCA
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
14 9 0.39
15 3 0.13
16 11 0.48
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (16 bp):
ACTTAAATAATATATA
Found at i:55981520 original size:22 final size:22
Alignment explanation
Indices: 55981494--55981578 Score: 62
Period size: 22 Copynumber: 3.8 Consensus size: 22
55981484 ATATCTAACC
55981494 AATAACAATAAAACAATAGCAA
1 AATAACAATAAAACAATAGCAA
* * **
55981516 TATAATAATAAAATGATAGCAA
1 AATAACAATAAAACAATAGCAA
** * **
55981538 AACGACAGTAAAACAATAAAAAA
1 AATAACAATAAAACAAT-AGCAA
* *
55981561 AATGACAACAAAACAATA
1 AATAACAATAAAACAATA
55981579 TATGAGAAAA
Statistics
Matches: 46, Mismatches: 16, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
22 29 0.63
23 17 0.37
ACGTcount: A:0.66, C:0.12, G:0.07, T:0.15
Consensus pattern (22 bp):
AATAACAATAAAACAATAGCAA
Found at i:55983067 original size:28 final size:29
Alignment explanation
Indices: 55983013--55983071 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
55983003 TATTCTTATA
* *
55983013 TTAATTTTATAATTATTTATGACATATATT
1 TTAATTTTATAAATATGTAT-ACATATATT
*
55983043 TTAATTTTATAAATATGTAT-TATATATT
1 TTAATTTTATAAATATGTATACATATATT
55983071 T
1 T
55983072 CATTATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 8 0.31
30 18 0.69
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (29 bp):
TTAATTTTATAAATATGTATACATATATT
Found at i:55983552 original size:7 final size:7
Alignment explanation
Indices: 55983540--55983589 Score: 84
Period size: 7 Copynumber: 7.3 Consensus size: 7
55983530 ACAATTTTAC
55983540 TAAATAT
1 TAAATAT
55983547 TAAATAT
1 TAAATAT
55983554 TAAATAT
1 TAAATAT
55983561 TAAATAT
1 TAAATAT
55983568 TAAATAT
1 TAAATAT
55983575 TAAATA-
1 TAAATAT
*
55983581 AAAATAT
1 TAAATAT
55983588 TA
1 TA
55983590 TATTTAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
6 5 0.12
7 35 0.88
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
TAAATAT
Found at i:55983601 original size:18 final size:20
Alignment explanation
Indices: 55983541--55983601 Score: 81
Period size: 21 Copynumber: 3.1 Consensus size: 20
55983531 CAATTTTACT
*
55983541 AAATATTAAATATTAAATATT
1 AAATATTAAATATTAAATA-A
55983562 AAATATTAAATATTAAATAA
1 AAATATTAAATATTAAATAA
*
55983582 AAATATTATAT-TTAAA-AA
1 AAATATTAAATATTAAATAA
55983600 AA
1 AA
55983602 CAACTATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
18 4 0.11
19 5 0.13
20 10 0.26
21 19 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATATTAAATATTAAATAA
Found at i:55996943 original size:19 final size:19
Alignment explanation
Indices: 55996873--55996943 Score: 54
Period size: 19 Copynumber: 3.7 Consensus size: 19
55996863 ATTCGTATAG
* * *
55996873 AATATTTTAGGGTTAATAT
1 AATATTTGAGGTTTAATTT
* **
55996892 ACTATTTGATATTTAAATTT
1 AATATTTGAGGTTT-AATTT
* *
55996912 AAT-TTTAATGTTTAATTT
1 AATATTTGAGGTTTAATTT
55996930 AATATTTGAGGTTT
1 AATATTTGAGGTTT
55996944 TTTTTGTTTC
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
18 8 0.21
19 25 0.64
20 6 0.15
ACGTcount: A:0.34, C:0.01, G:0.11, T:0.54
Consensus pattern (19 bp):
AATATTTGAGGTTTAATTT
Found at i:55997782 original size:21 final size:23
Alignment explanation
Indices: 55997736--55997782 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
55997726 CCCGATGTAA
*
55997736 TAAATATATTTATTTTTTAATTT
1 TAAATATATTTATTTATTAATTT
*
55997759 TAAAT-TATTT-TTTATTATTTT
1 TAAATATATTTATTTATTAATTT
55997780 TAA
1 TAA
55997783 TTTAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 12 0.55
22 5 0.23
23 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
TAAATATATTTATTTATTAATTT
Found at i:55997794 original size:17 final size:17
Alignment explanation
Indices: 55997774--55997837 Score: 65
Period size: 17 Copynumber: 3.5 Consensus size: 17
55997764 TATTTTTTAT
*
55997774 TATTTTTAATTTAAAAA
1 TATTTTTAATTTTAAAA
*
55997791 TATTTTTAAAATATTTTTAAA
1 TATTTTT---A-ATTTTAAAA
*
55997812 TTTTTTTAATTTTAAAA
1 TATTTTTAATTTTAAAA
55997829 TATTTTTAA
1 TATTTTTAA
55997838 AATACTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
17 23 0.61
18 1 0.03
20 1 0.03
21 13 0.34
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTTTAATTTTAAAA
Found at i:55997798 original size:38 final size:38
Alignment explanation
Indices: 55997756--55997858 Score: 138
Period size: 38 Copynumber: 2.7 Consensus size: 38
55997746 TATTTTTTAA
*
55997756 TTTTAAATTATTTTTTATTATTTTTAATTTAAAAATAT
1 TTTTAAAATATTTTTTATTATTTTTAATTTAAAAATAT
* *
55997794 TTTTAAAATATTTTTAAATT-TTTTTAATTTTAAAATAT
1 TTTTAAAATATTTTT-TATTATTTTTAATTTAAAAATAT
*
55997832 TTTTAAAATACTTTTTT-TAATTTTTAA
1 TTTTAAAATA-TTTTTTATTATTTTTAA
55997859 AATAAATTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
37 1 0.02
38 48 0.84
39 8 0.14
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (38 bp):
TTTTAAAATATTTTTTATTATTTTTAATTTAAAAATAT
Found at i:55997800 original size:12 final size:12
Alignment explanation
Indices: 55997783--55997811 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
55997773 TTATTTTTAA
55997783 TTTAAAAATATT
1 TTTAAAAATATT
55997795 TTT-AAAATATT
1 TTTAAAAATATT
55997806 TTTAAA
1 TTTAAA
55997812 TTTTTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAAAAATATT
Found at i:55997803 original size:11 final size:11
Alignment explanation
Indices: 55997787--55997847 Score: 62
Period size: 11 Copynumber: 6.0 Consensus size: 11
55997777 TTTTAATTTA
55997787 AAAATATTTTT
1 AAAATATTTTT
55997798 AAAATATTTTT
1 AAAATATTTTT
55997809 -AAAT-TTTTT
1 AAAATATTTTT
*
55997818 ----TAATTTT
1 AAAATATTTTT
55997825 AAAATATTTTT
1 AAAATATTTTT
55997836 AAAATACTTTTT
1 AAAATA-TTTTT
55997848 TTAATTTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
6 1 0.02
7 4 0.10
9 5 0.12
10 4 0.10
11 23 0.55
12 5 0.12
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:55997805 original size:28 final size:27
Alignment explanation
Indices: 55997749--55997810 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
55997739 ATATATTTAT
* * * *
55997749 TTTTTAATTTTAAATTATTTTTTATTA
1 TTTTTAATTTAAAAATATTTTTAAATA
55997776 TTTTTAATTTAAAAATATTTTTAAAATA
1 TTTTTAATTTAAAAATATTTTT-AAATA
55997804 TTTTTAA
1 TTTTTAA
