Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 185 of 185
Found at i:56600155 original size:38 final size:39
Alignment explanation
Indices: 56600097--56600174 Score: 140
Period size: 38 Copynumber: 2.0 Consensus size: 39
56600087 TACCAACCCA
*
56600097 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAAATAAAACTAAAGTCT
56600136 ACCCAATTA-CCAACCCAATAAAAATAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAAATAAAACTAAAGTCT
56600174 A
1 A
56600175 ACTCTTAAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 29 0.76
39 9 0.24
ACGTcount: A:0.51, C:0.28, G:0.03, T:0.18
Consensus pattern (39 bp):
ACCCAATTACCCAACCCAATAAAAATAAAACTAAAGTCT
Found at i:56600327 original size:17 final size:17
Alignment explanation
Indices: 56600307--56600369 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
56600297 TAATTTCAAG
56600307 AATTATGTAATGTTTTT
1 AATTATGTAATGTTTTT
* ***
56600324 AATTATGTAGTGATTCAA
1 AATTATGTAATG-TTTTT
*
56600342 AGACTTATGTAATATTTTT
1 A-A-TTATGTAATGTTTTT
56600361 AATTATGTA
1 AATTATGTA
56600370 GTGATTCAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 18 0.53
18 4 0.12
19 4 0.12
20 8 0.24
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.49
Consensus pattern (17 bp):
AATTATGTAATGTTTTT
Found at i:56600331 original size:37 final size:37
Alignment explanation
Indices: 56600304--56600378 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
56600294 TGTTAATTTC
* *
56600304 AAGAATTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
* *
56600341 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
56600378 A
1 A
56600379 TTCGGGTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (37 bp):
AAGAATTATGTAATATTTTTAATTATGTAGTAATTCA
Found at i:56600391 original size:9 final size:9
Alignment explanation
Indices: 56600377--56600407 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
56600367 GTAGTGATTC
*
56600377 AATTCGGGT
1 AATTCGGTT
56600386 AATTCGGTT
1 AATTCGGTT
56600395 AATTCGGTT
1 AATTCGGTT
56600404 AATT
1 AATT
56600408 TTTAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:56605136 original size:7 final size:7
Alignment explanation
Indices: 56605118--56605175 Score: 71
Period size: 7 Copynumber: 8.3 Consensus size: 7
56605108 TGATTTAAAT
*
56605118 CTAAGTC
1 CTAAGCC
56605125 CTAAGCC
1 CTAAGCC
*
56605132 TTAAGCC
1 CTAAGCC
56605139 CTAAGCC
1 CTAAGCC
56605146 CTAAGCC
1 CTAAGCC
*
56605153 CTAAACC
1 CTAAGCC
*
56605160 CTAAACC
1 CTAAGCC
*
56605167 CTAAACC
1 CTAAGCC
56605174 CT
1 CT
56605176 TCCCCCTCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.33, C:0.40, G:0.09, T:0.19
Consensus pattern (7 bp):
CTAAGCC
Found at i:56609686 original size:59 final size:58
Alignment explanation
Indices: 56609594--56609711 Score: 191
Period size: 59 Copynumber: 2.0 Consensus size: 58
56609584 TCCTAAACTT
* *
56609594 TAAAACTCAATATTATAATTAAATTTAATTATTTTAATCAATAATATTAATACATATNC
1 TAAAACCCAATATTATAATTAAATTTAACTATTTTAATCAATAATATTAATACATAT-C
**
56609653 TAAAACCCAATATTATAATTAAATTTAACTATTTTAATTGATAATATTAATACATATC
1 TAAAACCCAATATTATAATTAAATTTAACTATTTTAATCAATAATATTAATACATATC
56609711 T
1 T
56609712 CGTGCATAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
58 2 0.04
59 53 0.96
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.42
Consensus pattern (58 bp):
TAAAACCCAATATTATAATTAAATTTAACTATTTTAATCAATAATATTAATACATATC
Found at i:56610645 original size:31 final size:29
Alignment explanation
Indices: 56610610--56610686 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
56610600 TTAATAGCTT
*
56610610 AGTGACTAAAATGTTACAACACGATAACATA
1 AGTGACTAAAATGTAACAACAC-A-AACATA
* * ***
56610641 AGTGACAAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAACACAAACATA
56610670 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
56610687 CTAAGGTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 21 0.55
30 1 0.03
31 16 0.42
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAACACAAACATA
Found at i:56617170 original size:18 final size:18
Alignment explanation
Indices: 56617147--56617184 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
56617137 AACTGACCGA
56617147 TTAACCGAATTCAA-TCGG
1 TTAACCGAATT-AATTCGG
56617165 TTAACCGAATTAATTCGG
1 TTAACCGAATTAATTCGG
56617183 TT
1 TT
56617185 TTACCCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (18 bp):
TTAACCGAATTAATTCGG
Found at i:56625253 original size:20 final size:20
Alignment explanation
Indices: 56625228--56625265 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
56625218 GGAGCAATTG
*
56625228 AATCAATTTGATTAAAATCA
1 AATCAAATTGATTAAAATCA
56625248 AATCAAATTGATTAAAAT
1 AATCAAATTGATTAAAAT
56625266 TATCTCCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (20 bp):
AATCAAATTGATTAAAATCA
Found at i:56627123 original size:29 final size:29
Alignment explanation
Indices: 56627043--56627127 Score: 100
Period size: 30 Copynumber: 2.9 Consensus size: 29
56627033 GAGAATTTTG
*
56627043 AAAAA-TTTGAGACCTAATTAAAATTTCC
1 AAAAATTTTGGGACCTAATTAAAATTTCC
* * ***
56627071 AAAACTTTAAGGGAAAAAATTAAAATTTCC
1 AAAAATTT-TGGGACCTAATTAAAATTTCC
56627101 AAAAATTTTGGGACCTAATTAAAATTT
1 AAAAATTTTGGGACCTAATTAAAATTT
56627128 TAAAAAAATT
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
28 4 0.09
29 17 0.39
30 23 0.52
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (29 bp):
AAAAATTTTGGGACCTAATTAAAATTTCC
Found at i:56627126 original size:59 final size:59
Alignment explanation
Indices: 56627043--56627170 Score: 161
