Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold157
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: 1658850
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.32
Warning! 45522 characters in sequence are not A, C, G, or T
File 3 of 5
Found at i:632956 original size:26 final size:26
Alignment explanation
Indices: 632915--633027 Score: 91
Period size: 26 Copynumber: 4.3 Consensus size: 26
632905 TGTACTGGTG
* *
632915 GCTTTGCCACATATACTGTTACTGGCA
1 GCTTTGCTACA-ATACTATTACTGGCA
* *
632942 GCTTTGCTACAATACTAATACTAGCA
1 GCTTTGCTACAATACTATTACTGGCA
* * * *
632968 GCTTCGCTGCGATATTATTACTGGCA
1 GCTTTGCTACAATACTATTACTGGCA
* * * * *
632994 GCTTCGTTGCGATACTATTATTGGCA
1 GCTTTGCTACAATACTATTACTGGCA
*
633020 GTTTTGCT
1 GCTTTGCT
633028 GTGATATTGG
Statistics
Matches: 70, Mismatches: 16, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
26 60 0.86
27 10 0.14
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (26 bp):
GCTTTGCTACAATACTATTACTGGCA
Found at i:634491 original size:15 final size:15
Alignment explanation
Indices: 634434--634494 Score: 54
Period size: 15 Copynumber: 4.0 Consensus size: 15
634424 ATCAAAAAAG
*
634434 AAAAAGAAAGTGCGA
1 AAAAAGAAAGTGAGA
634449 AAAAAGAAA-TCGAAGA
1 AAAAAGAAAGT-G-AGA
*
634465 AGAAAA-AGAGTGAGA
1 A-AAAAGAAAGTGAGA
*
634480 AAAAATAAAGTGAGA
1 AAAAAGAAAGTGAGA
634495 TTGAAAAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 5 0.13
15 22 0.58
16 6 0.16
17 5 0.13
ACGTcount: A:0.64, C:0.03, G:0.25, T:0.08
Consensus pattern (15 bp):
AAAAAGAAAGTGAGA
Found at i:639274 original size:45 final size:45
Alignment explanation
Indices: 639223--639313 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
639213 ATGTGAACCA
* *
639223 AACATCATTGATTAGTAAAGTGGTTGCTATGTGCTGATTCCACCG
1 AACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCCACCG
* *
639268 AACATCATTGATTAATAAGGTGGTTTCTATGTGCTGAATCCACCG
1 AACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCCACCG
639313 A
1 A
639314 GTATCTATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.33
Consensus pattern (45 bp):
AACATCATTGATTAATAAAGTGGTTGCTATGTGCTGAATCCACCG
Found at i:642135 original size:52 final size:52
Alignment explanation
Indices: 642052--642152 Score: 166
Period size: 52 Copynumber: 1.9 Consensus size: 52
642042 TAAGGAAACG
* * * *
642052 TAATGGACAGCAGCTTAAGATCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCAGTTAAAGCTCAAACAA
642104 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCAGTTAAAGCTCAAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCAGTTAAAGCTCAAA
642153 TATGTGCATG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.27
Consensus pattern (52 bp):
TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCAGTTAAAGCTCAAACAA
Found at i:656038 original size:50 final size:51
Alignment explanation
Indices: 655971--656102 Score: 162
Period size: 50 Copynumber: 2.6 Consensus size: 51
655961 AAAGTGATGG
* * * *
655971 TCACGTGTTTAGTACTATGTGTAGGCTACTACGTGTA-CGAAAATGAT-A-GG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCG--AATGATAATGA
* *
656021 TCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTAATGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGATAATGA
*
656072 TCACATGTGTAGTACTATGTGCAAGCTACTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTA
656103 TGTGAACCGA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
49 5 0.07
50 34 0.48
51 32 0.45
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGATAATGA
Found at i:656106 original size:26 final size:26
Alignment explanation
Indices: 656025--656106 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
656015 GATAGGTCGC
*
656025 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAAGCTACT
* * * *
656051 ACGTGTA-T-CGAATG-GTAATGATCAC-
1 ATGTGTAGTAC-TATGTGCAA-GCT-ACT
656076 ATGTGTAGTACTATGTGCAAGCTACT
1 ATGTGTAGTACTATGTGCAAGCTACT
656102 ATGTG
1 ATGTG
656107 AACCGAACAT
Statistics
Matches: 40, Mismatches: 9, Indels: 14
0.63 0.14 0.22
Matches are distributed among these distances:
24 3 0.08
25 14 0.35
26 19 0.47
27 4 0.10
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.33
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAAGCTACT
Found at i:656164 original size:45 final size:45
Alignment explanation
Indices: 656108--656202 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
656098 TACTATGTGA
* *
656108 ACCGAACATCATTGATTAGTAAAGTGGTTGCTATGTGCT-AGTTCC
1 ACCGAACATCATGGATTAATAAAGTGGTTGCTATGTGCTGA-TTCC
* *
656153 ACCGGACATCATGGATTAATAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATGGATTAATAAAGTGGTTGCTATGTGCTGATTCC
656198 ACCGA
1 ACCGA
656203 GTATCTGTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
45 43 0.98
46 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATGGATTAATAAAGTGGTTGCTATGTGCTGATTCC
Found at i:662568 original size:76 final size:76
Alignment explanation
Indices: 662348--662575 Score: 397
Period size: 76 Copynumber: 3.0 Consensus size: 76
662338 ATGTGTAATT
662348 GGCCTTATGTTATGTGTTGATATATTGCTATGTGAATGCCTTGTGAATTGTTATTGTGATGA-CA
1 GGCCTTATGTTATGTGTTGATATATTGCTATGTGAATGCCTTGTGAATTGTTATTGTGATGACCA
* **
662412 AAT-ATGTGTATT
66 AATGGT-TG-AAA
662424 GGCCTTATGTTATGTGTTGATATATTGCTATGTGAATGCCTTGTGAATTGTTATTGTGATGACCA
1 GGCCTTATGTTATGTGTTGATATATTGCTATGTGAATGCCTTGTGAATTGTTATTGTGATGACCA
662489 AATGGTTGAAA
66 AATGGTTGAAA
662500 GGCCTTATGTTATGTGTTGATATATTGCTATGTGAATGCCTTGTGAATTGTTATTGTGATGACCA
1 GGCCTTATGTTATGTGTTGATATATTGCTATGTGAATGCCTTGTGAATTGTTATTGTGATGACCA
662565 AATGGTTGAAA
66 AATGGTTGAAA
662576 TTGAGATATG
Statistics
Matches: 147, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
76 139 0.95
77 7 0.05
78 1 0.01
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.42
Consensus pattern (76 bp):
GGCCTTATGTTATGTGTTGATATATTGCTATGTGAATGCCTTGTGAATTGTTATTGTGATGACCA
AATGGTTGAAA
Found at i:663058 original size:106 final size:106
Alignment explanation
Indices: 662870--663089 Score: 334
Period size: 106 Copynumber: 2.1 Consensus size: 106
662860 CAGAGACACA
* * *
662870 GGCGTGTGTCTCAGTCATGTGTGATACACGGCCAGGAGACATGGTCGCGTGTCCCCTGTAACTTC
1 GGCGTGTGTCTCAGTCATGTGTGACACACGGCCAGGAGACATGGTCGAGTGTCCACTGTAACTTC
*
662935 TAAAGCAAGCATATAGGTAACCTCACACGGCCTAGCACATG
66 TAAAGCAAGCATATAGGTAACCTCACACAGCCTAGCACATG
* * * *
662976 GGCGTGTGTCTCAG-CATTGTGTGACACACTGCTAGGGGACATGGTTGAGTGTCCACTGTAACTT
1 GGCGTGTGTCTCAGTCA-TGTGTGACACACGGCCAGGAGACATGGTCGAGTGTCCACTGTAACTT
*
663040 CTAAAGCAAGCATTTAGGTAACCTCACACAGCCTAGCACATG
65 CTAAAGCAAGCATATAGGTAACCTCACACAGCCTAGCACATG
*
663082 GGTGTGTG
1 GGCGTGTG
663090 GCTTCACCGT
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
105 2 0.02
106 101 0.98
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (106 bp):
GGCGTGTGTCTCAGTCATGTGTGACACACGGCCAGGAGACATGGTCGAGTGTCCACTGTAACTTC
TAAAGCAAGCATATAGGTAACCTCACACAGCCTAGCACATG
Found at i:675278 original size:120 final size:120
Alignment explanation
Indices: 675120--675357 Score: 386
Period size: 120 Copynumber: 2.0 Consensus size: 120
675110 TTTTGATAAA
* *
675120 AGGACTAAATCGCGTAAAGTGCAAAAGTTAGGTTCTAATAGCTAAAGGTGTCTCACAGCTATAGA
1 AGGACTAAATCGCGTAAAGTGCAAAAGTTAGGTTCTAATAGCTAAAGGTGTATAACAGCTATAGA
* * *
675185 ACTTTAAAGTGAAGGTTCTTTTATTGTAATTAGCCCATAAATGAGTCAGTGGAGG