55997811 ATTTTTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 20 0.67
28 10 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (27 bp):
TTTTTAATTTAAAAATATTTTTAAATA
Found at i:55997824 original size:27 final size:31
Alignment explanation
Indices: 55997792--55997862 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 31
55997782 ATTTAAAAAT
55997792 ATTTTTAAAATATTTTT-AA-A-TTTTTTTA
1 ATTTTTAAAATATTTTTAAATACTTTTTTTA
55997820 A-TTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATATTTTT-AAATACTTTTTTTA
55997851 ATTTTTAAAATA
1 ATTTTTAAAATA
55997863 AATTTTTAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
27 15 0.39
28 1 0.03
29 2 0.05
30 1 0.03
31 9 0.24
32 10 0.26
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (31 bp):
ATTTTTAAAATATTTTTAAATACTTTTTTTA
Found at i:55997868 original size:21 final size:21
Alignment explanation
Indices: 55997830--55997869 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
55997820 ATTTTAAAAT
**
55997830 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
55997851 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
55997870 AGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:56003130 original size:12 final size:11
Alignment explanation
Indices: 56003109--56003138 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
56003099 ATTAAATAAT
56003109 AAAAAAGGAAA
1 AAAAAAGGAAA
*
56003120 AAAAAAGGGAA
1 AAAAAAGGAAA
56003131 AAAAAAGG
1 AAAAAAGG
56003139 CCGACAGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
AAAAAAGGAAA
Found at i:56013005 original size:6 final size:6
Alignment explanation
Indices: 56012994--56013025 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
56012984 CTTCTTCTCA
*
56012994 GCTTTG GCTTTG GCTTTG GCTGTG GCTTTG GC
1 GCTTTG GCTTTG GCTTTG GCTTTG GCTTTG GC
56013026 AGGAGGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.19, G:0.38, T:0.44
Consensus pattern (6 bp):
GCTTTG
Found at i:56017897 original size:20 final size:24
Alignment explanation
Indices: 56017851--56017899 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
56017841 TTTGTCTGTC
56017851 AATTTTTAATTATATAAATAGATT
1 AATTTTTAATTATATAAATAGATT
56017875 AATTTTTAA-TA-A-AAATA-ATT
1 AATTTTTAATTATATAAATAGATT
56017895 AATTT
1 AATTT
56017900 ATTATTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.32
21 5 0.20
22 1 0.04
23 2 0.08
24 9 0.36
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
AATTTTTAATTATATAAATAGATT
Found at i:56017940 original size:26 final size:27
Alignment explanation
Indices: 56017876--56017941 Score: 73
Period size: 30 Copynumber: 2.4 Consensus size: 27
56017866 AAATAGATTA
56017876 ATTTTTAATAAAAATAATTAATTTATT
1 ATTTTTAATAAAAATAATTAATTTATT
*
56017903 ATTTAAGATAATATAAAA-AATTAATTTATT
1 ATTT---TTAATA-AAAATAATTAATTTATT
56017933 -TTTTTAATA
1 ATTTTTAATA
56017942 GAGTAAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
26 5 0.15
27 4 0.12
29 3 0.09
30 17 0.52
31 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (27 bp):
ATTTTTAATAAAAATAATTAATTTATT
Found at i:56019342 original size:3 final size:3
Alignment explanation
Indices: 56019334--56019370 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
56019324 TTATCCAAAA
56019334 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
56019371 GGTAATAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:56040763 original size:15 final size:16
Alignment explanation
Indices: 56040732--56040764 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
56040722 GGAATTCACA
*
56040732 TATTTTTCAATATTAT
1 TATTTTTAAATATTAT
56040748 TATTTTTAAATA-TAT
1 TATTTTTAAATATTAT
56040763 TA
1 TA
56040765 CATTTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTTTTAAATATTAT
Found at i:56041226 original size:25 final size:22
Alignment explanation
Indices: 56041182--56041229 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 22
56041172 GTAGATATGA
*
56041182 TCAAAATCTATAATGAAATTAT
1 TCAAAATATATAATGAAATTAT
56041204 TCAAATATATATATATGAGAATTAT
1 TCAAA-ATATATA-ATGA-AATTAT
56041229 T
1 T
56041230 TGATATACCG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 5 0.23
23 6 0.27
24 4 0.18
25 7 0.32
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (22 bp):
TCAAAATATATAATGAAATTAT
Found at i:56044421 original size:17 final size:19
Alignment explanation
Indices: 56044389--56044426 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
56044379 GACTAAGAGG
*
56044389 TTGAGACTTATATATTTTC
1 TTGAGACTTATATATTCTC
56044408 TTGAG-CTT-TATATTCTC
1 TTGAGACTTATATATTCTC
56044425 TT
1 TT
56044427 AGCCTCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
18 3 0.17
19 5 0.28
ACGTcount: A:0.21, C:0.13, G:0.11, T:0.55
Consensus pattern (19 bp):
TTGAGACTTATATATTCTC
Found at i:56047473 original size:24 final size:21
Alignment explanation
Indices: 56047413--56047480 Score: 118
Period size: 21 Copynumber: 3.2 Consensus size: 21
56047403 CAGAAGGAGT
*
56047413 GAGTAGTACTTCGCAGCAGGTG
1 GAGT-GTACTCCGCAGCAGGTG
56047435 GAGTGTACTCCGCAGCAGGTG
1 GAGTGTACTCCGCAGCAGGTG
56047456 GAGTGTACTCCGCAGCAGGTG
1 GAGTGTACTCCGCAGCAGGTG
56047477 GAGT
1 GAGT
56047481 TTGAGCAGAG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
21 41 0.91
22 4 0.09
ACGTcount: A:0.21, C:0.21, G:0.38, T:0.21
Consensus pattern (21 bp):
GAGTGTACTCCGCAGCAGGTG
Found at i:56051383 original size:21 final size:21
Alignment explanation
Indices: 56051345--56051394 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
56051335 TTAAATTATA
* *
56051345 ATTATTTTTAAATTTATAAAG
1 ATTATTTATAAATATATAAAG
* *
56051366 ATTATTTATATATATATAAAT
1 ATTATTTATAAATATATAAAG
56051387 ATT-TTTAT
1 ATTATTTAT
56051395 TTAATTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTATTTATAAATATATAAAG
Found at i:56051577 original size:16 final size:15
Alignment explanation
Indices: 56051553--56051627 Score: 60
Period size: 16 Copynumber: 4.7 Consensus size: 15
56051543 ATTAATATAT
56051553 TATTATTTTAATTAA
1 TATTATTTTAATTAA
* * *
56051568 TCTTACTTTTTATTAT
1 TATTA-TTTTAATTAA
*
56051584 TATATATTATTAATATAT
1 TAT-TATT-TTAAT-TAA
56051602 TATTATTTTAATTAA
1 TATTATTTTAATTAA
*
56051617 TCTTACTTTTA
1 TATTA-TTTTA
56051628 TTATATATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