Period size: 59 Copynumber: 2.2 Consensus size: 59
56627033 GAGAATTTTG
* ** * * *
56627043 AAAAA-TTTGAGACCTAATTAAAA-TTTCCAAAACTTTAAGGGAAAAAATTAAAATTTCC
1 AAAAATTTTGGGACCTAATTAAAATTTTAAAAAAATTCAAGGG-AAAAATCAAAATTTCC
*
56627101 AAAAATTTTGGGACCTAATTAAAATTTTAAAAAAATTCAAGGGAGAAATCAAAATTTCC
1 AAAAATTTTGGGACCTAATTAAAATTTTAAAAAAATTCAAGGGAAAAATCAAAATTTCC
*
56627160 CAAAATTTTGG
1 AAAAATTTTGG
56627171 AGGGACTCCC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
58 5 0.08
59 41 0.68
60 14 0.23
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (59 bp):
AAAAATTTTGGGACCTAATTAAAATTTTAAAAAAATTCAAGGGAAAAATCAAAATTTCC
Found at i:56628003 original size:22 final size:21
Alignment explanation
Indices: 56627978--56628029 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
56627968 TAGATATTCT
*
56627978 TAATATTAA-ATTACTAAAATCA
1 TAATATTAATACTA-TAAAAT-A
56628000 TAATATATAATACTATAAAATA
1 TAATAT-TAATACTATAAAATA
56628022 TAAT-TTAA
1 TAATATTAA
56628030 CATAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 11 0.41
23 9 0.33
24 3 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATATTAATACTATAAAATA
Found at i:56628042 original size:121 final size:121
Alignment explanation
Indices: 56627905--56628196 Score: 496
Period size: 122 Copynumber: 2.4 Consensus size: 121
56627895 TAATCATATC
*
56627905 TTAACATAATTTTTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT-
1 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
*
56627969 AGATATTCTTAATATTAAATTACTAAAATCATAATATATAATACTATAAAATATAAT
66 AGATATTCTT-ATATGAAATTACTAAAATCATAATATATAATACTATAAAATATAAT
56628026 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
1 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT-
* *
56628091 AATATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAAT
65 AAGATATTCTTATATGAAATTACTAAAATCATAATATATAATACTATAAAATATAAT
* * *
56628148 TTAAAATAATAATAATTAAATATAATTTAATAAAAATATATAATTTAAT
1 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
56628197 CTAAAGTTTG
Statistics
Matches: 162, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
121 63 0.39
122 90 0.56
123 9 0.06
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (121 bp):
TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
AGATATTCTTATATGAAATTACTAAAATCATAATATATAATACTATAAAATATAAT
Found at i:56628170 original size:26 final size:28
Alignment explanation
Indices: 56628139--56628192 Score: 85
Period size: 26 Copynumber: 2.0 Consensus size: 28
56628129 TAATACTATA
*
56628139 AAATATAATTTAA-AATAATA-ATAATT
1 AAATATAATTTAATAAAAATATATAATT
56628165 AAATATAATTTAATAAAAATATATAATT
1 AAATATAATTTAATAAAAATATATAATT
56628193 TAATCTAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 13 0.52
27 6 0.24
28 6 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (28 bp):
AAATATAATTTAATAAAAATATATAATT
Found at i:56628350 original size:27 final size:28
Alignment explanation
Indices: 56628320--56628378 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
56628310 TAAATATAGT
*
56628320 AATG-AAGAATTTATAGTATACGATTAA
1 AATGCAAGAATTTATAGTATACAATTAA
*
56628347 AATGCTAATAATTTATAGTATACAATTAA
1 AATGC-AAGAATTTATAGTATACAATTAA
56628376 AAT
1 AAT
56628379 ATTATAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 4 0.14
29 24 0.86
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (28 bp):
AATGCAAGAATTTATAGTATACAATTAA
Found at i:56632023 original size:89 final size:90
Alignment explanation
Indices: 56631853--56632047 Score: 234
Period size: 89 Copynumber: 2.2 Consensus size: 90
56631843 TGTGGCTGAG
* * * * *
56631853 CCACCAGTG-TTGCAGGTTAATATACTGCTAGCAGTTGTGATTACACAACGAGTTTGCAGATAAA
1 CCACCAGTGTTTGCAAGTTAATACACTGCCAGCACTTGTGAATACACAACGAGTTTGCAGATAAA
*
56631917 AGATGCCAGTATGAATTATGGAT-A
66 AGATGCCAGTATAAATTATGGATAA
* * * *
56631941 CCACCAGTGTTTGCAAGTTAATACGCTGCCAGTACTTGTGAATACACAACTTAG-TTGCAGATTA
1 CCACCAGTGTTTGCAAGTTAATACACTGCCAGCACTTGTGAATACACAAC-GAGTTTGCAGATAA
* **
56632005 AAGCTGCTGGTATAAATTATGGATAAA
65 AAGATGCCAGTATAAATTATGGAT-AA
56632032 CCACCAGTGTTTGCAA
1 CCACCAGTGTTTGCAA
56632048 ATTATTAAAC
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
88 9 0.10
89 62 0.69
90 2 0.02
91 17 0.19
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (90 bp):
CCACCAGTGTTTGCAAGTTAATACACTGCCAGCACTTGTGAATACACAACGAGTTTGCAGATAAA
AGATGCCAGTATAAATTATGGATAA
Found at i:56660499 original size:14 final size:15
Alignment explanation
Indices: 56660475--56660504 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
56660465 CTATTTCCCA
56660475 AAATATTATTTATTT
1 AAATATTATTTATTT
56660490 AAAT-TTATTTATTT
1 AAATATTATTTATTT
56660504 A
1 A
56660505 TTTATTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AAATATTATTTATTT
Found at i:56662577 original size:21 final size:21
Alignment explanation
Indices: 56662537--56662577 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
56662527 TCGTGATTTA
*
56662537 AAAAGTTATTCCTTTTAAAAG
1 AAAAGTTATTCCTTTCAAAAG
56662558 AAAAGTTATTACC-TTCAAAA
1 AAAAGTTATT-CCTTTCAAAA
56662578 CCTTGTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (21 bp):
AAAAGTTATTCCTTTCAAAAG
Found at i:56663201 original size:27 final size:27
Alignment explanation
Indices: 56663161--56663214 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
56663151 CAGTAACAGA
* *
56663161 ACAGAACAATGTGGGCTTTAGCCCAAT
1 ACAGAACAAGGTGGGCCTTAGCCCAAT
56663188 ACAGAACAAGGTGGGCCTTAGCCCAAT
1 ACAGAACAAGGTGGGCCTTAGCCCAAT
56663215 GCCATATCAG