66 ACTTTAAAGTGAAGGTCCTTATATGGTAATTAGCCCATAAATGAGTCAGTGGAGG
* * *
675240 AGGACTAAATCGCGTAAAGTGCAAAAGTTGGGTTCTAATAGTTAAAGGTGTATAATAGCTATAGA
1 AGGACTAAATCGCGTAAAGTGCAAAAGTTAGGTTCTAATAGCTAAAGGTGTATAACAGCTATAGA
* *
675305 ACTTTAAAGTGAAGGTCCTTATATGGTAATTAGCCCATATATGAGTTAGTGGA
66 ACTTTAAAGTGAAGGTCCTTATATGGTAATTAGCCCATAAATGAGTCAGTGGA
675358 AGATGTTAGA
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
120 108 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.30
Consensus pattern (120 bp):
AGGACTAAATCGCGTAAAGTGCAAAAGTTAGGTTCTAATAGCTAAAGGTGTATAACAGCTATAGA
ACTTTAAAGTGAAGGTCCTTATATGGTAATTAGCCCATAAATGAGTCAGTGGAGG
Found at i:687415 original size:16 final size:16
Alignment explanation
Indices: 687394--687435 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
687384 TAATGTGTTT
687394 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
687410 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
*
687426 TGCTGTTGTT
1 TGCTGCTGTT
687436 TAAATGCAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.10, C:0.12, G:0.26, T:0.52
Consensus pattern (16 bp):
TGCTGCTGTTGTTTAA
Found at i:687419 original size:13 final size:13
Alignment explanation
Indices: 687397--687438 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 13
687387 TGTGTTTTGC
687397 TGCTGTTGTTTAA
1 TGCTGTTGTTTAA
687410 TGCTGCTGTTGTTTAA
1 ---TGCTGTTGTTTAA
687426 TGCTGTTGTTTAA
1 TGCTGTTGTTTAA
687439 ATGCAGAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.50
16 13 0.50
ACGTcount: A:0.14, C:0.10, G:0.24, T:0.52
Consensus pattern (13 bp):
TGCTGTTGTTTAA
Found at i:693404 original size:16 final size:16
Alignment explanation
Indices: 693383--693418 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
693373 TTTGGTTCGC
693383 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
693399 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
693415 TGTA
1 TGTA
693419 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:700660 original size:13 final size:13
Alignment explanation
Indices: 700642--700667 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
700632 CAGCTAAACT
700642 GAAACAGAAGGAA
1 GAAACAGAAGGAA
700655 GAAACAGAAGGAA
1 GAAACAGAAGGAA
700668 CGGCTAAGTT
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:0.62, C:0.08, G:0.31, T:0.00
Consensus pattern (13 bp):
GAAACAGAAGGAA
Found at i:701155 original size:16 final size:16
Alignment explanation
Indices: 701134--701167 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
701124 GGTCCCAAAA
701134 CCAATGAACACACAAG
1 CCAATGAACACACAAG
701150 CCAATGAACACACAAG
1 CCAATGAACACACAAG
701166 CC
1 CC
701168 GAAGGAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.35, G:0.12, T:0.06
Consensus pattern (16 bp):
CCAATGAACACACAAG
Found at i:715351 original size:9 final size:9
Alignment explanation
Indices: 715337--715362 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
715327 AAAATGGACA
715337 TGAAATAGG
1 TGAAATAGG
715346 TGAAATAGG
1 TGAAATAGG
715355 TGAAATAG
1 TGAAATAG
715363 AATATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (9 bp):
TGAAATAGG
Found at i:723076 original size:33 final size:33
Alignment explanation
Indices: 723037--723121 Score: 125
Period size: 33 Copynumber: 2.6 Consensus size: 33
723027 CCTATCAGTA
*
723037 ACAGTAACAGTACAGTGTGGGCCTGAGCCCTAT
1 ACAGTAACAGTACAGTGTGGGCCTGAGCCCAAT
* * *
723070 TCAGTAACAGTACAGTATGGGCCTTAGCCCAAT
1 ACAGTAACAGTACAGTGTGGGCCTGAGCCCAAT
*
723103 ACAGTAATAGTACAGTGTG
1 ACAGTAACAGTACAGTGTG
723122 ATAATACAAC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (33 bp):
ACAGTAACAGTACAGTGTGGGCCTGAGCCCAAT
Found at i:723224 original size:26 final size:26
Alignment explanation
Indices: 723195--723275 Score: 99
Period size: 26 Copynumber: 3.1 Consensus size: 26
723185 AACACACCAA
723195 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
* * *
723221 TATCGCGGCGAAGCTGCCAGTATTAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
* * * *
723247 TATTGTAGCAAAGCTACCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
723273 TAT
1 TAT
723276 ATGTGGCAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.23
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAATAG
Found at i:724745 original size:17 final size:17
Alignment explanation
Indices: 724723--724756 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
724713 ATTACCCAAA
724723 ACCAAAATGAGAAGTAT
1 ACCAAAATGAGAAGTAT
*
724740 ACCAAAATGAGCAGTAT
1 ACCAAAATGAGAAGTAT
724757 CCCATATGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (17 bp):
ACCAAAATGAGAAGTAT
Found at i:732381 original size:13 final size:13
Alignment explanation
Indices: 732365--732417 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
732355 TTTAAACCAA
732365 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* ** *
732378 ACTTTTCCACCGT
1 ACTTTTCAAAAGC
*
732391 ATTTTTCAAAAGC
1 ACTTTTCAAAAGC
732404 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
732417 A
1 A
732418 ATGAAGAACT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.34
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:732383 original size:26 final size:26
Alignment explanation
Indices: 732354--732409 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
732344 AACACTCAAA
732354 TTTTAAACCAAACTTTTCAAAAGCAC
1 TTTTAAACCAAACTTTTCAAAAGCAC
** ** *
732380 TTTTCCACCGTATTTTTCAAAAGCAC
1 TTTTAAACCAAACTTTTCAAAAGCAC
732406 TTTT
1 TTTT
732410 CAAAAGCAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.39
Consensus pattern (26 bp):
TTTTAAACCAAACTTTTCAAAAGCAC
Found at i:742723 original size:39 final size:39
Alignment explanation
Indices: 742601--742708 Score: 144
Period size: 39 Copynumber: 2.8 Consensus size: 39
742591 CCCGAAGTCT
**
742601 TATTCTCGCTCAAGCAGTTTTCAGCAGGATCCATCTCCG
1 TATTCTCGCTCAAGCAGTTTTCAGCAAAATCCATCTCCG
** ** * *
742640 TATTCTCAATCCGGCAGTTTTAAGCAAAATCCATCTCCC
1 TATTCTCGCTCAAGCAGTTTTCAGCAAAATCCATCTCCG
742679 TATTCTCGCTCAAGCAGTTTTCAGCAAAAT
1 TATTCTCGCTCAAGCAGTTTTCAGCAAAAT
742709 ATACCTCTGT
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (39 bp):
TATTCTCGCTCAAGCAGTTTTCAGCAAAATCCATCTCCG
Found at i:744675 original size:30 final size:30
Alignment explanation
Indices: 744639--744699 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
744629 TACACAAGTC
*
744639 GTTATCCTTCCCTTTAAGCACCAATCATGG
1 GTTATCCTTCCCTTTAAGCACCAATAATGG
744669 GTTATCCTTCCCTTTAAGCACCAATAATGG
1 GTTATCCTTCCCTTTAAGCACCAATAATGG
744699 G
1 G
744700 AAGGGAAGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.33
Consensus pattern (30 bp):
GTTATCCTTCCCTTTAAGCACCAATAATGG
Found at i:747348 original size:10 final size:10
Alignment explanation
Indices: 747325--747390 Score: 57
Period size: 10 Copynumber: 6.6 Consensus size: 10
747315 TCCTTGGTTT
* *
747325 AGCTCACTTG
1 AGCTCAATTC
*
747335 AGCTCAAGTC
1 AGCTCAATTC
747345 AGCTC-ATTC
1 AGCTCAATTC
747354 AAGCTC-ATGTC
1 -AGCTCAAT-TC
747365 AGCTC-ATTC
1 AGCTCAATTC
747374 GAGCTCAATTC
1 -AGCTCAATTC
747385 AGCTCA
1 AGCTCA
747391 TTGAGCTCGT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
9 5 0.10
10 37 0.77
11 6 0.12
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (10 bp):
AGCTCAATTC
Found at i:747350 original size:20 final size:20
Alignment explanation