15 10 0.21
16 22 0.46
17 10 0.21
18 6 0.12
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATTTTAATTAA
Found at i:56051601 original size:11 final size:11
Alignment explanation
Indices: 56051578--56051606 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
56051568 TCTTACTTTT
56051578 TATTATT-ATA
1 TATTATTAATA
56051588 TATTATTAATA
1 TATTATTAATA
56051599 TATTATTA
1 TATTATTA
56051607 TTTTAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTATTAATA
Found at i:56051615 original size:49 final size:50
Alignment explanation
Indices: 56051543--56051663 Score: 192
Period size: 49 Copynumber: 2.4 Consensus size: 50
56051533 TTAATTTCAC
*
56051543 ATTAATATATTATTATTTTAATTAATCTTACTTTTTATTAT-TAT-ATATT
1 ATTAATATATTATTATTTTAATTAATCTTAC-TTTTATTATATATAATAAT
56051592 ATTAATATATTATTATTTTAATTAATCTTACTTTTATTATATATAATAAT
1 ATTAATATATTATTATTTTAATTAATCTTACTTTTATTATATATAATAAT
* *
56051642 ATTAATAAATTATTATTCTAAT
1 ATTAATATATTATTATTTTAAT
56051664 GTAGTTTAGT
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
48 9 0.13
49 34 0.51
50 24 0.36
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (50 bp):
ATTAATATATTATTATTTTAATTAATCTTACTTTTATTATATATAATAAT
Found at i:56052047 original size:58 final size:58
Alignment explanation
Indices: 56051985--56052101 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
56051975 ACTGTTATAG
56051985 CTATAAGCCTTTGATAAACATAAATTTTTTTTATTTAATAAACTATTCTCATCAAATT
1 CTATAAGCCTTTGATAAACATAAATTTTTTTTATTTAATAAACTATTCTCATCAAATT
56052043 CTATAAGCCTTTGATAAACATAAATTTTTTTTATTTAATAAACTATTCTCATCAAATT
1 CTATAAGCCTTTGATAAACATAAATTTTTTTTATTTAATAAACTATTCTCATCAAATT
56052101 C
1 C
56052102 ACATAAAATG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (58 bp):
CTATAAGCCTTTGATAAACATAAATTTTTTTTATTTAATAAACTATTCTCATCAAATT
Found at i:56068772 original size:15 final size:15
Alignment explanation
Indices: 56068752--56068791 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
56068742 CACCAACGCC
56068752 GCCGCGGCACACACG
1 GCCGCGGCACACACG
56068767 GCCGCGGCACACACG
1 GCCGCGGCACACACG
*
56068782 GCCGCCGCAC
1 GCCGCGGCAC
56068792 CCACCGCTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.50, G:0.33, T:0.00
Consensus pattern (15 bp):
GCCGCGGCACACACG
Found at i:56068788 original size:18 final size:17
Alignment explanation
Indices: 56068747--56068789 Score: 63
Period size: 15 Copynumber: 2.6 Consensus size: 17
56068737 TGTACCACCA
56068747 ACGCCGCCGCGGCACAC
1 ACGCCGCCGCGGCACAC
56068764 ACG--GCCGCGGCACAC
1 ACGCCGCCGCGGCACAC
56068779 ACGGCCGCCGC
1 AC-GCCGCCGC
56068790 ACCCACCGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 14 0.61
16 1 0.04
17 3 0.13
18 5 0.22
ACGTcount: A:0.16, C:0.51, G:0.33, T:0.00
Consensus pattern (17 bp):
ACGCCGCCGCGGCACAC
Found at i:56076061 original size:16 final size:16
Alignment explanation
Indices: 56076026--56076066 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
56076016 CATCAATATT
*
56076026 AATAATCAAATAAACT
1 AATAATCAAATAAACA
56076042 AATAATCAAACT-AACA
1 AATAATCAAA-TAAACA
56076058 AATAA-CAAA
1 AATAATCAAA
56076067 ATGAGAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 18 0.78
17 1 0.04
ACGTcount: A:0.66, C:0.15, G:0.00, T:0.20
Consensus pattern (16 bp):
AATAATCAAATAAACA
Found at i:56076092 original size:15 final size:17
Alignment explanation
Indices: 56076072--56076103 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
56076062 ACAAAATGAG
56076072 AATAA-TTAAT-ACAAA
1 AATAATTTAATCACAAA
56076087 AATAATTTAATCACAAA
1 AATAATTTAATCACAAA
56076104 TGAACTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 5 0.33
17 5 0.33
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (17 bp):
AATAATTTAATCACAAA
Found at i:56089419 original size:3 final size:3
Alignment explanation
Indices: 56089411--56089443 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
56089401 GTTGAACTAT
56089411 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
56089444 CTGGGATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:56099295 original size:39 final size:39
Alignment explanation
Indices: 56099239--56099317 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
56099229 TCAAACAATG
56099239 ATTAAAGCTAAAAAAGCTAAAATATTCGATCGAAAAACA
1 ATTAAAGCTAAAAAAGCTAAAATATTCGATCGAAAAACA
* *
56099278 ATTAAAGCTGAACAAGCTAAAATATTCGATCGAAAAACA
1 ATTAAAGCTAAAAAAGCTAAAATATTCGATCGAAAAACA
56099317 A
1 A
56099318 AGTTCAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.20
Consensus pattern (39 bp):
ATTAAAGCTAAAAAAGCTAAAATATTCGATCGAAAAACA
Found at i:56100442 original size:19 final size:20
Alignment explanation
Indices: 56100405--56100442 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
56100395 ATCATCAATG
* *
56100405 AAAATTTTAAAATCTTATAT
1 AAAATTTAAAAATCATATAT
56100425 AAAATTTAAAAAT-ATATA
1 AAAATTTAAAAATCATATA
56100443 CATAATTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATTTAAAAATCATATAT
Found at i:56103175 original size:17 final size:17
Alignment explanation
Indices: 56103122--56103182 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
56103112 TTTTATATAC
56103122 TTTTTATTAA-TTTT-AA
1 TTTTTA-TAATTTTTAAA
*
56103138 TTTTTAT-TTTTTTGAATA
1 TTTTTATAATTTTT-AA-A
56103156 TTTTTATAATTTTTAAA
1 TTTTTATAATTTTTAAA
56103173 TTTTTATAAT
1 TTTTTATAAT
56103183 ATGACATACA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
15 5 0.13
16 6 0.16
17 12 0.32
18 10 0.26
19 5 0.13
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTTTATAATTTTTAAA
Found at i:56111629 original size:18 final size:20
Alignment explanation
Indices: 56111608--56111648 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
56111598 TTTTATGAAT
*
56111608 ATTTTAT-CTA-TTATAAAC
1 ATTTTATACTATTTAAAAAC
56111626 ATTTTATACTATTTAAAAAC
1 ATTTTATACTATTTAAAAAC
56111646 ATT
1 ATT
56111649 AGAACCCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 3 0.15
20 10 0.50
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTTTATACTATTTAAAAAC
Found at i:56112089 original size:13 final size:13
Alignment explanation
Indices: 56112068--56112128 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
56112058 CATTCATTGC