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:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
ACAGAACAAGGTGGGCCTTAGCCCAAT
Found at i:56663724 original size:27 final size:27
Alignment explanation
Indices: 56663667--56663825 Score: 121
Period size: 27 Copynumber: 5.9 Consensus size: 27
56663657 ACCTTATAAA
* * * *
56663667 GGTATTTCGGTAATTTTCCAAACTAAA
1 GGTATTTCAGTAATTTTGCAAACTCAG
*
56663694 GGTATTTCAGTAATTTTGCAAATTCAG
1 GGTATTTCAGTAATTTTGCAAACTCAG
** *
56663721 GGTACTTT--GTTAATTTCACAAACTGAG
1 GGTA-TTTCAG-TAATTTTGCAAACTCAG
*
56663748 GGTATTTTAGTAATTTTGCAAA-TCGAG
1 GGTATTTCAGTAATTTTGCAAACTC-AG
* * *
56663775 GGTACTTC-GATAATTTTAC-AAGTCGAG
1 GGTATTTCAG-TAATTTTGCAAACTC-AG
*
56663802 GGTATTTCAGTAATTTTGTAAACT
1 GGTATTTCAGTAATTTTGCAAACT
56663826 AAAGTATTCT
Statistics
Matches: 104, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
26 8 0.08
27 88 0.85
28 8 0.08
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTGCAAACTCAG
Found at i:56663736 original size:54 final size:54
Alignment explanation
Indices: 56663667--56663819 Score: 177
Period size: 54 Copynumber: 2.8 Consensus size: 54
56663657 ACCTTATAAA
* * * *
56663667 GGTATTTCGGTAATTTTCCAAACTAAAGGTATTTCAGTAATTTTGCAAATTC-AG
1 GGTACTTCGATAATTTTCCAAACTGAGGGTATTTCAGTAATTTTGCAAA-TCGAG
* * *
56663721 GGTACTTTGTTAA-TTTCACAAACTGAGGGTATTTTAGTAATTTTGCAAATCGAG
1 GGTACTTCGATAATTTTC-CAAACTGAGGGTATTTCAGTAATTTTGCAAATCGAG
* *
56663775 GGTACTTCGATAATTTTAC-AAGTCGAGGGTATTTCAGTAATTTTG
1 GGTACTTCGATAATTTTCCAAACT-GAGGGTATTTCAGTAATTTTG
56663820 TAAACTAAAG
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
53 9 0.11
54 72 0.86
55 3 0.04
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (54 bp):
GGTACTTCGATAATTTTCCAAACTGAGGGTATTTCAGTAATTTTGCAAATCGAG
Found at i:56663930 original size:63 final size:63
Alignment explanation
Indices: 56663831--56663957 Score: 209
Period size: 63 Copynumber: 2.0 Consensus size: 63
56663821 AAACTAAAGT
* *
56663831 ATTCTAAACAGAGATAACGGTGCCAATTGGCCTAAGGCCCATTCTCGACCCAAATGAGCCCAC
1 ATTCTAAACAGAGATAACGATGCCAAATGGCCTAAGGCCCATTCTCGACCCAAATGAGCCCAC
* * *
56663894 ATTCTAAACAGAGATAACGATGCGAAATGGCCTAAGGCCCATTCTCGGCCCAAATGGGCCCAC
1 ATTCTAAACAGAGATAACGATGCCAAATGGCCTAAGGCCCATTCTCGACCCAAATGAGCCCAC
56663957 A
1 A
56663958 CCCTCGTATG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.18
Consensus pattern (63 bp):
ATTCTAAACAGAGATAACGATGCCAAATGGCCTAAGGCCCATTCTCGACCCAAATGAGCCCAC
Found at i:56666953 original size:181 final size:181
Alignment explanation
Indices: 56666629--56666994 Score: 612
Period size: 181 Copynumber: 2.0 Consensus size: 181
56666619 ATGAGATCGG
56666629 ATTTGAAAATAATTTTGAAATTGACTTCAATTGGAAACTAAGGACCAATTTGGAGAAAGGAGGAA
1 ATTTGAAAATAATTTTGAAATTGACTTCAATTGGAAACTAAGGACCAATTTGGAGAAAGGAGGAA
*
56666694 ACTATAGGTGGTCAAAGGGTCAAAAGCCCAAATTTTAAAAATTGGTTGGCTATATAAGACCACCC
66 ACTATAGGTGGT--AAGGGTCAAAAGCCCAAATTTTAAAAATTGATTGGCTATATAAGACCACCC
56666759 ACAATCCCTTCCCTCCACACTTTCAACCATTTCAAAACTCTGTTAGATCTGAAA
129 ACAATCCCTTCCCTCCACACTTTCAACCATTTCAAAACTCTGTTAGATCT-AAA
*
56666813 ATTTGAAAATAATTTTGAGATTTG-CTTCAATTGGAAACTAAGGACCAATTTGGA-AAAGGGAGG
1 ATTTGAAAATAATTTTGA-AATTGACTTCAATTGGAAACTAAGGACCAATTTGGAGAAA-GGAGG
* *
56666876 AAACTATATGTGGT-AGGGTCAAAAGCCCAATTTTTAAAAATTGATTGGCTATATAAGACCACCC
64 AAACTATAGGTGGTAAGGGTCAAAAGCCCAAATTTTAAAAATTGATTGGCTATATAAGACCACCC
* *
56666940 ACAGTCCCTTCCCTCCACACTTTCAACCATTTCAAAACTTTGTTAGATCTAAA
129 ACAATCCCTTCCCTCCACACTTTCAACCATTTCAAAACTCTGTTAGATCTAAA
56666993 AT
1 AT
56666995 CAAGAGTTTT
Statistics
Matches: 174, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
180 5 0.03
181 96 0.55
183 3 0.02
184 66 0.38
185 4 0.02
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (181 bp):
ATTTGAAAATAATTTTGAAATTGACTTCAATTGGAAACTAAGGACCAATTTGGAGAAAGGAGGAA
ACTATAGGTGGTAAGGGTCAAAAGCCCAAATTTTAAAAATTGATTGGCTATATAAGACCACCCAC
AATCCCTTCCCTCCACACTTTCAACCATTTCAAAACTCTGTTAGATCTAAA
Found at i:56668300 original size:25 final size:23
Alignment explanation
Indices: 56668255--56668300 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
56668245 TATAGAGATA
* *
56668255 ATGAATAACATTTGTTTATTTCT
1 ATGAATAACATTTGATCATTTCT
56668278 ATGAATAATCAATTTGATCATTT
1 ATGAATAA-C-ATTTGATCATTT
56668301 TAGTAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 1 0.05
25 10 0.53
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.48
Consensus pattern (23 bp):
ATGAATAACATTTGATCATTTCT
Found at i:56668924 original size:30 final size:30
Alignment explanation
Indices: 56668873--56668932 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
56668863 ATTTAAAATT
* *
56668873 CTTAAAGAAAACAAATTGAACACGAACAAA
1 CTTAAAAAAAACAAATCGAACACGAACAAA
*
56668903 CTTAAAAATAAACAAA-CGAACATGAACAAA
1 CTTAAAAA-AAACAAATCGAACACGAACAAA
56668933 AATACGTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.62, C:0.17, G:0.08, T:0.13
Consensus pattern (30 bp):
CTTAAAAAAAACAAATCGAACACGAACAAA
Found at i:56679218 original size:31 final size:30
Alignment explanation
Indices: 56679183--56679242 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
56679173 AGAGGTGGGA
*
56679183 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAA-GGAATAAAAATTTTAGGGGAAAAG
* * *
56679214 TGGGAATGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGAATAAAAATTTTAGGGGAAAA
56679243 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.22
Consensus pattern (30 bp):
TGGGAAGGAATAAAAATTTTAGGGGAAAAG
Found at i:56695289 original size:21 final size:19