Indices: 747325--747398 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
747315 TCCTTGGTTT
747325 AGCTCACTT-GAGCTCAAGTC
1 AGCTCA-TTCGAGCTCAAGTC
* *
747345 AGCTCATTCAAGCTCATGTC
1 AGCTCATTCGAGCTCAAGTC
*
747365 AGCTCATTCGAGCTCAATTC
1 AGCTCATTCGAGCTCAAGTC
747385 AGCTCATT-GAGCTC
1 AGCTCATTCGAGCTC
747399 GTTATTAGCT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.17
20 40 0.83
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (20 bp):
AGCTCATTCGAGCTCAAGTC
Found at i:747409 original size:40 final size:40
Alignment explanation
Indices: 747323--747409 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 40
747313 TGTCCTTGGT
*
747323 TTAGCTCACTTGAGCTCAAGTCAGCTCATTCAAGCTCATG
1 TTAGCTCACTTGAGCTCAAGTCAGCTCATTCAAGCTCATA
* * * *
747363 TCAGCTCA-TTCGAGCTCAATTCAGCTCATT-GAGCTCGTTA
1 TTAGCTCACTT-GAGCTCAAGTCAGCTCATTCAAGCTC-ATA
747403 TTAGCTC
1 TTAGCTC
747410 TTTAGCTCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
39 7 0.18
40 32 0.82
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (40 bp):
TTAGCTCACTTGAGCTCAAGTCAGCTCATTCAAGCTCATA
Found at i:749372 original size:19 final size:19
Alignment explanation
Indices: 749348--749385 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
749338 TGTATTATAA
749348 CTTAGTTTTCAAAACACAT
1 CTTAGTTTTCAAAACACAT
749367 CTTAGTTTTCAAAACACAT
1 CTTAGTTTTCAAAACACAT
749386 TTGCAATGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (19 bp):
CTTAGTTTTCAAAACACAT
Found at i:752270 original size:3 final size:3
Alignment explanation
Indices: 752264--752299 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
752254 TATTATTATG
752264 ATA ATA ATA A-A ATA ATA ATA A-A ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
752300 TTATGTTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
2 6 0.20
3 24 0.80
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:752280 original size:11 final size:11
Alignment explanation
Indices: 752264--752299 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
752254 TATTATTATG
752264 ATAATAATAAA
1 ATAATAATAAA
752275 ATAATAATAAA
1 ATAATAATAAA
752286 ATAATAATAAA
1 ATAATAATAAA
752297 ATA
1 ATA
752300 TTATGTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAATAATAAA
Found at i:754604 original size:50 final size:50
Alignment explanation
Indices: 754549--754672 Score: 203
Period size: 50 Copynumber: 2.5 Consensus size: 50
754539 ACGAGCTGTG
*
754549 AATCGGTATGCTCACCCGAGCTGTAGATCGGTATGCTCTCATGAGCTATA
1 AATCGGTATGCTCACACGAGCTGTAGATCGGTATGCTCTCATGAGCTATA
* *
754599 AATCGGTATGCTCACACGAGCTGTAGATTGGTATGCTCTCATGAGCTGTA
1 AATCGGTATGCTCACACGAGCTGTAGATCGGTATGCTCTCATGAGCTATA
* *
754649 AATCGGTATTCTCTCACGAGCTGT
1 AATCGGTATGCTCACACGAGCTGT
754673 GGGTCGGAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 69 1.00
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (50 bp):
AATCGGTATGCTCACACGAGCTGTAGATCGGTATGCTCTCATGAGCTATA
Found at i:754654 original size:75 final size:75
Alignment explanation
Indices: 754529--754670 Score: 196
Period size: 75 Copynumber: 1.9 Consensus size: 75
754519 TCATGTACAT
* * * *
754529 GTATGCTCATACGAGCTGTGAATCGGTATGCTCACCCGAGCTGTAGATCGGTATGCTCTCATGAG
1 GTATGCTCACACGAGCTGTGAATCGGTATGCTCACACGAGCTGTAAATCGGTATGCTCTCACGAG
754594 CTATAAATCG
66 CTATAAATCG
* * * *
754604 GTATGCTCACACGAGCTGT-AGATTGGTATGCTCTCATGAGCTGTAAATCGGTATTCTCTCACGA
1 GTATGCTCACACGAGCTGTGA-ATCGGTATGCTCACACGAGCTGTAAATCGGTATGCTCTCACGA
754668 GCT
65 GCT
754671 GTGGGTCGGA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
74 1 0.02
75 57 0.98
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (75 bp):
GTATGCTCACACGAGCTGTGAATCGGTATGCTCACACGAGCTGTAAATCGGTATGCTCTCACGAG
CTATAAATCG
Found at i:754679 original size:25 final size:25
Alignment explanation
Indices: 754529--754672 Score: 173
Period size: 25 Copynumber: 5.8 Consensus size: 25
754519 TCATGTACAT
*
754529 GTATGCTCAT-ACGAGCTGTGAATCG
1 GTATGCTC-TCACGAGCTGTAAATCG
* * *
754554 GTATGCTCACCCGAGCTGTAGATCG
1 GTATGCTCTCACGAGCTGTAAATCG
* *
754579 GTATGCTCTCATGAGCTATAAATCG
1 GTATGCTCTCACGAGCTGTAAATCG
* * *
754604 GTATGCTCACACGAGCTGTAGATTG
1 GTATGCTCTCACGAGCTGTAAATCG
*
754629 GTATGCTCTCATGAGCTGTAAATCG
1 GTATGCTCTCACGAGCTGTAAATCG
*
754654 GTATTCTCTCACGAGCTGT
1 GTATGCTCTCACGAGCTGT
754673 GGGTCGGAAA
Statistics
Matches: 98, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
25 98 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTGTAAATCG
Found at i:758003 original size:28 final size:28
Alignment explanation
Indices: 757971--758025 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
757961 ACTAAAGAAG
*
757971 CCAATTCAGAATAAATTCCTGTTAATAA
1 CCAATTCAGAATAAATTCCGGTTAATAA
*
757999 CCAATTCAGAATAAATTTCGGTTAATA
1 CCAATTCAGAATAAATTCCGGTTAATA
758026 CATTCTTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (28 bp):
CCAATTCAGAATAAATTCCGGTTAATAA
Found at i:770379 original size:25 final size:25
Alignment explanation
Indices: 770351--770398 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
770341 CTCGAGCTCA
770351 AGTAATTGGTCCAATGGGGAGCTTG
1 AGTAATTGGTCCAATGGGGAGCTTG
770376 AGTAATTGGTCCAATGGGGAGCT
1 AGTAATTGGTCCAATGGGGAGCT
770399 CGAGGGGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.12, G:0.35, T:0.27
Consensus pattern (25 bp):
AGTAATTGGTCCAATGGGGAGCTTG
Found at i:772319 original size:30 final size:30
Alignment explanation
Indices: 772285--772466 Score: 197
Period size: 30 Copynumber: 6.1 Consensus size: 30
772275 CGACTACTGG
772285 AAAGGGATAGCTTCGACTATCAAATTATGA
1 AAAGGGATAGCTTCGACTATCAAATTATGA
* * * **
772315 AAAGGGAT-GGTGACGACCATCAAACAATGA
1 AAAGGGATAGCT-TCGACTATCAAATTATGA
772345 AAAGGGATAGCTTCGACTATCAAATTATGA
1 AAAGGGATAGCTTCGACTATCAAATTATGA
* * * * * *
772375 AAAGAGAT-GGTGACGACCATCAAACTATGT
1 AAAGGGATAGCT-TCGACTATCAAATTATGA
*
772405 AAAGGGATAGCTTCGGCTATCAAATTATGA
1 AAAGGGATAGCTTCGACTATCAAATTATGA
** *
772435 AAATAGATAGCTTCGACTATCGAATTATGA
1 AAAGGGATAGCTTCGACTATCAAATTATGA
772465 AA
1 AA
772467 TGAGTTTGCT
Statistics
Matches: 121, Mismatches: 27, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
29 4 0.03
30 113 0.93
31 4 0.03
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (30 bp):
AAAGGGATAGCTTCGACTATCAAATTATGA
Found at i:772378 original size:60 final size:60
Alignment explanation
Indices: 772285--772442 Score: 271
Period size: 60 Copynumber: 2.6 Consensus size: 60
772275 CGACTACTGG
*
772285 AAAGGGATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACGACCATCAAACAATGA
1 AAAGGGATAGCTTCGACTATCAAATTATGAAAAGAGATGGTGACGACCATCAAACAATGA
* *
772345 AAAGGGATAGCTTCGACTATCAAATTATGAAAAGAGATGGTGACGACCATCAAACTATGT
1 AAAGGGATAGCTTCGACTATCAAATTATGAAAAGAGATGGTGACGACCATCAAACAATGA
* *
772405 AAAGGGATAGCTTCGGCTATCAAATTATGAAAATAGAT
1 AAAGGGATAGCTTCGACTATCAAATTATGAAAAGAGAT
772443 AGCTTCGACT
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 93 1.00
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (60 bp):
AAAGGGATAGCTTCGACTATCAAATTATGAAAAGAGATGGTGACGACCATCAAACAATGA
Found at i:779475 original size:6 final size:6
Alignment explanation
Indices: 779437--779491 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
779427 ATTAAGTGTA
* * * *
779437 TTTA-T TTTCTT TTTAGT TTTCTT TTT-TCT TTTATG TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTAT-T TTTATT TTTATT TTTATT