*
56112068 TTTTGAAAAATAT
1 TTTTAAAAAATAT
* *
56112081 TTTTAAAAAGTGT
1 TTTTAAAAAATAT
* * *
56112094 TGTGAAAAAATAC
1 TTTTAAAAAATAT
* *
56112107 TTTTCAGAAATAT
1 TTTTAAAAAATAT
56112120 TTTTAAAAA
1 TTTTAAAAA
56112129 TTTTAGTTTA
Statistics
Matches: 33, Mismatches: 15, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (13 bp):
TTTTAAAAAATAT
Found at i:56112408 original size:33 final size:32
Alignment explanation
Indices: 56112313--56112409 Score: 81
Period size: 31 Copynumber: 2.9 Consensus size: 32
56112303 TTAATATTTT
*
56112313 AATATATGAAATATAAATTTTAAATATTTCTAAGTA
1 AATATAT-AAAT-TATATTTTAAATA-TT-TAAGTA
* * * *
56112349 ATAAATATTAATTAT-TTATAAA-ATTTAATTA
1 A-ATATATAAATTATATTTTAAATATTTAAGTA
56112380 GAATATATAAATTATATTTTAAATATTTAA
1 -AATATATAAATTATATTTTAAATATTTAA
56112410 ATATAACCAT
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
31 16 0.33
32 9 0.18
33 7 0.14
34 6 0.12
35 2 0.04
36 4 0.08
37 5 0.10
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (32 bp):
AATATATAAATTATATTTTAAATATTTAAGTA
Found at i:56123911 original size:31 final size:30
Alignment explanation
Indices: 56123879--56123936 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
56123869 AAGTTTGGGC
*
56123879 CCCAATGTGGGAAAAATTGCAAAGTTCAGG
1 CCCAATATGGGAAAAATTGCAAAGTTCAGG
* * *
56123909 CCCAGTATGGGAATAATTGCCAAGTTCA
1 CCCAATATGGGAAAAATTGCAAAGTTCA
56123937 AAGACTAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.22
Consensus pattern (30 bp):
CCCAATATGGGAAAAATTGCAAAGTTCAGG
Found at i:56126936 original size:12 final size:11
Alignment explanation
Indices: 56126919--56126961 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
56126909 ATTCAGTTTG
56126919 ATTAAATAAATT
1 ATTAAA-AAATT
*
56126931 ATTAAAAAATC
1 ATTAAAAAATT
*
56126942 ATCAAAAAATAT
1 ATTAAAAAAT-T
56126954 ATTAAAAA
1 ATTAAAAA
56126962 TGAAAATGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
11 13 0.50
12 13 0.50
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (11 bp):
ATTAAAAAATT
Found at i:56130181 original size:15 final size:15
Alignment explanation
Indices: 56130161--56130200 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
56130151 ATTCTCCACC
56130161 TTAAATATTATAGAT
1 TTAAATATTATAGAT
56130176 TTAAATATTATAGAT
1 TTAAATATTATAGAT
**
56130191 AGAAATATTA
1 TTAAATATTA
56130201 ATAAAGAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (15 bp):
TTAAATATTATAGAT
Found at i:56136633 original size:23 final size:24
Alignment explanation
Indices: 56136589--56136634 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
56136579 GATACTGATG
*
56136589 ACATGTGATAAAAACGTTTTTATC
1 ACATGTGATAAAAACGTATTTATC
56136613 ACATGT-ATAAAAATCG-ATTTAT
1 ACATGTGATAAAAA-CGTATTTAT
56136635 TTACTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (24 bp):
ACATGTGATAAAAACGTATTTATC
Found at i:56145271 original size:27 final size:26
Alignment explanation
Indices: 56145234--56145284 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
56145224 TAAATTATGC
*
56145234 TATATTCATTAAAAATTATATAATAAA
1 TATATTCATTAAAAACTATA-AATAAA
*
56145261 TATATTTATTAAAAACTATAAATA
1 TATATTCATTAAAAACTATAAATA
56145285 TATTTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (26 bp):
TATATTCATTAAAAACTATAAATAAA
Found at i:56145284 original size:22 final size:25
Alignment explanation
Indices: 56145256--56145303 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 25
56145246 AAATTATATA
56145256 ATAAATATA-TTT-ATTAAAA-ACT
1 ATAAATATATTTTAATTAAAATACT
56145278 ATAAATATATTTTAATTAAAATACT
1 ATAAATATATTTTAATTAAAATACT
56145303 A
1 A
56145304 AGATTAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 9 0.39
23 3 0.13
24 7 0.30
25 4 0.17
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
ATAAATATATTTTAATTAAAATACT
Found at i:56146047 original size:22 final size:22
Alignment explanation
Indices: 56146019--56146060 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
56146009 GCATTTAATT
56146019 TATTTTTAAAAATTAAAAAAAA
1 TATTTTTAAAAATTAAAAAAAA
*
56146041 TATTTTTAAAAATTTAAAAA
1 TATTTTTAAAAATTAAAAAA
56146061 GTGTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TATTTTTAAAAATTAAAAAAAA
Found at i:56150859 original size:24 final size:24
Alignment explanation
Indices: 56150813--56150860 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
56150803 AATATAATTG
*
56150813 AAAAAAAAAGTAAGAAATCATCAT
1 AAAAAAAAAGTAAGAAATAATCAT
56150837 AAAAAAAAAGTAAGAAGA-AATCAT
1 AAAAAAAAAGTAAGAA-ATAATCAT
56150861 CATACGCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.69, C:0.06, G:0.10, T:0.15
Consensus pattern (24 bp):
AAAAAAAAAGTAAGAAATAATCAT
Found at i:56154878 original size:6 final size:6
Alignment explanation
Indices: 56154867--56154901 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
56154857 AGTCAAATCA
56154867 ACAAAG ACAAAG ACAAAG ACAAAG ACAAAG A-AAAG
1 ACAAAG ACAAAG ACAAAG ACAAAG ACAAAG ACAAAG
56154902 TTACCTAGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.14
6 25 0.86
ACGTcount: A:0.69, C:0.14, G:0.17, T:0.00
Consensus pattern (6 bp):
ACAAAG
Found at i:56161571 original size:16 final size:16
Alignment explanation
Indices: 56161550--56161580 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56161540 ATATTAGATT
*
56161550 TATTCTTATTTAAGTA
1 TATTCTAATTTAAGTA
56161566 TATTCTAATTTAAGT
1 TATTCTAATTTAAGT
56161581 TAATGGTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (16 bp):
TATTCTAATTTAAGTA
Found at i:56164596 original size:9 final size:9
Alignment explanation
Indices: 56164582--56164624 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
56164572 TCAAATATGT
*
56164582 AAAAGATTA
1 AAAAAATTA
*
56164591 AAAAGATTA
1 AAAAAATTA
56164600 AAAAAATTA
1 AAAAAATTA
56164609 TAAAAAATTA
1 -AAAAAATTA
56164619 ATAAAA
1 A-AAAA
56164625 GTGCACATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
9 18 0.58
10 13 0.42
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (9 bp):
AAAAAATTA
Found at i:56171353 original size:19 final size:19
Alignment explanation
Indices: 56171331--56171418 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
56171321 AAAAAAAATT
56171331 AAAAATTATAAAAATTATAA