Alignment explanation
Indices: 56695260--56695305 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
56695250 GAGGTTCAAG
56695260 GTTT-GGGTTTGAGATTTAA
1 GTTTAGGGTTTGAG-TTTAA
*
56695279 GATTTAGGGTTTGAGTTTGA
1 G-TTTAGGGTTTGAGTTTAA
56695299 GTTTAGG
1 GTTTAGG
56695306 CTTGGGCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 7 0.29
20 8 0.33
21 9 0.38
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.46
Consensus pattern (19 bp):
GTTTAGGGTTTGAGTTTAA
Found at i:56695525 original size:104 final size:104
Alignment explanation
Indices: 56695345--56696083 Score: 1460
Period size: 104 Copynumber: 7.1 Consensus size: 104
56695335 AAGGTTTGAG
56695345 GGTTTGAGGTTACATATTTGGGTTTAAGGTTCAAGGGTCTAGTGTTACAAATTATGAATTTAATA
1 GGTTTGAGGTTACATATTTGGGTTTAAGGTTCAAGGGTCTAGTGTTACAAATTATGAATTTAATA
56695410 TTTAGGGTTCGAGTTTAGGGTATAAGGGTTCGGTGTTAT
66 TTTAGGGTTCGAGTTTAGGGTATAAGGGTTCGGTGTTAT
56695449 GGTTTGAGGTTACATATTTGGGTTTAAGGTTCAAGGGTCTAGTGTTACAAATTATGAATTTAATA
1 GGTTTGAGGTTACATATTTGGGTTTAAGGTTCAAGGGTCTAGTGTTACAAATTATGAATTTAATA
56695514 TTTAGGGTTCGAGTTTAGGGTATAAGGGTTCGGTGTTAT
66 TTTAGGGTTCGAGTTTAGGGTATAAGGGTTCGGTGTTAT
56695553 GGTTTGAGGTTACATATTTGGGTTTAAGGTTCAAGGGTCTAGTGTTACAAATTATGAATTTAATA
1 GGTTTGAGGTTACATATTTGGGTTTAAGGTTCAAGGGTCTAGTGTTACAAATTATGAATTTAATA
56695618 TTTAGGGTTCGAGTTTAGGGTATAAGGGTTCGGTGTTAT
66 TTTAGGGTTCGAGTTTAGGGTATAAGGGTTCGGTGTTAT
56695657 GGTTTGAGGTTACATATTTGGGTTTAAGGTTCAAGGGTCTAGTGTTACAAATTATGAATTTAATA
1 GGTTTGAGGTTACATATTTGGGTTTAAGGTTCAAGGGTCTAGTGTTACAAATTATGAATTTAATA
56695722 TTTAGGGTTCGAGTTTAGGGTATAAGGGTTCGGTGTTAT
66 TTTAGGGTTCGAGTTTAGGGTATAAGGGTTCGGTGTTAT
56695761 GGTTTGAGGTTACATATTTGGGTTTAAGGTTCAAGGGTCTAGTGTTACAAATTATGAATTTAATA
1 GGTTTGAGGTTACATATTTGGGTTTAAGGTTCAAGGGTCTAGTGTTACAAATTATGAATTTAATA
56695826 TTTAGGGTTCGAGTTTAGGGTATAAGGGTTCGGTGTTAT
66 TTTAGGGTTCGAGTTTAGGGTATAAGGGTTCGGTGTTAT
56695865 GGTTTGAGGTTACATATTTGGGTTTAAGGTTCAAGGGTCTAGTGTTACAAATTATGAATTTAATA
1 GGTTTGAGGTTACATATTTGGGTTTAAGGTTCAAGGGTCTAGTGTTACAAATTATGAATTTAATA
56695930 TTTAGGGTTCGAGTTTAGGGTATAAGGGTTCGGTGTTAT
66 TTTAGGGTTCGAGTTTAGGGTATAAGGGTTCGGTGTTAT
56695969 GGTTTGAGGTTACATATTTGGGTTTAAGGTTCAAGGGTCTAGTGTTACAAATTATGAATTTAATA
1 GGTTTGAGGTTACATATTTGGGTTTAAGGTTCAAGGGTCTAGTGTTACAAATTATGAATTTAATA
*
56696034 TTTAGGGTTCGAGTTTAGGGTATAAGGGTTTGGTGTTAT
66 TTTAGGGTTCGAGTTTAGGGTATAAGGGTTCGGTGTTAT
*
56696073 GGTTTGGGGTT
1 GGTTTGAGGTT
56696084 TTTTAATTTT
Statistics
Matches: 633, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 633 1.00
ACGTcount: A:0.25, C:0.06, G:0.29, T:0.41
Consensus pattern (104 bp):
GGTTTGAGGTTACATATTTGGGTTTAAGGTTCAAGGGTCTAGTGTTACAAATTATGAATTTAATA
TTTAGGGTTCGAGTTTAGGGTATAAGGGTTCGGTGTTAT
Found at i:56698943 original size:16 final size:16
Alignment explanation
Indices: 56698899--56698943 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
56698889 TTTTAAATGA
*
56698899 TTTAATATAATGGTA-
1 TTTAATATAATGATAT
*
56698914 -TTAATA-AATAATAT
1 TTTAATATAATGATAT
56698928 TTTAATATAATGATAT
1 TTTAATATAATGATAT
56698944 ATGAAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
13 5 0.21
14 6 0.25
15 6 0.25
16 7 0.29
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (16 bp):
TTTAATATAATGATAT
Found at i:56698984 original size:33 final size:33
Alignment explanation
Indices: 56698923--56698985 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
56698913 ATTAATAAAT
* * * **
56698923 AATATTTTAATATAATGATATATGAAATATTTA
1 AATAATTTAATATAATAATACACAAAATATTTA
56698956 AATAATTTAATATAATAATACACAAAATAT
1 AATAATTTAATATAATAATACACAAAATAT
56698986 AAATTAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (33 bp):
AATAATTTAATATAATAATACACAAAATATTTA
Found at i:56700627 original size:21 final size:21
Alignment explanation
Indices: 56700601--56700640 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
56700591 CATAAGCTTT
56700601 CTCTAGATCCACTTTTAATGA
1 CTCTAGATCCACTTTTAATGA
56700622 CTCTAGATCCACTTTTAAT
1 CTCTAGATCCACTTTTAAT
56700641 AGTCATCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (21 bp):
CTCTAGATCCACTTTTAATGA
Found at i:56701642 original size:16 final size:16
Alignment explanation
Indices: 56701608--56701652 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
56701598 TTATGTAAAA
56701608 AAATTAAAT-TATATC
1 AAATTAAATATATATC
*
56701623 AAATTAAATATATATT
1 AAATTAAATATATATC
56701639 AAATCCTAAATATA
1 AAAT--TAAATATA
56701653 AATAGTAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 9 0.35
16 9 0.35
18 8 0.31
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATTAAATATATATC
Found at i:56724072 original size:33 final size:33
Alignment explanation
Indices: 56723972--56724089 Score: 95
Period size: 33 Copynumber: 3.7 Consensus size: 33
56723962 TCTTTTAGGC
* * *
56723972 TTAGTAGTTAATCTTCTTCACCATTATTAAGGT
1 TTAGTAGTTAGTCTTTTTCACCATTATTAGGGT
** * *
56724005 TTAGTTCTTAG-CTTTTTCTA--GTT-TT-GGTT
1 TTAGTAGTTAGTCTTTTTC-ACCATTATTAGGGT
56724034 GTTAGTAGTTAGTCTTTTTCACCATTATTAGGGT
1 -TTAGTAGTTAGTCTTTTTCACCATTATTAGGGT
*
56724068 TTAGTAGTT-GACGTTTTTCACC
1 TTAGTAGTTAGTC-TTTTTCACC
56724090 TCCATTACTA
Statistics
Matches: 65, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
29 2 0.03
30 12 0.18
31 9 0.14
32 10 0.15
33 29 0.45
34 3 0.05
ACGTcount: A:0.19, C:0.14, G:0.17, T:0.50
Consensus pattern (33 bp):
TTAGTAGTTAGTCTTTTTCACCATTATTAGGGT
Found at i:56724795 original size:27 final size:27
Alignment explanation
Indices: 56724765--56724816 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