779484 TTTATT TT
1 TTTATT TT
779492 AGTTGTTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
5 4 0.10
6 35 0.88
7 1 0.03
ACGTcount: A:0.11, C:0.05, G:0.04, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:783376 original size:30 final size:29
Alignment explanation
Indices: 783337--783420 Score: 105
Period size: 29 Copynumber: 2.8 Consensus size: 29
783327 GGGATAGCTT
* *
783337 CGACTATCAAATTATAAAAAGGGATGGTGA
1 CGACCATCAAACTAT-AAAAGGGATGGTGA
* *
783367 CGACCATCAAACAATGAAAGGGATGGTGA
1 CGACCATCAAACTATAAAAGGGATGGTGA
*
783396 CGACCATCAAACTATGAAAATGGAT
1 CGACCATCAAACTAT-AAAAGGGAT
783421 AGCTTCAGCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
29 27 0.59
30 19 0.41
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (29 bp):
CGACCATCAAACTATAAAAGGGATGGTGA
Found at i:783391 original size:29 final size:29
Alignment explanation
Indices: 783354--783414 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
783344 CAAATTATAA
783354 AAAGGGATGGTGACGACCATCAAACAATG
1 AAAGGGATGGTGACGACCATCAAACAATG
*
783383 AAAGGGATGGTGACGACCATCAAACTATG
1 AAAGGGATGGTGACGACCATCAAACAATG
783412 AAA
1 AAA
783415 ATGGATAGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.43, C:0.16, G:0.26, T:0.15
Consensus pattern (29 bp):
AAAGGGATGGTGACGACCATCAAACAATG
Found at i:783444 original size:30 final size:30
Alignment explanation
Indices: 783408--783493 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 30
783398 ACCATCAAAC
*
783408 TATGAAAATGGATAGCTTCAGCTATCGGAT
1 TATGAAAATGGATAGCTTCAGCTATCGAAT
** * *
783438 TATGAAAATATAAAGCTTCGGCTATCGAAT
1 TATGAAAATGGATAGCTTCAGCTATCGAAT
* *
783468 TATG-AAATGAGTTAGCTTCAGTTATC
1 TATGAAAATG-GATAGCTTCAGCTATC
783494 TATTGGTAAA
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 4 0.09
30 40 0.91
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (30 bp):
TATGAAAATGGATAGCTTCAGCTATCGAAT
Found at i:785570 original size:12 final size:12
Alignment explanation
Indices: 785553--785585 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
785543 AATTCGACAA
785553 GAAAAAAAATTT
1 GAAAAAAAATTT
785565 GAAAAAAAA-TT
1 GAAAAAAAATTT
785576 -AAAAAAAATT
1 GAAAAAAAATT
785586 CGTATTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 8 0.40
11 3 0.15
12 9 0.45
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (12 bp):
GAAAAAAAATTT
Found at i:794158 original size:50 final size:50
Alignment explanation
Indices: 794060--794158 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 50
794050 CATTGAGATT
** *
794060 ATGAGAGGTCCCATGTAAGAACATGTCTGGGACATGGCGTTGGAACCGAG
1 ATGAGAGGTCCCATGTAAGAACATGTCTGGGACATGGAATGGGAACCGAG
* *
794110 ATGAGAGGTCCC-TCGTAAGACCATGTCTGGGACATGGAATGGGCACCGA
1 ATGAGAGGTCCCAT-GTAAGAACATGTCTGGGACATGGAATGGGAACCGA
794159 TATAAGAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 1 0.02
50 42 0.98
ACGTcount: A:0.27, C:0.20, G:0.33, T:0.19
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGAACATGTCTGGGACATGGAATGGGAACCGAG
Found at i:794178 original size:50 final size:49
Alignment explanation
Indices: 794070--794183 Score: 120
Period size: 50 Copynumber: 2.3 Consensus size: 49
794060 ATGAGAGGTC
* ** * * **
794070 CCATGTAAGAACATGTCTGGGACATGGCGTTGGAACCGAGATGAGAGGT
1 CCATGTAAGACCATGTCTGGGACATGGAATGGGAACCGAGATAAGAAAT
* * *
794119 CCCTCGTAAGACCATGTCTGGGACATGGAATGGGCACCGATATAAGAAAT
1 CCAT-GTAAGACCATGTCTGGGACATGGAATGGGAACCGAGATAAGAAAT
794169 CTCATGTAAGACCAT
1 C-CATGTAAGACCAT
794184 ATCTAGGATA
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
49 3 0.06
50 47 0.90
51 2 0.04
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (49 bp):
CCATGTAAGACCATGTCTGGGACATGGAATGGGAACCGAGATAAGAAAT
Found at i:794502 original size:16 final size:16
Alignment explanation
Indices: 794461--794503 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
794451 GTTATTTAAG
*
794461 CAAGCAAGTAAGTAAA
1 CAAGAAAGTAAGTAAA
**
794477 CAAGTGAGTAAGTAAA
1 CAAGAAAGTAAGTAAA
*
794493 GAAGAAAGTAA
1 CAAGAAAGTAA
794504 AGATCCGAGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.56, C:0.07, G:0.23, T:0.14
Consensus pattern (16 bp):
CAAGAAAGTAAGTAAA
Found at i:796349 original size:25 final size:25
Alignment explanation
Indices: 796261--796363 Score: 97
Period size: 25 Copynumber: 4.1 Consensus size: 25
796251 ATGTACATGG
*
796261 ATGCTCA-TACGAGCTGT-GAATCGGT
1 ATGCTCACT-CGAGCTGTAG-ATCAGT
*
796286 ATGCTCACTCAAGCTGTAGATC-GAT
1 ATGCTCACTCGAGCTGTAGATCAG-T
796311 ATGCTCACTCGAGCTGTAGATCAGT
1 ATGCTCACTCGAGCTGTAGATCAGT
* * *
796336 ATGCTCTCAT-GAGCTATAAATCAGT
1 ATGCTCAC-TCGAGCTGTAGATCAGT
796361 ATG
1 ATG
796364 TTTACACGAG
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
24 1 0.01
25 63 0.93
26 4 0.06
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (25 bp):
ATGCTCACTCGAGCTGTAGATCAGT
Found at i:798390 original size:21 final size:20
Alignment explanation
Indices: 798350--798392 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
798340 ACCCCTATTG
*
798350 TTTGAAAATTTTCACCTTTT
1 TTTGAAAATTTTCACATTTT
798370 TTTGAAAAATTTT-ATCATTTT
1 TTTG-AAAATTTTCA-CATTTT
798391 TT
1 TT
798393 GATTTAGTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTGAAAATTTTCACATTTT
Found at i:805799 original size:33 final size:34
Alignment explanation
Indices: 805743--805811 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 34
805733 ATACAACAAG
* *
805743 CAGTGACAGTCTGAGCCTGAGCCCTATTCAGTAA
1 CAGTGACAGTCTGAGCCTGAGCCCAATACAGTAA
* * *
805777 CAGT-ACAGTGTGGGCCTTAGCCCAATACAGTAA
1 CAGTGACAGTCTGAGCCTGAGCCCAATACAGTAA
805810 CA
1 CA
805812 ATGTGGACCT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (34 bp):
CAGTGACAGTCTGAGCCTGAGCCCAATACAGTAA
Found at i:805822 original size:28 final size:28
Alignment explanation
Indices: 805776--805864 Score: 135
Period size: 28 Copynumber: 3.2 Consensus size: 28
805766 CTATTCAGTA
805776 ACAGT-ACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* * * *
805803 ACAGTAACAATGTGGACCTTACCCCATT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
805831 ACAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
805859 ACAGTA
1 ACAGTA
805865 TCCGTACAGT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 5 0.09
28 48 0.91
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:806188 original size:27 final size:26
Alignment explanation
Indices: 806171--806433 Score: 280
Period size: 27 Copynumber: 9.8 Consensus size: 26
806161 GGGTATAACA
*
806171 GTCATTTTATCCTATAGGGGTATTTCG
1 GTCATTTTA-CCTATAGGGGTAATTCG
*
806198 GTCATTTTACGCTAT-GAGGGTAATTTG
1 GTCATTTTAC-CTATAG-GGGTAATTCG
*
806225 GTCATTTTACCTATAGGGGTAATTCA
1 GTCATTTTACCTATAGGGGTAATTCG
* * *
806251 GTCATTTTATCTTATAAGGGTAATACG
1 GTCATTTTA-CCTATAGGGGTAATTCG
806278 GTCATTTTACCTTATAGGGGTAATTCG
1 GTCATTTTACC-TATAGGGGTAATTCG
806305 GTCATTTTATCCTATAGGGGTAATTCG
1 GTCATTTTA-CCTATAGGGGTAATTCG
* *
806332 GTCATTTTACCCTAT-GGAAGTAATTTG
1 GTCATTTTA-CCTATAGG-GGTAATTCG
* *
806359 GTCATTTTACCCTATGGGGGTAATTTG
1 GTCATTTTA-CCTATAGGGGTAATTCG
*
806386 GTCATTTTACCCTAT-GGGAGTATTTCG
1 GTCATTTTA-CCTATAGGG-GTAATTCG
* *
806413 GTCTTTTTACCCTATGGGGGT
1 GTCATTTTA-CCTATAGGGGT
806434 CTCGGTGCAG
Statistics
Matches: 208, Mismatches: 18, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