1 AAAAATTATAAAAATTAT-A
** *
56171351 AAAAATT-TTTAAATATGTA
1 AAAAATTATAAAAAT-TATA
*
56171370 AAAGATT-TAAAAA--ATA
1 AAAAATTATAAAAATTATA
*
56171386 AAAAATAATAAAAATTATA
1 AAAAATTATAAAAATTATA
*
56171405 AAAAATAATAAAAA
1 AAAAATTATAAAAA
56171419 CACACATTTA
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
16 7 0.13
17 6 0.11
19 33 0.60
20 9 0.16
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.28
Consensus pattern (19 bp):
AAAAATTATAAAAATTATA
Found at i:56171354 original size:11 final size:9
Alignment explanation
Indices: 56171330--56171418 Score: 58
Period size: 9 Copynumber: 9.7 Consensus size: 9
56171320 TAAAAAAAAT
56171330 TAAAAATTA
1 TAAAAATTA
56171339 TAAAAATTA
1 TAAAAATTA
*
56171348 TAAAAAAATTTT
1 T--AAAAA-TTA
*
56171360 TAAATATGTA
1 TAAAAAT-TA
*
56171370 -AAAGATT-
1 TAAAAATTA
*
56171377 TAAAAAATA
1 TAAAAATTA
*
56171386 -AAAAATAA
1 TAAAAATTA
56171394 TAAAAATTA
1 TAAAAATTA
*
56171403 TAAAAAATAA
1 T-AAAAATTA
56171413 TAAAAA
1 TAAAAA
56171419 CACACATTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
8 12 0.19
9 29 0.47
10 13 0.21
11 5 0.08
12 3 0.05
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (9 bp):
TAAAAATTA
Found at i:56171390 original size:9 final size:10
Alignment explanation
Indices: 56171378--56171418 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
56171368 TAAAAGATTT
56171378 AAAA-AATAA
1 AAAATAATAA
56171387 AAAATAAT-A
1 AAAATAATAA
*
56171396 AAAATTATAA
1 AAAATAATAA
56171406 AAAATAATAA
1 AAAATAATAA
56171416 AAA
1 AAA
56171419 CACACATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 12 0.43
10 16 0.57
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATAATAA
Found at i:56176169 original size:44 final size:44
Alignment explanation
Indices: 56176121--56176223 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
56176111 GTATTGGCGT
* * * *
56176121 GAAGTAGATCGAAGATAGCAGGTCCTGTCTTTCTATATTGGTAG-
1 GAAGTAGATCGAAGAT-GCAGATCCTGTCTTCCCATACTGGTAGC
* * * *
56176165 GAAGTGGATCGAATATGCAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCGAAGATGCAGATCCTGTCTTCCCATACTGGTAGC
56176209 GAAGTAGATCGAAGA
1 GAAGTAGATCGAAGA
56176224 AAACGGATCT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 21 0.44
44 27 0.56
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (44 bp):
GAAGTAGATCGAAGATGCAGATCCTGTCTTCCCATACTGGTAGC
Found at i:56176397 original size:132 final size:132
Alignment explanation
Indices: 56176229--56177269 Score: 1611
Period size: 132 Copynumber: 7.9 Consensus size: 132
56176219 GAAGAAAACG
* ** *
56176229 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTGGATTTTACCTCCCTGAAATTA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGATTA
** * *
56176294 CAGTGGAGTACATTGAAGCTGGTAGTTCTATCTCTCTGGGCAGCAGAGGAATAGATTGAAGATTA
66 CAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTA
56176359 CA
131 CA
* * * *
56176361 GATCTTATCTCCCTAAGCAGTCGTAGAGCAGATCGAAGATGGCGGATTTTACTTCCCTGAGATTA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGATTA
*
56176426 C-GATGGAGTACATTGAAGACAGTAGTTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATT
66 CAG-TGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATT
56176490 ACA
130 ACA
*
56176493 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATTTTACCTCCCTGAGATTA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGATTA
*
56176558 CAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAGCAGTGGAATATATTGAAGATTA
66 CAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTA
56176623 CA
131 CA
* * *
56176625 GATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACTTCCCTGAGATTA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGATTA
* *
56176690 CGGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAGCAGTTGAATAGATTGAAGATTA
66 CAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTA
56176755 CA
131 CA
* *
56176757 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATTTTACCTCCCTGATATTA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGATTA
* *
56176822 CAGTGGAGTACATAGAAGCCAGTAGTTCTATCTCCCTAGGC-GACAGTGGAATAGATTGAAGATT
66 CAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAG-CAGTGGAATAGATTGAAGATT
56176886 ACA
130 ACA
* * *
56176889 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGCTTTTACCTCCCTGTGGTTA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGATTA
* * * * *
56176954 CAGTGGAGTACATTGAAGCCAATAGTTCTATCTCCCTGGG-GGATAGTGGAATAGATTTAAAAAT
66 CAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAG-CAGTGGAATAGA-TTGAAGAT
56177018 TACA
129 TACA
*
56177022 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCAGATTTTACCTCCCTGAGATTA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGATTA
* * *
56177087 CAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTAGGCAGTAGTGGAATAGATTGAAAATTA
66 CAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTA
56177152 CA
131 CA
* * * *
56177154 GATCTTATCTCTCTAAACAGTAGTGGAGCAGATCGAAGATGGCAGATTCTACTTCCCTGAGATTA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGATTA
* ** * *
56177219 CAGTGGAGTACATTGAAGCCAATAAATCTTATCTCCCTAGGCAGTAGTGGA
66 CAGTGGAGTACATTGAAGCCAGTAGTTC-TATCTCCCTGGGCAGCAGTGGA
56177270 GCAGATCGAA
Statistics
Matches: 841, Mismatches: 61, Indels: 13
0.92 0.07 0.01
Matches are distributed among these distances:
131 2 0.00
132 694 0.83
133 144 0.17
134 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGATTA
CAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTA
CA
Found at i:56177248 original size:89 final size:89
Alignment explanation
Indices: 56177155--56177328 Score: 294
Period size: 89 Copynumber: 2.0 Consensus size: 89
56177145 AAAATTACAG
* *
56177155 ATCTTATCTCTCTAAACAGTAGTGGAGCAGATCGAAGATGGCAGATTCTACTTCCCTGAGATTAC
1 ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCAGATTCTACCTCCCTGAGATTAC
*
56177220 AGTGGAGTACATTGAAGCCAATAA
66 AGTAGAGTACATTGAAGCCAATAA
** *
56177244 ATCTTATCTCCCTAGGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGATTAC
1 ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCAGATTCTACCTCCCTGAGATTAC
56177309 AGTAGAGTACATTGAAGCCA
66 AGTAGAGTACATTGAAGCCA