56724755 GGTTCGATCA
*
56724765 TTGGAATAATCGAGTGTTCCTTTGTCT
1 TTGGAATAATCGAGTGTTCCATTGTCT
* *
56724792 TTGGAATACTCGGGTGTTCCATTGT
1 TTGGAATAATCGAGTGTTCCATTGT
56724817 AACACCATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.17, C:0.15, G:0.25, T:0.42
Consensus pattern (27 bp):
TTGGAATAATCGAGTGTTCCATTGTCT
Found at i:56725895 original size:26 final size:28
Alignment explanation
Indices: 56725853--56725905 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 28
56725843 TATGTTCTAA
56725853 TTTTCTCCTTTTCTCTT-CTTT-TTTTG
1 TTTTCTCCTTTTCTCTTCCTTTATTTTG
*
56725879 TTTTCT-CTTCTTTTCTTCCTTTATTTT
1 TTTTCTCCTT-TTCTCTTCCTTTATTTT
56725906 CCTCTCGCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 3 0.13
26 12 0.52
27 4 0.17
28 4 0.17
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.74
Consensus pattern (28 bp):
TTTTCTCCTTTTCTCTTCCTTTATTTTG
Found at i:56728266 original size:31 final size:31
Alignment explanation
Indices: 56728209--56728268 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
56728199 GGGGGGGGGA
*
56728209 TGGGAAGGGAATAAAAGTTTTAGGGAAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAAG
* * *
56728240 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAA
56728269 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGAAAAAG
Found at i:56729063 original size:17 final size:19
Alignment explanation
Indices: 56729041--56729075 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
56729031 CCAATTCAAA
56729041 ATCAATTT-CA-TATTTTC
1 ATCAATTTACACTATTTTC
56729058 ATCAATTTACACTATTTT
1 ATCAATTTACACTATTTT
56729076 TAATTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.51
Consensus pattern (19 bp):
ATCAATTTACACTATTTTC
Found at i:56729383 original size:17 final size:17
Alignment explanation
Indices: 56729361--56729393 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
56729351 CAACCAATTG
56729361 TCATTTTATACAATTTT
1 TCATTTTATACAATTTT
*
56729378 TCATTTTATTCAATTT
1 TCATTTTATACAATTT
56729394 AGTCCCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (17 bp):
TCATTTTATACAATTTT
Found at i:56742152 original size:15 final size:15
Alignment explanation
Indices: 56742132--56742186 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
56742122 ATTCAATATT
56742132 AATATTTTAATAATA
1 AATATTTTAATAATA
* *
56742147 AATATTTATTACAATTA
1 AATATTT-TAATAA-TA
* *
56742164 TATATATTAATAATA
1 AATATTTTAATAATA
56742179 AATATTTT
1 AATATTTT
56742187 GTAGTATAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
15 15 0.50
16 8 0.27
17 7 0.23
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:56745522 original size:83 final size:83
Alignment explanation
Indices: 56745413--56745581 Score: 320
Period size: 83 Copynumber: 2.0 Consensus size: 83
56745403 GGTGCCTATG
56745413 TTAGTACAATCATTTGTGATAAAAAGAAAATAAAAGAAATTATTTTTTTCTCTTTATATATATAT
1 TTAGTACAATCATTTGTGATAAAAAGAAAATAAAAGAAATTATTTTTTTCTCTTTATATATATAT
56745478 ACATATATTATTTTGACT
66 ACATATATTATTTTGACT
* *
56745496 TTAGTATAATCATTTGTGATAAAAAGAAAATCAAAGAAATTATTTTTTTCTCTTTATATATATAT
1 TTAGTACAATCATTTGTGATAAAAAGAAAATAAAAGAAATTATTTTTTTCTCTTTATATATATAT
56745561 ACATATATTATTTTGACT
66 ACATATATTATTTTGACT
56745579 TTA
1 TTA
56745582 TATTTTTTTT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (83 bp):
TTAGTACAATCATTTGTGATAAAAAGAAAATAAAAGAAATTATTTTTTTCTCTTTATATATATAT
ACATATATTATTTTGACT
Found at i:56746146 original size:45 final size:45
Alignment explanation
Indices: 56746070--56746198 Score: 204
Period size: 45 Copynumber: 2.8 Consensus size: 45
56746060 CTAACACTAC
* *
56746070 GTTTGGTTGGACTGTAATTGAAATAGGGTTGTAATAATAATTCAATT
1 GTTTGGTT-GAATGTAA-TGAAATAGAGTTGTAATAATAATTCAATT
*
56746117 GTTTGGTTGAATGTAATGAAATAGAGTTGTAATAATAATTTAATT
1 GTTTGGTTGAATGTAATGAAATAGAGTTGTAATAATAATTCAATT
*
56746162 GTTTGGTTGAATGGAATGAAATAGAGTTGTAATAATA
1 GTTTGGTTGAATGTAATGAAATAGAGTTGTAATAATA
56746199 TTCTTGTGTT
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 63 0.81
46 7 0.09
47 8 0.10
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.40
Consensus pattern (45 bp):
GTTTGGTTGAATGTAATGAAATAGAGTTGTAATAATAATTCAATT
Found at i:56757359 original size:18 final size:18
Alignment explanation
Indices: 56757336--56757371 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
56757326 CACAGTCTTG
*
56757336 TTTTTAGGTTTGATTTTA
1 TTTTTAGGTTTAATTTTA
*
56757354 TTTTTAGTTTTAATTTTA
1 TTTTTAGGTTTAATTTTA
56757372 AAAGTTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.69
Consensus pattern (18 bp):
TTTTTAGGTTTAATTTTA
Found at i:56762532 original size:27 final size:27
Alignment explanation
Indices: 56762484--56762563 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 27
56762474 ATAAGACCAT
* *
56762484 TGGCGCCTCTCA-ACATGACACCACTAA
1 TGGCGCCTCTCAGATA-GGCACCACTAA
* * * *
56762511 TGGCGCTTGTCAGATAGGCACCACCAT
1 TGGCGCCTCTCAGATAGGCACCACTAA
* *
56762538 TGGTGCCTCTGAGATAGGCACCACTA
1 TGGCGCCTCTCAGATAGGCACCACTA
56762564 CTTTGTATTA
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
27 39 0.95
28 2 0.05
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.21
Consensus pattern (27 bp):
TGGCGCCTCTCAGATAGGCACCACTAA
Found at i:56765678 original size:24 final size:24
Alignment explanation
Indices: 56765651--56765697 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
56765641 ATTGAAATGG
56765651 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
56765675 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