26 29 0.14
27 172 0.83
28 7 0.03
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (26 bp):
GTCATTTTACCTATAGGGGTAATTCG
Found at i:808763 original size:28 final size:28
Alignment explanation
Indices: 808732--808839 Score: 144
Period size: 28 Copynumber: 3.9 Consensus size: 28
808722 TAATAGTACG
808732 ATGTGGGCCTTAGCCCAATACAGTAACA
1 ATGTGGGCCTTAGCCCAATACAGTAACA
* ** *
808760 ATGTAGGCCTTTCCCCAATACAGTAATA
1 ATGTGGGCCTTAGCCCAATACAGTAACA
* * *
808788 GTGTGGGCCTTAACCTAATACAGTAACA
1 ATGTGGGCCTTAGCCCAATACAGTAACA
*
808816 GTGTGGGCCTTAGCCCAATACAGT
1 ATGTGGGCCTTAGCCCAATACAGT
808840 GTCGGTACAG
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 68 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (28 bp):
ATGTGGGCCTTAGCCCAATACAGTAACA
Found at i:808808 original size:56 final size:56
Alignment explanation
Indices: 808733--808839 Score: 160
Period size: 56 Copynumber: 1.9 Consensus size: 56
808723 AATAGTACGA
* *
808733 TGTGGGCCTTAGCCCAATACAGTAACAATGTAGGCCTTTCCCCAATACAGTAATAG
1 TGTGGGCCTTAACCCAATACAGTAACAATGTAGGCCTTACCCCAATACAGTAATAG
* * * *
808789 TGTGGGCCTTAACCTAATACAGTAACAGTGTGGGCCTTAGCCCAATACAGT
1 TGTGGGCCTTAACCCAATACAGTAACAATGTAGGCCTTACCCCAATACAGT
808840 GTCGGTACAG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 45 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.25
Consensus pattern (56 bp):
TGTGGGCCTTAACCCAATACAGTAACAATGTAGGCCTTACCCCAATACAGTAATAG
Found at i:809215 original size:27 final size:27
Alignment explanation
Indices: 809156--809322 Score: 151
Period size: 27 Copynumber: 6.2 Consensus size: 27
809146 TCATCTCCTA
** *
809156 GGGGTATAACAGTCATTTTA-CCTAATA
1 GGGGTATTTCAGTCATTTTACCCT-ATG
*
809183 GAGGTATTTCAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
809210 GGGGTAATTT-GGTCATTTTACCCTATG
1 GGGGT-ATTTCAGTCATTTTACCCTATG
* * *
809237 GGGGTAATTT-GGTCATTTTACGCTATA
1 GGGGT-ATTTCAGTCATTTTACCCTATG
* * ** *
809264 GGGGTAATTCGGTCATTTTGTCCTACG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
809291 GGGGTATTTCAGTAATTTTACCCTGTG
1 GGGGTATTTCAGTCATTTTACCCTATG
809318 GGGGT
1 GGGGT
809323 CTCGATGCAA
Statistics
Matches: 116, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
26 3 0.03
27 106 0.91
28 7 0.06
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:809225 original size:54 final size:53
Alignment explanation
Indices: 809167--809322 Score: 179
Period size: 54 Copynumber: 2.9 Consensus size: 53
809157 GGGTATAACA
* * *
809167 GTCATTTTACCTAATAGAGGTATTTCAGTCATTTTACCCTATGGGGGTAATTTG
1 GTCATTTTACCT-ATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTAATTCG
* * *
809221 GTCATTTTACCCTATGGGGGTAATTT-GGTCATTTTACGCTATAGGGGTAATTCG
1 GTCATTTTA-CCTATGGGGGT-ATTTCAGTCATTTTACCCTATGGGGGTAATTCG
* * * *
809275 GTCATTTTGTCCTACGGGGGTATTTCAGTAATTTTACCCTGTGGGGGT
1 GTCATTTT-ACCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGT
809323 CTCGATGCAA
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
53 4 0.05
54 74 0.87
55 7 0.08
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (53 bp):
GTCATTTTACCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTAATTCG
Found at i:809252 original size:81 final size:81
Alignment explanation
Indices: 809167--809322 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 81
809157 GGGTATAACA
* * * *
809167 GTCATTTTAC-CTAATAGAGGTATTTCAGTCATTTTACCCTATGGGGGTAATTT-GGTCATTTTA
1 GTCATTTTACGCT-ATAGAGGTAATTCAGTCATTTTACCCTACGGGGGT-ATTTCAGTAATTTTA
809230 CCCTATGGGGGTAATTTG
64 CCCTATGGGGGTAATTTG
* * **
809248 GTCATTTTACGCTATAGGGGTAATTCGGTCATTTTGTCCTACGGGGGTATTTCAGTAATTTTACC
1 GTCATTTTACGCTATAGAGGTAATTCAGTCATTTTACCCTACGGGGGTATTTCAGTAATTTTACC
*
809313 CTGTGGGGGT
66 CTATGGGGGT
809323 CTCGATGCAA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 4 0.06
81 58 0.91
82 2 0.03
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (81 bp):
GTCATTTTACGCTATAGAGGTAATTCAGTCATTTTACCCTACGGGGGTATTTCAGTAATTTTACC
CTATGGGGGTAATTTG
Found at i:815514 original size:131 final size:130
Alignment explanation
Indices: 815254--815523 Score: 432
Period size: 131 Copynumber: 2.1 Consensus size: 130
815244 AATTACCAAA
* * *
815254 TTTACAAAACACACATGACTACCAGTGTTTCAAGTTCGTAAAAAATGTTTGGATTTTCTTTTTCT
1 TTTAGAAATCACACATGACTACCAGTGTTTCAAGTGCGTAAAAAATGTTTGGATTTTCTTTTTCT
* * *
815319 TTTCTTTTTGGATAGAAATAGTTGACGTTTTTCTTGCATTTTTTATGCCATTCTGAACATCTAAT
66 TTTCTTTTTGGAGAGAAATACTTGACGTTTTTCTTGCATTTTTTACGCCATTCTGAACATCTAAT
* * *
815384 TTTAGAAATCACACTTGACTACTAGTGTTTCGAGTGCGTAAAAAATGTTTGGATTTTCTTTTTCT
1 TTTAGAAATCACACATGACTACCAGTGTTTCAAGTGCGTAAAAAATGTTTGGATTTTCTTTTTC-
* *
815449 TTTTTTTTTTGGAGAGAAATACTTGACGTTTTTCTTGCATTTTTTACGCCATTCTGAACGTCTAA
65 TTTTCTTTTTGGAGAGAAATACTTGACGTTTTTCTTGCATTTTTTACGCCATTCTGAACATCTAA
815514 T
130 T
815515 TTTAGAAAT
1 TTTAGAAAT
815524 TACAAAAAAA
Statistics
Matches: 128, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
130 58 0.45
131 70 0.55
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.45
Consensus pattern (130 bp):
TTTAGAAATCACACATGACTACCAGTGTTTCAAGTGCGTAAAAAATGTTTGGATTTTCTTTTTCT
TTTCTTTTTGGAGAGAAATACTTGACGTTTTTCTTGCATTTTTTACGCCATTCTGAACATCTAAT
Found at i:823653 original size:27 final size:27
Alignment explanation
Indices: 823615--823704 Score: 146
Period size: 27 Copynumber: 3.3 Consensus size: 27
823605 AATAGGCCTC
823615 TAAAATGACCGAAATACCCCCGAAGGG
1 TAAAATGACCGAAATACCCCCGAAGGG
823642 TAAAATGACCGAAATACCCCCGAAGGG
1 TAAAATGACCGAAATACCCCCGAAGGG
* *
823669 TAAAATGATCGAAATATCCCC-ATAGGG
1 TAAAATGACCGAAATACCCCCGA-AGGG
823696 TAAAATGAC
1 TAAAATGAC
823705 TGTTATACCC
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
26 1 0.02
27 58 0.98
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.16
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCCGAAGGG
Found at i:824071 original size:30 final size:30
Alignment explanation
Indices: 824037--824212 Score: 253
Period size: 30 Copynumber: 5.9 Consensus size: 30
824027 TGCATTTGCA
* * *
824037 CTGTTACTCTATTAGGCTAAGGTCCACACT
1 CTGTTACTATATTGGGCTAAGGCCCACACT
824067 CTGTTACTATATTGGGCTAAGGCCCACACT
1 CTGTTACTATATTGGGCTAAGGCCCACACT
824097 CTGTTACTATATTGGGCTAAGGCCCACACT
1 CTGTTACTATATTGGGCTAAGGCCCACACT
* * * *
824127 CTGTAACTGTATTAGGCTAAGCCCCACACT
1 CTGTTACTATATTGGGCTAAGGCCCACACT
* *
824157 CTGATACTCTATTGGGCTAAGGCCCACACT
1 CTGTTACTATATTGGGCTAAGGCCCACACT
* *
824187 CTGTTACTATATAGGGCTCAGGCCCA
1 CTGTTACTATATTGGGCTAAGGCCCA
824213 GACTGATTCT
Statistics
Matches: 130, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 130 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (30 bp):
CTGTTACTATATTGGGCTAAGGCCCACACT
Found at i:824204 original size:90 final size:90
Alignment explanation
Indices: 824037--824212 Score: 280
Period size: 90 Copynumber: 2.0 Consensus size: 90
824027 TGCATTTGCA
* ** *
824037 CTGTTACTCTATTAGGCTAAGGTCCACACTCTGTTACTATATTGGGCTAAGGCCCACACTCTGTT
1 CTGTAACTCTATTAGGCTAAGCCCCACACTCTGATACTATATTGGGCTAAGGCCCACACTCTGTT
*
824102 ACTATATTGGGCTAAGGCCCACACT
66 ACTATATAGGGCTAAGGCCCACACT
* *
824127 CTGTAACTGTATTAGGCTAAGCCCCACACTCTGATACTCTATTGGGCTAAGGCCCACACTCTGTT
1 CTGTAACTCTATTAGGCTAAGCCCCACACTCTGATACTATATTGGGCTAAGGCCCACACTCTGTT
*
824192 ACTATATAGGGCTCAGGCCCA
66 ACTATATAGGGCTAAGGCCCA