56177329 GTGGCCTTAT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 79 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (89 bp):
ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCAGATTCTACCTCCCTGAGATTAC
AGTAGAGTACATTGAAGCCAATAA
Found at i:56177429 original size:529 final size:527
Alignment explanation
Indices: 56176214--56177457 Score: 1340
Period size: 529 Copynumber: 2.4 Consensus size: 527
56176204 GTGGCGAAGT
** * * * ** ** * **
56176214 AGATCGAAGAAAACGGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTGGATTTT
1 AGATCGAAGATGACAGATCTTACCTCCCTAAGCAGTAGTAGAGCACATCGAAGACAGTAGACCTT
* * * * * * * **
56176279 ACCTCCCTGAAATTACAGTGGAGTACATTGAAG-CTGGTAGTTCTATCTCTCTGGGC-AGCAG-A
66 ACCTCCCTGACA-TACAGTAGAGTACATAGAAGAC-AGCAGATCTATCTCCCTAAGCGA-CAGTA
* ** * * * * * *
56176341 GGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTCGTAGAGCAGATCGAAGATGGCGG
128 -GAACAGATCAAAGATAACAGACCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAG
* *
56176406 ATTTTACTTCCCTGAGATTACGATGGAGTACATTGAAGACAGTAGTTCTATCTCCCTGGGCAGCA
192 ATTTTACCTCCCTGAGATTACGATGGAGTACATTGAAGACAATAGTTCTATCTCCCTGGGCAGCA
* *
56176471 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC
257 GTGGAATAGATTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC
*
56176536 AAATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGCAG
322 AAATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTAGGCAG
* * **
56176601 CAGTGGAATATATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATG
387 CAGTGGAATAGATTGAAAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATG
* * * * ** *
56176666 GCGGATTTTACTTCCCTGAGATTACGGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTGGGC
452 GCAGATTCTACTTCCCTGAGATTACAGTGGAGTACATTGAAGCCAATAAATCTATCTCCCTAGGC
* *
56176731 AGCAGTTGAAT
517 AGCAGTGGAAC
* * * * * ** **
56176742 AGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATTTT
1 AGATCGAAGATGACAGATCTTACCTCCCTAAGCAGTAGTAGAGCACATCGAAGACAGTAGACCTT
* * * * * * *
56176807 ACCTCCCTGATATTACAGTGGAGTACATAGAAGCCAGTAGTTCTATCTCCCTAGGCGACAGTGGA
66 ACCTCCCTGACA-TACAGTAGAGTACATAGAAGACAGCAGATCTATCTCCCTAAGCGACAGTAGA
* ** * * * *
56176872 ATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGCTT
130 ACAGATCAAAGATAACAGACCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATT
* * * * *
56176937 TTACCTCCCTGTGGTTAC-AGTGGAGTACATTGAAGCCAATAGTTCTATCTCCCTGGG-GGATAG
195 TTACCTCCCTGAGATTACGA-TGGAGTACATTGAAGACAATAGTTCTATCTCCCTGGGCAG-CAG
*
56177000 TGGAATAGATTTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGC
258 TGGAATAGA-TTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC
*
56177065 AGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTAGGCAG
322 AAATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTAGGCAG
* *
56177130 TAGTGGAATAGATTGAAAATTACAGATCTTATCTCTCTAAACAGTAGTGGAGCAGATCGAAGATG
387 CAGTGGAATAGATTGAAAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATG
56177195 GCAGATTCTACTTCCCTGAGATTACAGTGGAGTACATTGAAGCCAATAAATCTTATCTCCCTAGG
452 GCAGATTCTACTTCCCTGAGATTACAGTGGAGTACATTGAAGCCAATAAATC-TATCTCCCTAGG
* *
56177260 CAGTAGTGGAGC
516 CAGCAGTGGAAC
* * * * * * * *
56177272 AGATCGAAGATGGCAGATTTTACCTCCCTGAG-ATTACAGTAGAGTACATTGAAGCCAGT-GGCC
1 AGATCGAAGATGACAGATCTTACCTCCCTAAGCAGT--AGTAGAGCACATCGAAGACAGTAGACC
* * ** * ** *
56177335 TTATCTCCCTGAGCA-GCAGTAGAGTAGGTTGAAGATTGCAGATCTTATCTCCCTAAGC-AGTAG
64 TTACCTCCCTGA-CATACAGTAGAGTACATAGAAGACAGCAGATC-TATCTCCCTAAGCGA-CAG
* * * * * *
56177398 TAGAGCAGATCAAAGA-AACCA-ACCCTATCTCCTTAAGCAGCAGCGGAGTAGGTCGAAGAT
126 TAGAACAGATCAAAGATAA-CAGACCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
56177458 TATAGATCTT
Statistics
Matches: 614, Mismatches: 89, Indels: 25
0.84 0.12 0.03
Matches are distributed among these distances:
527 2 0.00
528 235 0.38
529 277 0.45
530 84 0.14
531 16 0.03
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (527 bp):
AGATCGAAGATGACAGATCTTACCTCCCTAAGCAGTAGTAGAGCACATCGAAGACAGTAGACCTT
ACCTCCCTGACATACAGTAGAGTACATAGAAGACAGCAGATCTATCTCCCTAAGCGACAGTAGAA
CAGATCAAAGATAACAGACCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTT
TACCTCCCTGAGATTACGATGGAGTACATTGAAGACAATAGTTCTATCTCCCTGGGCAGCAGTGG
AATAGATTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAAT
TTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCCAGTAGTTCTATCTCCCTAGGCAGCAGT
GGAATAGATTGAAAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGGCAG
ATTCTACTTCCCTGAGATTACAGTGGAGTACATTGAAGCCAATAAATCTATCTCCCTAGGCAGCA
GTGGAAC
Found at i:56177516 original size:40 final size:40
Alignment explanation
Indices: 56177464--56177785 Score: 227
Period size: 40 Copynumber: 7.8 Consensus size: 40
56177454 AGATTATAGA
* * *
56177464 TCTTATCTCCCTAAGCAATAGAGGAGCAGCTCACATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
* * * * *
56177504 TCTTATCTCCCTAAGTAGTAGTGGAGTAGA-CAAAAAGAACCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC----ACATCAAG
*
56177547 ATATTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
* * * *
56177588 TCTTATCTCCCTAAGCAGTAGCGAAGCAGATCGCATCCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
* * *
56177628 TCTTATCTCCCTAAACAGTAGTGGAGCAGA-CAGAAAAAAAACCAA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-------ACATCAAG
* ** * * * * * *
56177673 TCCTATCTCCCTGAAGTTGCAGTAGAGCGGATAAAACCACAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCACATCA-AG
* * *
56177715 ATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCTAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
*
56177756 TCTTATCTCTCTAAGCAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
56177786 CAGAAAAAAC
Statistics
Matches: 216, Mismatches: 48, Indels: 36
0.72 0.16 0.12
Matches are distributed among these distances:
39 2 0.01
40 121 0.56
41 8 0.04
42 15 0.07
43 16 0.07
44 27 0.12
45 12 0.06
46 15 0.07
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAG
Found at i:56177974 original size:127 final size:127
Alignment explanation
Indices: 56177377--56177983 Score: 628
Period size: 127 Copynumber: 4.8 Consensus size: 127
56177367 AGATTGCAGA
* * * * **
56177377 TCTTATCTCCCTAAGCAGTAGTAGAGCAGATC-AAAGAAACCAACCCTATCT-CCTTAAGCAGCA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAAACCAATCCTATCTCCCTGAAGTTGCA