56765698 GATATATATA
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):
ATTGAATTTATATTGATTGAATTT
Found at i:56765912 original size:41 final size:39
Alignment explanation
Indices: 56765860--56765965 Score: 126
Period size: 37 Copynumber: 2.7 Consensus size: 39
56765850 TCAGGTCAAC
*
56765860 GAGACACTGGGTGTCAATTTAGTACTTCGGGTTAATTCGAT
1 GAGACACTGGGTGTCAATTTA-TACTTCGGGTTAA-CCGAT
* * * *
56765901 GAGGCATTGGGTGCCAA-TT-TACTTCGGTTTAACCGAT
1 GAGACACTGGGTGTCAATTTATACTTCGGGTTAACCGAT
56765938 GAGACACTGGGTGTCAATTTATTACTTC
1 GAGACACTGGGTGTCAATTTA-TACTTC
56765966 AAATTATCTG
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
37 18 0.33
38 14 0.26
40 8 0.15
41 14 0.26
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (39 bp):
GAGACACTGGGTGTCAATTTATACTTCGGGTTAACCGAT
Found at i:56782723 original size:17 final size:18
Alignment explanation
Indices: 56782698--56782732 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
56782688 ACACGTGCCA
56782698 AATTCTTATATT-TTTAT
1 AATTCTTATATTATTTAT
*
56782715 AATTTTTATATTATTTAT
1 AATTCTTATATTATTTAT
56782733 TAAGCCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (18 bp):
AATTCTTATATTATTTAT
Found at i:56785698 original size:18 final size:17
Alignment explanation
Indices: 56785675--56785744 Score: 61
Period size: 17 Copynumber: 4.0 Consensus size: 17
56785665 TAAAAATATT
56785675 TTTTATAATTTTTAAAAA
1 TTTTAT-ATTTTTAAAAA
56785693 TTTTAT-TTTTTAAATAAA
1 TTTTATATTTTT-AA-AAA
* **
56785711 TTGTATATTTTTATGAA
1 TTTTATATTTTTAAAAA
* *
56785728 TTTTTTAATTTTAAAAA
1 TTTTATATTTTTAAAAA
56785745 ATTAATTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
16 5 0.12
17 16 0.39
18 15 0.37
19 5 0.12
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTTATATTTTTAAAAA
Found at i:56791642 original size:64 final size:64
Alignment explanation
Indices: 56791564--56791693 Score: 251
Period size: 64 Copynumber: 2.0 Consensus size: 64
56791554 AATAATATTA
*
56791564 CCTGAATCTCTTCTGAAGTTTTACTTATTAGTTATGTTTTGAGTATCTTCTGGAGCACCCACTT
1 CCTGAATCTCTTCTGAAGTTTTACTTATTAGTTATGTTTTGAGTATCTGCTGGAGCACCCACTT
56791628 CCTGAATCTCTTCTGAAGTTTTACTTATTAGTTATGTTTTGAGTATCTGCTGGAGCACCCACTT
1 CCTGAATCTCTTCTGAAGTTTTACTTATTAGTTATGTTTTGAGTATCTGCTGGAGCACCCACTT
56791692 CC
1 CC
56791694 ACTATATGAC
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (64 bp):
CCTGAATCTCTTCTGAAGTTTTACTTATTAGTTATGTTTTGAGTATCTGCTGGAGCACCCACTT
Found at i:56795741 original size:103 final size:102
Alignment explanation
Indices: 56795614--56796083 Score: 692
Period size: 103 Copynumber: 4.6 Consensus size: 102
56795604 TTGCATATAA
** *
56795614 AGGGGTTGCTGTGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCTA-CCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
56795679 TAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
65 TAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
*
56795717 AGTGGTTGCTAAGTGCTGATTCCCCTACCTATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCTACC-ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
56795782 TAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
65 TAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
*
56795820 AGTGGTTGCTAAGTGCTGATTCCCCTACCTATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCTACC-ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
* *
56795885 TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCTCCCG
65 TAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
* * * *
56795923 AGGGGTTGCTAAGTGTTGATTCCCCGACCCATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
1 AGGGGTTGCTAAGTGCTGATTCCCCTA-CCA-TTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
* * *
56795988 TGAAATGT-GAAGGGGGTTGCAAAGTGCTGATTCCCCCA
64 TTAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
** * * * *
56796026 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGG-TGCTAAGTGCGGAATCCACC
1 AGGGGTTGCTAAGTGCTGATTCCCCTA-CCATTGGTGGTTGCTAAGTGCTGATTCCACC
56796084 AACAACGGTT
Statistics
Matches: 341, Mismatches: 23, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
101 18 0.05
102 8 0.02
103 275 0.81
104 40 0.12
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (102 bp):
AGGGGTTGCTAAGTGCTGATTCCCCTACCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
AAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:56795760 original size:33 final size:33
Alignment explanation
Indices: 56795718--56795875 Score: 148
Period size: 33 Copynumber: 4.7 Consensus size: 33
56795708 ATTCCCCCGA
56795718 GTGGTTGCTAAGTGCTGATTCCCCTACCTATTG
1 GTGGTTGCTAAGTGCTGATTCCCCTACCTATTG
**
56795751 GTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGGAAG
1 GTGGTTGCTAAGTGCTGATTCC-CC-TA-CCT--AT-T----G
* *
56795794 GGGGTTGCTAAGTGCTGATT-CCC--CCGA---
1 GTGGTTGCTAAGTGCTGATTCCCCTACCTATTG
56795821 GTGGTTGCTAAGTGCTGATTCCCCTACCTATTG
1 GTGGTTGCTAAGTGCTGATTCCCCTACCTATTG
56795854 GTGGTTGCTAAGTGCTGATTCC
1 GTGGTTGCTAAGTGCTGATTCC
56795876 ACCGTATTTT
Statistics
Matches: 101, Mismatches: 8, Indels: 32
0.72 0.06 0.23
Matches are distributed among these distances:
27 19 0.19
28 3 0.03
30 3 0.03
33 44 0.44
34 2 0.02
35 3 0.03
36 1 0.01
38 2 0.02
39 1 0.01
41 2 0.02
42 1 0.01
43 20 0.20
ACGTcount: A:0.17, C:0.21, G:0.28, T:0.34
Consensus pattern (33 bp):
GTGGTTGCTAAGTGCTGATTCCCCTACCTATTG
Found at i:56795934 original size:27 final size:26
Alignment explanation
Indices: 56795897--56795949 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