824213 GACTGATTCT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 78 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (90 bp):
CTGTAACTCTATTAGGCTAAGCCCCACACTCTGATACTATATTGGGCTAAGGCCCACACTCTGTT
ACTATATAGGGCTAAGGCCCACACT
Found at i:863343 original size:50 final size:50
Alignment explanation
Indices: 863270--863510 Score: 295
Period size: 50 Copynumber: 4.8 Consensus size: 50
863260 TCTTATACTT
* * * * ** * *
863270 CCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATATGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTG
* * **
863320 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCA-GTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-AGGTG
* *
863370 CCAACGCCATGTCCGAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTG
* *
863420 CCAACGCCATGTCCCATACATGGTCTTACATGGGACCTCTCCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT-CATCTAGGTG
* *
863471 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
863511 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 20, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
50 120 0.71
51 48 0.29
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTG
Found at i:869917 original size:51 final size:49
Alignment explanation
Indices: 869782--869919 Score: 197
Period size: 50 Copynumber: 2.8 Consensus size: 49
869772 AAAGTGAAAG
*
869782 TGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATAGGAA
1 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATAGGAA
* *
869831 TGATGGGTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG-A
1 TGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATAGGAA
*
869880 TGGAAATGGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 T-G--ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
869920 TGTGAACCAG
Statistics
Matches: 80, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
49 6 0.08
50 41 0.51
51 31 0.39
52 2 0.03
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.31
Consensus pattern (49 bp):
TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATAGGAA
Found at i:876488 original size:27 final size:27
Alignment explanation
Indices: 876062--876477 Score: 535
Period size: 27 Copynumber: 15.4 Consensus size: 27
876052 CTCCAAAATA
* *
876062 GGTAAAATGACTGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
**
876089 GGTAAAATGATTGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * * *
876116 GGTAGAATGATCGAAATAACCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
876143 GGTAAAATGACCAAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
876170 GGTAAAATGACCAAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
876197 GGTAGAATGACCGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
876224 GGTAGAATGACCGAAATACCCCCATGG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
876251 GGTAAAATGATCGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
876278 GGTAAAATGACCGAAATACCCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
876305 GGTAGAATAATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
876332 GGTAAAATGAGCAAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * * * *
876359 GGTAGAATAACTGAATTACCCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
*
876386 GGTAGAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* **
876413 GGTAGAATGACCGAAATACTGCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
876440 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
876467 GGTAAAATGAC
1 GGTAAAATGAC
876478 TATTATACCC
Statistics
Matches: 340, Mismatches: 49, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 340 1.00
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:878536 original size:45 final size:45
Alignment explanation
Indices: 878472--878604 Score: 257
Period size: 45 Copynumber: 3.0 Consensus size: 45
878462 CCAAAGAGGC
878472 CCATTAAAGGCCTTGGACGAAATTCCCTTGAAAGTAAAAAAAAAT
1 CCATTAAAGGCCTTGGACGAAATTCCCTTGAAAGTAAAAAAAAAT
*
878517 CCATTAAAGGCCTTGGACGAAATTCCCTTGAAAATAAAAAAAAAT
1 CCATTAAAGGCCTTGGACGAAATTCCCTTGAAAGTAAAAAAAAAT
878562 CCATTAAAGGCCTTGGACGAAATTCCCTTGAAAGTAAAAAAAA
1 CCATTAAAGGCCTTGGACGAAATTCCCTTGAAAGTAAAAAAAA
878605 TTAGGTTTTT
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 86 1.00
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (45 bp):
CCATTAAAGGCCTTGGACGAAATTCCCTTGAAAGTAAAAAAAAAT
Found at i:881417 original size:19 final size:18
Alignment explanation
Indices: 881393--881432 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
881383 GAAATTTGCC
* *
881393 AAATTTGTTTTCAATGCGA
1 AAATTTGTATTAAATG-GA
881412 AAATTTGTATTAAATGGA
1 AAATTTGTATTAAATGGA
881430 AAA
1 AAA
881433 GGTAAAATCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (18 bp):
AAATTTGTATTAAATGGA
Found at i:890377 original size:12 final size:12
Alignment explanation
Indices: 890352--890390 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
890342 ACTCGCTTCT
* *
890352 TTACTTACTCAC
1 TTACTTGCTTAC
*
890364 TTACTTGTTTAC
1 TTACTTGCTTAC
890376 TTACTTGCTTAC
1 TTACTTGCTTAC
890388 TTA
1 TTA
890391 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:890710 original size:50 final size:50
Alignment explanation
Indices: 890580--890771 Score: 174
Period size: 50 Copynumber: 3.7 Consensus size: 50
890570 GAATATAACA
* * * * *
890580 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTTCTGTAC---
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTC-ATACAAG
* * *
890629 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATACAAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATACAAG
* * * **
890679 TGCCCATGCCATGTCCCAGACATGGTTTTACATGGAACCTCTCATAATCTCAATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-A---CAA-G
890734 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
890772 TCTCATTCCC
Statistics
Matches: 115, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
47 3 0.03
48 5 0.04
49 31 0.27
50 37 0.32
51 1 0.01
54 3 0.03
55 1 0.01
56 34 0.30
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATACAAG
Found at i:898158 original size:136 final size:138
Alignment explanation
Indices: 898011--898264 Score: 404
Period size: 138 Copynumber: 1.9 Consensus size: 138
898001 TTTTGGTTGC
* * *
898011 TCTTTTTGTAAATATTTTCAAAGGCATCTAGAATAAATGATTTTAATTT-AA-TTTAATAAATAA
1 TCTTTTTGTAAATATTTTCAAAGGCAGCTAAAATAAAGGATTTTAATTTAAATTTTAATAAATAA
* *
898074 GATGATAATAACTAGTATATAATTTTATTTATTATAATATATATTAATTATTAAATATTAAAAAT
66 GATGATAATAACTAATATATAATTATATTTATTATAATATATATTAATTATTAAATATTAAAAAT
898139 TATCTGTA
131 TATCTGTA
* * *
898147 TCTTTTTGTAAATATTTTTAAAGGCAGCTAAAATAAAGGTTTTTACTTTAAATTTTAATAAATAA
1 TCTTTTTGTAAATATTTTCAAAGGCAGCTAAAATAAAGGATTTTAATTTAAATTTTAATAAATAA
* *
898212 GGTGATAATAATTAATATATAATTATATTTATTATAATATATATTAATTATTA
66 GATGATAATAACTAATATATAATTATATTTATTATAATATATATTAATTATTA
898265 TCAACTTTAT
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
136 43 0.41
137 2 0.02
138 61 0.58
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (138 bp):
TCTTTTTGTAAATATTTTCAAAGGCAGCTAAAATAAAGGATTTTAATTTAAATTTTAATAAATAA
GATGATAATAACTAATATATAATTATATTTATTATAATATATATTAATTATTAAATATTAAAAAT
TATCTGTA
Found at i:898249 original size:22 final size:19
Alignment explanation
Indices: 898224--898265 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