* * * * * * * * * *
56177440 GCGGAGTAGGTCGAAGATTATAGATCTTATCTCCCTAAGCAATAGAGGAGCAGCTCACATCAAG
65 GTGGAGCAGGT-TAAAACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCTAG
* * ** ** *
56177504 TCTTATCTCCCTAAGTAGTAGTGGAGTAGAC-AAAAAGAACCAGATATTATCTCCCT-AAGCAGT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAAA-AACCA-ATCCTATCTCCCTGAAGTTGC
* * * * * * * *
56177567 AGTGGAGCAGATCACATC-A-AG-TCTTATCTCCCTAAGCAGTAGCGAAGCAGATCGCATCCAG
64 AGTGGAGCAGGTTAAAACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCTAG
*
56177628 TCTTATCTCCCTAAACAGTAGTGGAGCAGACAGAAAAAAAACCAATCCTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGAC-G-AAAAAAACCAATCCTATCTCCCTGAAGTTGC
* * *
56177693 AGTAGAGC-GGATAAAACCACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCTAG
64 AGTGGAGCAGGTTAAAACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCTAG
* * *
56177756 TCTTATCTCTCTAAGCAGTAGTGGAGCAGAC-AGAAAAAACCAATCCAATCTCCTTGAAGTTGCA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGA-AAAAAACCAATCCTATCTCCCTGAAGTTGCA
* *
56177820 GTGGAGC-GGATTAAAACCACAGATCTTATCTCTCTAAG-AAGTAGTGGAGCAGATCGCATCTAG
65 GTGGAGCAGG-TTAAAACTACAGATCTTATCTCCCTAAGCAA-TAGTGGAGCAGATCGCATCTAG
** *
56177883 TCTTATCTCCCTAATTAGTAGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAAAAACCAATCCTATCTCCCTGAAGTTGCAG
*
56177948 TGGAGCAGGTTGAAGA-TACTAG-TCTTATCTCCCTAA
66 TGGAGCAGGTT-AAAACTAC-AGATCTTATCTCCCTAA
56177984 ATTTGCAGTG
Statistics
Matches: 407, Mismatches: 56, Indels: 34
0.82 0.11 0.07
Matches are distributed among these distances:
124 62 0.15
125 18 0.04
126 62 0.15
127 168 0.41
128 94 0.23
129 3 0.01
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (127 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAAAAACCAATCCTATCTCCCTGAAGTTGCAG
TGGAGCAGGTTAAAACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCTAG
Found at i:56179607 original size:30 final size:28
Alignment explanation
Indices: 56179554--56179613 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 28
56179544 TTAATTTCAA
* *
56179554 ATTTTGTTGTATATATGTACATACATAC
1 ATTTTGTTATATATATATACATACATAC
*
56179582 ATTTTGTTATATAAATATATACATACGTAC
1 ATTTTGTTATAT--ATATATACATACATAC
56179612 AT
1 AT
56179614 ATTTTTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 11 0.41
30 16 0.59
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (28 bp):
ATTTTGTTATATATATATACATACATAC
Found at i:56180265 original size:15 final size:15
Alignment explanation
Indices: 56180245--56180278 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
56180235 TTTATTTTTG
* *
56180245 TTATTTTTGCTCGTA
1 TTATTTTTACTCGCA
56180260 TTATTTTTACTCGCA
1 TTATTTTTACTCGCA
56180275 TTAT
1 TTAT
56180279 CATAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (15 bp):
TTATTTTTACTCGCA
Found at i:56182568 original size:19 final size:19
Alignment explanation
Indices: 56182544--56182587 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
56182534 TGATTATAAA
56182544 AAAATA-ATTCTAAAAAATT
1 AAAATATATT-TAAAAAATT
*
56182563 AAAATATATTTATAAAATT
1 AAAATATATTTAAAAAATT
56182582 ACAAAT
1 A-AAAT
56182588 TACAAATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATATATTTAAAAAATT
Found at i:56183589 original size:27 final size:27
Alignment explanation
Indices: 56183551--56183604 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
56183541 GTCAAATGAT
* *
56183551 TGATAAGTGATTAGTGCATGAAGCAAC
1 TGATAAATGATTAGTACATGAAGCAAC
56183578 TGATAAATGATTAGTACATGAAGCAAC
1 TGATAAATGATTAGTACATGAAGCAAC
56183605 AAAGAATGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (27 bp):
TGATAAATGATTAGTACATGAAGCAAC
Found at i:56184024 original size:17 final size:17
Alignment explanation
Indices: 56184004--56184037 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
56183994 TTATTTCAAG
56184004 TTTTTTC-ATAAACTAAT
1 TTTTTTCAATAAA-TAAT
56184021 TTTTTTCAATAAATAAT
1 TTTTTTCAATAAATAAT
56184038 GCTGAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTTTCAATAAATAAT
Found at i:56186569 original size:3 final size:3
Alignment explanation
Indices: 56186563--56186591 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
56186553 TTACTACTAC
56186563 TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
56186592 CATATTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:56187728 original size:37 final size:37
Alignment explanation
Indices: 56187663--56187771 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
56187653 TACGTATGAT
* *
56187663 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
56187698 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
56187735 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
56187772 TAAAGCTATC
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
35 10 0.14
36 3 0.04
37 56 0.81
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:56187788 original size:46 final size:46
Alignment explanation
Indices: 56187735--56187924 Score: 290
Period size: 46 Copynumber: 4.0 Consensus size: 46
56187725 TAAGTGTAGC
**
56187735 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTAT
*
56187781 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTAT
*
56187827 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTAT
56187879 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTAT
56187925 GTCTCTTGAT
Statistics
Matches: 132, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
46 87 0.66
49 2 0.02
52 43 0.33
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:56187854 original size:52 final size:51
Alignment explanation
Indices: 56187778--56187924 Score: 214
Period size: 52 Copynumber: 2.9 Consensus size: 51
56187768 TAGCTAAAGC
*
56187778 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTT-TCAC-TTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTATCACT
*
56187831 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCAC-TTTCACTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTATCACT
56187883 TATCAC--T---TTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTAT
1 TATCACTTTCACTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTAT
56187925 GTCTCTTGAT
Statistics