56795887 AATGTGAAAG
56795897 GGGGTTGCTAAGTGCTGATTCTCCCGA
1 GGGGTTGCTAAGTGCTGATTC-CCCGA
*
56795924 GGGGTTGCTAAGTGTTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
56795950 CCCATTTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.15, C:0.21, G:0.34, T:0.30
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:56800726 original size:29 final size:30
Alignment explanation
Indices: 56800667--56800724 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
56800657 TCCGAGCCTT
*
56800667 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
56800697 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
56800725 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:56800954 original size:13 final size:13
Alignment explanation
Indices: 56800936--56800967 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
56800926 TTTCCATCAA
56800936 TTATGAATTTATT
1 TTATGAATTTATT
56800949 TTATGAATTTATT
1 TTATGAATTTATT
*
56800962 TGATGA
1 TTATGA
56800968 TGATCCAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:56801175 original size:50 final size:50
Alignment explanation
Indices: 56801062--56801303 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
56801052 ATTTGGGTAA
* * * *
56801062 AGAGATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
56801118 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
56801168 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
56801218 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
56801268 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
56801304 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:56801250 original size:100 final size:103
Alignment explanation
Indices: 56801062--56801311 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
56801052 ATTTGGGTAA
*
56801062 AGAGATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
56801127 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
56801168 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
56801230 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
56801268 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
56801312 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.39
101 39 0.30
105 2 0.02
106 39 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:56805949 original size:46 final size:47
Alignment explanation
Indices: 56805866--56806081 Score: 193
Period size: 47 Copynumber: 4.5 Consensus size: 47
56805856 TTGCACATAG
* * **
56805866 TCACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTATAC-GAA
1 TCACATATCAC--ACTGATGCCATAGCCCAGATATGGTCTTATACGGAA
* * *
56805914 TCACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGTA
1 TCACATATCACACTGATGCCATAGCCCAGATATGGTCTTATACGGAA
* * * *
56805961 GCACATATCACACCGATGCCATATCCCGGATATGGTCTTATACGGAA
1 TCACATATCACACTGATGCCATAGCCCAGATATGGTCTTATACGGAA
* * * *
56806008 GCACAAATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAA
1 TCACATATCACA---CT--GATGCCATAGCCCAGATATGGTCTTATACGG-AA
* *
56806061 TCACATTTCACA-TGCTGCCAT
1 TCACATATCACACTGATGCCAT
56806082 GGTCCAACCA
Statistics
Matches: 139, Mismatches: 22, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
46 27 0.19
47 61 0.44
48 11 0.08
49 1 0.01
50 1 0.01
52 27 0.19
53 11 0.08
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.25
Consensus pattern (47 bp):
TCACATATCACACTGATGCCATAGCCCAGATATGGTCTTATACGGAA
Found at i:56811462 original size:29 final size:30
Alignment explanation
Indices: 56811403--56811460 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
56811393 TCCGAGCCTT
*
56811403 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
56811433 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
56811461 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:56811690 original size:13 final size:13
Alignment explanation
Indices: 56811672--56811703 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
56811662 TTTCCAGCAA
56811672 TTATGAATTTATT
1 TTATGAATTTATT
56811685 TTATGAATTTATT
1 TTATGAATTTATT
*
56811698 TGATGA
1 TTATGA
56811704 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:56811928 original size:50 final size:50
Alignment explanation
Indices: 56811798--56812040 Score: 317
Period size: 51 Copynumber: 4.7 Consensus size: 50
56811788 ATTTGGGTAA
* *
56811798 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC-----ATCACG
* * * *
56811854 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGCCATGGGCACCGA-GACG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
*
56811904 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
*
56811954 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
*
56812005 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGC
56812041 TTTGGCATGT
Statistics
Matches: 174, Mismatches: 11, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
49 1 0.01
50 49 0.28
51 84 0.48
55 2 0.01
56 38 0.22
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.19
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:56811941 original size:26 final size:26
Alignment explanation
Indices: 56811912--56812040 Score: 72
Period size: 26 Copynumber: 5.0 Consensus size: 26
56811902 CGAGAGGTCC
56811912 CATGTAAGACCATGTCTGGGACATGG
1 CATGTAAGACCATGTCTGGGACATGG
* ** * **
56811938 CATG--GGCACCATCAC-GAGAACATCC
1 CATGTAAG-ACCATGTCTG-GGACATGG
56811963 CATGTAAGACCATGTCTGGGACATGG
1 CATGTAAGACCATGTCTGGGACATGG
* ** * **
56811989 CATG--GGCACCATCAC-GAGAACATCC
1 CATGTAAG-ACCATGTCTG-GGACATGG