898214 TGATAATAAT
898224 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
898246 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
898265 T
1 T
898266 CAACTTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:898256 original size:16 final size:15
Alignment explanation
Indices: 898222--898262 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
898212 GGTGATAATA
898222 ATTAATATATAATTAT
1 ATTAAT-TATAATTAT
*
898238 ATTTATTATAATATAT
1 ATTAATTATAAT-TAT
898254 ATTAATTAT
1 ATTAATTAT
898263 TATCAACTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTAATTATAATTAT
Found at i:904725 original size:38 final size:38
Alignment explanation
Indices: 904680--904754 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
904670 ATAGATTTTA
*
904680 ATTATTATTTAAAAGAGATTTAGATAAATAGTAATTAT
1 ATTATTATTTAAAAGAGATTTAGATAAATAATAATTAT
*
904718 ATTATTATTTAAAAGAGTTTTAGATAAATAATAATTA
1 ATTATTATTTAAAAGAGATTTAGATAAATAATAATTA
904755 AAACATCATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (38 bp):
ATTATTATTTAAAAGAGATTTAGATAAATAATAATTAT
Found at i:904766 original size:38 final size:38
Alignment explanation
Indices: 904686--904767 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 38
904676 TTTAATTATT
* * ** *
904686 ATTTAAAAGAGATTTAGATAAATAGTAATTATATTATT
1 ATTTAAAAGAGATTTAGATAAATAATAATTAAAACATC
*
904724 ATTTAAAAGAGTTTTAGATAAATAATAATTAAAACATC
1 ATTTAAAAGAGATTTAGATAAATAATAATTAAAACATC
904762 ATTTAA
1 ATTTAA
904768 TTATTATTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (38 bp):
ATTTAAAAGAGATTTAGATAAATAATAATTAAAACATC
Found at i:904771 original size:49 final size:50
Alignment explanation
Indices: 904716--904940 Score: 264
Period size: 52 Copynumber: 4.5 Consensus size: 50
904706 AATAGTAATT
*
904716 ATATTATTATTTAAAAGAGTTTTAGATAAATA-ATAATTAAA-ACATCATTTA
1 ATATTATTATTTAAAAGAGTTTTAAATAAA-AGATAATTAAATACA--ATTTA
* * *
904767 ATTATTATTATTTAAAACAATTTTAAATAAAAGATAATTAAATAGAATTTA
1 A-TATTATTATTTAAAAGAGTTTTAAATAAAAGATAATTAAATACAATTTA
*
904818 A-ATTATTATTTAAAAGAGTTTTAGATAAATA-ATAATTAAA-ACATCATTTA
1 ATATTATTATTTAAAAGAGTTTTAAATAAA-AGATAATTAAATACA--ATTTA
* * *
904868 ATTATTATTATTTAAAACAATTTTAAATAAAAGATAATTAAATAGAATTTA
1 A-TATTATTATTTAAAAGAGTTTTAAATAAAAGATAATTAAATACAATTTA
904919 A-ATTATTATTTAAAAGAGTTTT
1 ATATTATTATTTAAAAGAGTTTT
904941 TTTTTAATAC
Statistics
Matches: 150, Mismatches: 14, Indels: 22
0.81 0.08 0.12
Matches are distributed among these distances:
48 2 0.01
49 53 0.35
50 7 0.05
51 15 0.10
52 69 0.46
53 4 0.03
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (50 bp):
ATATTATTATTTAAAAGAGTTTTAAATAAAAGATAATTAAATACAATTTA
Found at i:904781 original size:26 final size:25
Alignment explanation
Indices: 904717--904890 Score: 74
Period size: 26 Copynumber: 6.9 Consensus size: 25
904707 ATAGTAATTA
*
904717 TATTATTATTTAAAAGAGT-TTTAGAT
1 TATTATTATTTAAAACA-TATTTA-AT
* * * *
904743 AAATAATAATTAAAACATCATTTAAT
1 TATTATTATTTAAAACAT-ATTTAAT
*
904769 TATTATTATTTAAAACA-ATTTTAAA
1 TATTATTATTTAAAACATA-TTTAAT
** * * *
904794 TAAAAGATAATTAAATAGA-ATTTAA-
1 TATTA-TTATTTAAA-ACATATTTAAT
*
904819 -ATTATTATTTAAAAGAGT-TTTAGAT
1 TATTATTATTTAAAACA-TATTTA-AT
* * * *
904844 AAATAATAATTAAAACATCATTTAAT
1 TATTATTATTTAAAACAT-ATTTAAT
904870 TATTATTATTTAAAACA-ATTT
1 TATTATTATTTAAAACATATTT
904891 TAAATAAAAG
Statistics
Matches: 109, Mismatches: 27, Indels: 26
0.67 0.17 0.16
Matches are distributed among these distances:
22 3 0.03
23 11 0.10
24 8 0.07
25 10 0.09
26 66 0.61
27 11 0.10
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (25 bp):
TATTATTATTTAAAACATATTTAAT
Found at i:904851 original size:101 final size:101
Alignment explanation
Indices: 904704--904940 Score: 449
Period size: 101 Copynumber: 2.3 Consensus size: 101
904694 GAGATTTAGA
*
904704 TAAATAGTAA-TTATATTATTATTTAAAAGAGTTTTAGATAAATAATAATTAAAACATCATTTAA
1 TAAATAG-AATTTAAATTATTATTTAAAAGAGTTTTAGATAAATAATAATTAAAACATCATTTAA
904768 TTATTATTATTTAAAACAATTTTAAATAAAAGATAAT
65 TTATTATTATTTAAAACAATTTTAAATAAAAGATAAT
904805 TAAATAGAATTTAAATTATTATTTAAAAGAGTTTTAGATAAATAATAATTAAAACATCATTTAAT
1 TAAATAGAATTTAAATTATTATTTAAAAGAGTTTTAGATAAATAATAATTAAAACATCATTTAAT
904870 TATTATTATTTAAAACAATTTTAAATAAAAGATAAT
66 TATTATTATTTAAAACAATTTTAAATAAAAGATAAT
904906 TAAATAGAATTTAAATTATTATTTAAAAGAGTTTT
1 TAAATAGAATTTAAATTATTATTTAAAAGAGTTTT
904941 TTTTTAATAC
Statistics
Matches: 134, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
100 2 0.01
101 132 0.99
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (101 bp):
TAAATAGAATTTAAATTATTATTTAAAAGAGTTTTAGATAAATAATAATTAAAACATCATTTAAT
TATTATTATTTAAAACAATTTTAAATAAAAGATAAT
Found at i:921308 original size:9 final size:9
Alignment explanation
Indices: 921294--921319 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
921284 ATTCCAAAGC
921294 AAAATAAAA
1 AAAATAAAA
921303 AAAATAAAA
1 AAAATAAAA
921312 AAAATAAA
1 AAAATAAA
921320 TGTTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAATAAAA
Found at i:927345 original size:17 final size:17
Alignment explanation
Indices: 927323--927355 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
927313 CAAATGCCTA
927323 AGCACATATTCACCAAT
1 AGCACATATTCACCAAT
927340 AGCACATATTCACCAA
1 AGCACATATTCACCAA
927356 CATGTTAGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.30, G:0.06, T:0.21
Consensus pattern (17 bp):
AGCACATATTCACCAAT
Found at i:929255 original size:17 final size:17
Alignment explanation
Indices: 929233--929265 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
929223 CAAATGCCTA
929233 AGCACATATTCACCAAT
1 AGCACATATTCACCAAT
929250 AGCACATATTCACCAA
1 AGCACATATTCACCAA
929266 CATGTTAGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.30, G:0.06, T:0.21
Consensus pattern (17 bp):
AGCACATATTCACCAAT
Found at i:937784 original size:25 final size:25
Alignment explanation
Indices: 937750--937844 Score: 75
Period size: 25 Copynumber: 3.8 Consensus size: 25
937740 AACTCAACAA
*
937750 CTCGTGAGAGCATACCGATTTATAG
1 CTCGTAAGAGCATACCGATTTATAG
* * *
937775 CTCGTAAGAGCATACCAATTTGTAA
1 CTCGTAAGAGCATACCGATTTATAG
* * * * *
937800 CTTGTGAGAGCATATCGATCTACAG
1 CTCGTAAGAGCATACCGATTTATAG
* *
937825 CTTG-AGTGAGCATACCGATT
1 CTCGTA-AGAGCATACCGATT
937845 CACAACTCGT
Statistics
Matches: 53, Mismatches: 16, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (25 bp):
CTCGTAAGAGCATACCGATTTATAG
Found at i:939919 original size:25 final size:25
Alignment explanation
Indices: 939885--939964 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
939875 CCACAACTTT
939885 TATGAGCTTACCGATTCTCAGCTCG
1 TATGAGCTTACCGATTCTCAGCTCG
* * *
939910 TATGAGCTTATCGATTCACAGCTTG
1 TATGAGCTTACCGATTCTCAGCTCG
** *
939935 TGGGAGCATACCGATTCAT-AGCTCG
1 TATGAGCTTACCGATTC-TCAGCTCG
939960 TATGA
1 TATGA
939965 TAATACATGT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (25 bp):
TATGAGCTTACCGATTCTCAGCTCG
Found at i:945176 original size:336 final size:331
Alignment explanation
Indices: 944605--945217 Score: 933
Period size: 336 Copynumber: 1.8 Consensus size: 331
944595 TGACGATGTT
* * * * *
944605 CCTTGAGTGCGACACAAGAGGAAATAGAGAGGTTCAAGTCGAGTTGTCTAGGAATAGTATTCTCC
1 CCTTAAGTGCAACACAAGAGGAAATAGAGAGATTCAAGTCCAGCTGTCTAGGAATAGTATTCTCC
*
944670 ACTTGTTTCTTTTATTTTTTTAAACGCTGGTGATTACTTTCTATTTCATGTTAGTATGGAAGTAC