Matches: 90, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
46 34 0.38
49 1 0.01
52 43 0.48
53 10 0.11
54 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (51 bp):
TATCACTTTCACTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:56187898 original size:98 final size:99
Alignment explanation
Indices: 56187735--56187924 Score: 328
Period size: 98 Copynumber: 1.9 Consensus size: 99
56187725 TAAGTGTAGC
* *
56187735 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCTCT
56187800 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
56187834 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCTCT
*
56187898 TGATCAGATAAGTGTAGCCGAAGCTAT
66 TGATCAGATAAGTATAGCCGAAGCTAT
56187925 GTCTCTTGAT
Statistics
Matches: 86, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
98 77 0.90
99 9 0.10
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (99 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCTCT
TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:56187933 original size:33 final size:33
Alignment explanation
Indices: 56187891--56187957 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
56187881 CTTATCACTT
56187891 TGTCTCTTGATCAGATAAGTGTAGCCGAAGCTA
1 TGTCTCTTGATCAGATAAGTGTAGCCGAAGCTA
56187924 TGTCTCTTGATCAGATAAGTGTAGCCGAAGCTA
1 TGTCTCTTGATCAGATAAGTGTAGCCGAAGCTA
56187957 T
1 T
56187958 CACTTATCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (33 bp):
TGTCTCTTGATCAGATAAGTGTAGCCGAAGCTA
Found at i:56187962 original size:177 final size:179
Alignment explanation
Indices: 56187698--56188024 Score: 518
Period size: 177 Copynumber: 1.8 Consensus size: 179
56187688 TAAGTGTAGC
* *
56187698 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACTTATCACTTTGTCTCTTGATCAGAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCA--TA-CACTATGTCTCTTGATCAGAT
*
56187763 AAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAA-GCTAT
63 AAGTGTAGCCAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAG-CGAATGCTAT
56187827 CACTTATCACTTT-TCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
127 CACTTATCACTTTGTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
56187879 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGA-A-GCTATGTCTCTTGATCAGATAA
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCC-ATACACTATGTCTCTTGATCAGATAA
* * *
56187942 GTGTAGCCGAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAATGCTATCAC
65 GTGTAGCCAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCGAATGCTATCAC
56188007 TTATCACTTTGTCACTTG
130 TTATCACTTTGTCACTTG
56188025 ATCAGAAGTA
Statistics
Matches: 136, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
176 3 0.02
177 87 0.64
178 7 0.05
179 1 0.01
181 37 0.27
182 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.36
Consensus pattern (179 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCATACACTATGTCTCTTGATCAGATAAG
TGTAGCCAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCGAATGCTATCACT
TATCACTTTGTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:56187991 original size:46 final size:46
Alignment explanation
Indices: 56187924--56188030 Score: 180
Period size: 46 Copynumber: 2.3 Consensus size: 46
56187914 GCCGAAGCTA
56187924 TGTCTCTTGATCAGATAAGTGTAGCCGAA-GCTATCACTTATCACTT
1 TGTCTCTTGATCAGATAAGTGTAG-CGAATGCTATCACTTATCACTT
*
56187970 TGTCTCTTGATCAGATAAGTGTAGCTAATGCTATCACTTATCACTT
1 TGTCTCTTGATCAGATAAGTGTAGCGAATGCTATCACTTATCACTT
*
56188016 TGTCACTTGATCAGA
1 TGTCTCTTGATCAGA
56188031 AGTACTCAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
45 3 0.05
46 55 0.95
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (46 bp):
TGTCTCTTGATCAGATAAGTGTAGCGAATGCTATCACTTATCACTT
Found at i:56188003 original size:79 final size:79
Alignment explanation
Indices: 56187845--56187994 Score: 291
Period size: 79 Copynumber: 1.9 Consensus size: 79
56187835 ACTTTTCACT
56187845 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAG
1 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAG
56187910 TGTAGCCGAAGCTA
66 TGTAGCCGAAGCTA
*
56187924 TGTCTCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAG
1 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAG
56187989 TGTAGC
66 TGTAGC
56187995 TAATGCTATC
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 70 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (79 bp):
TGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAG
TGTAGCCGAAGCTA
Found at i:56188025 original size:125 final size:127
Alignment explanation
Indices: 56187793--56188030 Score: 374
Period size: 125 Copynumber: 1.9 Consensus size: 127
56187783 CTTATCACTT
56187793 TGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCA
1 TGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC--TT--CTTGTCACTTGATCA
*
56187858 GATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCT
62 GATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCT
56187923 A
127 A
* *
56187924 TGTCTCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC-T-TTGTCTCTTGATCAGATA
1 TGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTCTTGTCACTTGATCAGATA
*
56187987 AGTGTAG-CTAATGCTATCACTTATCACTTTGTCACTTGATCAGA
66 AGTGTAGCCGAA-GCTATCACTTATCACTTTGTCACTTGATCAGA
56188031 AGTACTCAAA
Statistics
Matches: 102, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
124 3 0.03
125 55 0.54
128 1 0.01
131 43 0.42
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (127 bp):
TGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTCTTGTCACTTGATCAGATA
AGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
Found at i:56201494 original size:21 final size:21
Alignment explanation
Indices: 56201470--56201540 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
56201460 AATTTAATTA
56201470 AATCGATTAGTTCTATAATGT
1 AATCGATTAGTTCTATAATGT
* * *
56201491 AATCAATTCAATTAAATCAATAAT-T
1 AATCGATT--AGT---TCTATAATGT
56201516 AATCGATTAGTTCTATAATGT
1 AATCGATTAGTTCTATAATGT
56201537 AATC
1 AATC
56201541 AATTCAATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
20 7 0.18
21 12 0.32
23 4 0.11
25 8 0.21
26 7 0.18
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.39
Consensus pattern (21 bp):
AATCGATTAGTTCTATAATGT
Done.