56812014 CATGTAAGACCATGTCTGGGACATGG
1 CATGTAAGACCATGTCTGGGACATGG
56812040 C
1 C
56812041 TTTGGCATGT
Statistics
Matches: 69, Mismatches: 24, Indels: 20
0.61 0.21 0.18
Matches are distributed among these distances:
24 4 0.06
25 30 0.43
26 31 0.45
27 4 0.06
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (26 bp):
CATGTAAGACCATGTCTGGGACATGG
Found at i:56811948 original size:25 final size:25
Alignment explanation
Indices: 56811920--56812000 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
56811910 CCCATGTAAG
56811920 ACCATGTCTGGGACATGGCATGGGC
1 ACCATGTCTGGGACATGGCATGGGC
** * ** *
56811945 ACCATCAC-GAGAACATCCCATGTAAG-
1 ACCATGTCTG-GGACATGGCATG--GGC
56811971 ACCATGTCTGGGACATGGCATGGGC
1 ACCATGTCTGGGACATGGCATGGGC
56811996 ACCAT
1 ACCAT
56812001 CACGAGAACA
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
24 2 0.05
25 20 0.51
26 15 0.38
27 2 0.05
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (25 bp):
ACCATGTCTGGGACATGGCATGGGC
Found at i:56812017 original size:25 final size:25
Alignment explanation
Indices: 56811938--56812017 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
56811928 TGGGACATGG
56811938 CATGGGCACCATCACGAGAACATCC
1 CATGGGCACCATCACGAGAACATCC
* ** * **
56811963 CATGTAAG-ACCATGTCTG-GGACATGG
1 CATG--GGCACCATCAC-GAGAACATCC
56811989 CATGGGCACCATCACGAGAACATCC
1 CATGGGCACCATCACGAGAACATCC
56812014 CATG
1 CATG
56812018 TAAGACCATG
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
24 2 0.05
25 19 0.50
26 15 0.39
27 2 0.05
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.16
Consensus pattern (25 bp):
CATGGGCACCATCACGAGAACATCC
Found at i:56828879 original size:36 final size:35
Alignment explanation
Indices: 56828824--56828893 Score: 113
Period size: 36 Copynumber: 2.0 Consensus size: 35
56828814 AATTAGTTTC
*
56828824 TAATATTACATGTGTAATTACGCATTTAAATTTTTT
1 TAATATTACATGTGCAATTACGCATTT-AATTTTTT
*
56828860 TAATATTACGTGTGCAATTACGCATTTAATTTTT
1 TAATATTACATGTGCAATTACGCATTTAATTTTT
56828894 AAATAATGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 7 0.22
36 25 0.78
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (35 bp):
TAATATTACATGTGCAATTACGCATTTAATTTTTT
Found at i:56853955 original size:16 final size:16
Alignment explanation
Indices: 56853934--56853964 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56853924 TCTCTCTCTC
56853934 TATATATACATATATG
1 TATATATACATATATG
*
56853950 TATATATGCATATAT
1 TATATATACATATAT
56853965 ATATGCTGAT
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:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (16 bp):
TATATATACATATATG
Found at i:56863457 original size:7 final size:7
Alignment explanation
Indices: 56863447--56863473 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
56863437 TTTTTTGCCC
56863447 TTGAATG
1 TTGAATG
56863454 TTGAATG
1 TTGAATG
56863461 TTGAATG
1 TTGAATG
56863468 TTGAAT
1 TTGAAT
56863474 TTAAGAGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (7 bp):
TTGAATG
Found at i:56869740 original size:18 final size:17
Alignment explanation
Indices: 56869707--56869740 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
56869697 AAGAGACGAA
*
56869707 GAAAGAAAGAAGAAAAG
1 GAAAGAAAGAAAAAAAG
56869724 GAAAGGAAAGAAAAAAA
1 GAAA-GAAAGAAAAAAA
56869741 AAGAAATGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
GAAAGAAAGAAAAAAAG
Found at i:56869751 original size:25 final size:26
Alignment explanation
Indices: 56869705--56869754 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
56869695 GAAAGAGACG
*
56869705 AAGAAAGAAAGAAGAAAAGGAAAGGA
1 AAGAAAGAAAAAAGAAAAGGAAAGGA
*
56869731 AAGAAA-AAAAAAGAAATGGAAAGG
1 AAGAAAGAAAAAAGAAAAGGAAAGG
56869755 TAGGGAGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (26 bp):
AAGAAAGAAAAAAGAAAAGGAAAGGA
Found at i:56884400 original size:41 final size:41
Alignment explanation
Indices: 56884355--56884432 Score: 93
Period size: 41 Copynumber: 1.9 Consensus size: 41
56884345 ATCTGAGATT
* *
56884355 TTCAGGCCTAATGCCTAGCCGGCTTGATGCCGATGAATTAA
1 TTCAGACCTAATGCCTAGCAGGCTTGATGCCGATGAATTAA
* * * * *
56884396 TTCAGACTTGATGTCTAGCAGGCTTTATGCCGGTGAA
1 TTCAGACCTAATGCCTAGCAGGCTTGATGCCGATGAA
56884433 ATGTATCAGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 30 1.00
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (41 bp):
TTCAGACCTAATGCCTAGCAGGCTTGATGCCGATGAATTAA
Found at i:56892895 original size:78 final size:78
Alignment explanation
Indices: 56892761--56892919 Score: 273
Period size: 78 Copynumber: 2.0 Consensus size: 78
56892751 TTAGGTGTTC
* * *
56892761 AATAATCTTGTGAATGTTGATGTTTTCTGCCTTGTATGTGTTGTGATTTCTTCTTCTTGTAGGTC
1 AATAATCTTGTGAATGTTGATGTTTTCTACCTTGTATGTCTTGTGATTTCTTCTTCTTGTAGGCC
*
56892826 AATGGTTGCATGA
66 AACGGTTGCATGA
*
56892839 AATACTCTTGTGAATGTTGATGTTTTCTACCTTGTATGTCTTGTGATTTCTTCTTCTTGTAGGCC
1 AATAATCTTGTGAATGTTGATGTTTTCTACCTTGTATGTCTTGTGATTTCTTCTTCTTGTAGGCC
56892904 AACGGTTGCATGA
66 AACGGTTGCATGA
56892917 AAT
1 AAT
56892920 GAAACTGAAT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.46
Consensus pattern (78 bp):
AATAATCTTGTGAATGTTGATGTTTTCTACCTTGTATGTCTTGTGATTTCTTCTTCTTGTAGGCC
AACGGTTGCATGA
Found at i:56894218 original size:2 final size:2
Alignment explanation
Indices: 56894211--56894236 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
56894201 ATCAGTCTTT
56894211 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
56894237 TGTATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Done.