66 ACTTGTTTCTTTTATTTTTTTAAACGCTGGTGATCACTTTCTATTTCATGTTAGTATGGAAGTAC
*
944735 ACATGATTTCTGGGTTAAATGTTATTTTATTCAGTCTTGCTTCTACTGTTTAATCTTTAGGTTTG
131 ACATGATTTCTGGGTTAAATGTTATTTTATTCAGTCTTGCTTCTACTATTTAATCTTTAGGTTTG
*** * * * *
944800 AATGTTTCTAGCATGGAAGTGTTATTACAGTCATTGACACTGGAAGGTGCAGTGGCAG-TCTAAG
196 AATGTTTCTAGCACAAAAGTGTTATTACAGTCAGTGACACTAGAAGGTGCAATGACAGTTC-AAG
* *
944864 CTAACAAGCATGACAACGTCTCCTACGGGTGAACCAACGTGAAAGGGATGCAGACTAGCTTCTAA
260 CTAAAAAGCATGAAAACGTCTCCTACGGGTGAACCAACGTGAAAGGGATGCAGACTAGCTTCTAA
944929 CGAGAAG
325 CGAGAAG
*
944936 CCTTAAGTGCAACACAA-ATGGGAATAGAGAGATTCAAGTCCAGCTGTCTAGGAATAGTATTCTC
1 CCTTAAGTGCAACACAAGA-GGAAATAGAGAGATTCAAGTCCAGCTGTCTAGGAATAGTATTCTC
*
945000 TACTTGTTTCTTTTATTTTTCTTTTCTAAACGCTGGTGATCACTTTCTATTTCATGTTAGTATGG
65 CACTTGTTTCTTTTA---TT-TTTT-TAAACGCTGGTGATCACTTTCTATTTCATGTTAGTATGG
* *
945065 AAGTACACATGATTTCTGGGTTAAATGTTATTTTATTCAGTTTTGCTTCTACTATTTAATCTTTG
125 AAGTACACATGATTTCTGGGTTAAATGTTATTTTATTCAGTCTTGCTTCTACTATTTAATCTTTA
* * * *
945130 GGTTTTAATGTTTTTAGCACAAAAGTGTTATTGCAGTCAGTGACACTAGAAGGTGCAATGATAGT
190 GGTTTGAATGTTTCTAGCACAAAAGTGTTATTACAGTCAGTGACACTAGAAGGTGCAATGACAGT
945195 TCAAGCTAAAAAGCATGAAAACG
255 TCAAGCTAAAAAGCATGAAAACG
945218 AAAGTTGCTT
Statistics
Matches: 251, Mismatches: 24, Indels: 9
0.88 0.08 0.03
Matches are distributed among these distances:
330 1 0.00
331 70 0.28
334 2 0.01
335 4 0.02
336 172 0.69
337 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (331 bp):
CCTTAAGTGCAACACAAGAGGAAATAGAGAGATTCAAGTCCAGCTGTCTAGGAATAGTATTCTCC
ACTTGTTTCTTTTATTTTTTTAAACGCTGGTGATCACTTTCTATTTCATGTTAGTATGGAAGTAC
ACATGATTTCTGGGTTAAATGTTATTTTATTCAGTCTTGCTTCTACTATTTAATCTTTAGGTTTG
AATGTTTCTAGCACAAAAGTGTTATTACAGTCAGTGACACTAGAAGGTGCAATGACAGTTCAAGC
TAAAAAGCATGAAAACGTCTCCTACGGGTGAACCAACGTGAAAGGGATGCAGACTAGCTTCTAAC
GAGAAG
Found at i:963653 original size:13 final size:13
Alignment explanation
Indices: 963635--963661 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
963625 TGAATTAATA
963635 TGTGTGAAAGTTT
1 TGTGTGAAAGTTT
963648 TGTGTGAAAGTTT
1 TGTGTGAAAGTTT
963661 T
1 T
963662 ATCGTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAGTTT
Found at i:964876 original size:42 final size:42
Alignment explanation
Indices: 964770--964908 Score: 145
Period size: 44 Copynumber: 3.2 Consensus size: 42
964760 TGTAATTACG
** * *
964770 TGTAAGACCACATCTGGGACATTGGCATCG-ATTTGATATTTA
1 TGTAAGACCATGTCTAGGACATTGGCATCGTATTTGAT-TTCA
* *
964812 TGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTCA
1 --TGTAAGACCATGTCTAGGACATTGGCATCGTATTTGATTTCA
* * *
964856 TGTAAGACCCTGTCTAGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTAGGACATTGGCATCG-TATTTGATTTCA
*
964899 TATAAGACCA
1 TGTAAGACCA
964909 CATCTGGGAC
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
42 27 0.33
43 18 0.22
44 31 0.38
45 6 0.07
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGTATTTGATTTCA
Found at i:974688 original size:18 final size:19
Alignment explanation
Indices: 974638--974691 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
974628 TCATTTTCAT
974638 CAACTTCTTCTTCTTTAGCAA
1 CAACTTCTTCTTC--TAGCAA
* *
974659 CAACCTCCTCTTCT-GCAA
1 CAACTTCTTCTTCTAGCAA
974677 CAACTTCTTCTTCTA
1 CAACTTCTTCTTCTA
974692 CAAGTGCAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 16 0.57
19 1 0.04
21 11 0.39
ACGTcount: A:0.22, C:0.35, G:0.04, T:0.39
Consensus pattern (19 bp):
CAACTTCTTCTTCTAGCAA
Found at i:983835 original size:22 final size:22
Alignment explanation
Indices: 983810--983869 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
983800 TTTGAACCAT
983810 TACCAATTCGTACCAAATTCC-A
1 TACCAATTCGTACC-AATTCCAA
*
983832 TACCATTTCGTACCAATTCCTAAA
1 TACCAATTCGTACCAATTCC--AA
*
983856 TACCAAATCGTACC
1 TACCAATTCGTACC
983870 TAAACCAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 6 0.19
22 13 0.41
24 13 0.41
ACGTcount: A:0.35, C:0.32, G:0.05, T:0.28
Consensus pattern (22 bp):
TACCAATTCGTACCAATTCCAA
Found at i:991476 original size:22 final size:22
Alignment explanation
Indices: 991415--991478 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
991405 TTGCGTAATG
991415 TGATTATGGCTCTGTGCCAACC
1 TGATTATGGCTCTGTGCCAACC
* * * * * *
991437 TAAATATAGCTCTATGCCATCT
1 TGATTATGGCTCTGTGCCAACC
*
991459 TGATTATGGCTTTGTGCCAA
1 TGATTATGGCTCTGTGCCAA
991479 TCGTATTTAC
Statistics
Matches: 30, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (22 bp):
TGATTATGGCTCTGTGCCAACC
Found at i:995102 original size:21 final size:22
Alignment explanation
Indices: 995076--995122 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
995066 GTTTAACTAG
*
995076 CAATTATGTGGTCG-TTATCGA
1 CAATTATGTGGTCGTTTATCCA
*
995097 CAATTATGTGGTGGTTTATCCA
1 CAATTATGTGGTCGTTTATCCA
995119 CAAT
1 CAAT
995123 GTGCTATGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (22 bp):
CAATTATGTGGTCGTTTATCCA
Found at i:996641 original size:39 final size:39
Alignment explanation
Indices: 996578--996654 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
996568 TTTCGAGAGT
996578 AAGACCAACTGACTTTAGGTTGATTAATTGAAATTTCTA
1 AAGACCAACTGACTTTAGGTTGATTAATTGAAATTTCTA
* *
996617 AAGAGCAATTGACTTTAGGTTGATTAATTGAAATTTCT
1 AAGACCAACTGACTTTAGGTTGATTAATTGAAATTTCT
996655 TTCTAATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (39 bp):
AAGACCAACTGACTTTAGGTTGATTAATTGAAATTTCTA
Found at i:999091 original size:23 final size:23
Alignment explanation
Indices: 999056--999110 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
999046 AACAACCATA
*
999056 AAAATAAAAGAAT-AGTTCTAAAG
1 AAAATAAAAGAATGAGGTCT-AAG
* *
999079 ATAATAAACGAATGAGGTCTAAG
1 AAAATAAAAGAATGAGGTCTAAG
999102 AAAATAAAA
1 AAAATAAAA
999111 ATAAAATAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.60, C:0.05, G:0.15, T:0.20
Consensus pattern (23 bp):
AAAATAAAAGAATGAGGTCTAAG
Found at i:999113 original size:6 final size:6
Alignment explanation
Indices: 999102--999175 Score: 55
Period size: 6 Copynumber: 12.2 Consensus size: 6
999092 GAGGTCTAAG
999102 AAAATA AAAAT- AAAATA ACTAAA-A AAACA-A AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA A--AAATA AAA-ATA AAAATA AAAATA AAAATA
* * * *
999150 AAATTG AAAAGA AAAGAAA AAAATA A
1 AAAATA AAAATA AAA-ATA AAAATA A
999176 GCGATCTTCG
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
5 8 0.15
6 37 0.67
7 7 0.13
8 3 0.05
ACGTcount: A:0.80, C:0.03, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:1004220 original size:9 final size:8
Alignment explanation
Indices: 1004187--1004217 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
1004177 AAGAAGGAAT
1004187 AAATTTTA
1 AAATTTTA
1004195 AAATTTTA
1 AAATTTTA
1004203 AAATTTTA
1 AAATTTTA
1004211 AAATTTT
1 AAATTTT
1004218 TAATGCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
AAATTTTA
Found at i:1005901 original size:22 final size:23
Alignment explanation
Indices: 1005870--1005914 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
1005860 TACCGAGGGG
* *
1005870 ATTGGTGATTTTATCGCA-TATT
1 ATTGGCGATTGTATCGCACTATT
1005892 ATTGGCGATTGTATCGCACTATT
1 ATTGGCGATTGTATCGCACTATT
1005915 TTATATCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.44
Consensus pattern (23 bp):
ATTGGCGATTGTATCGCACTATT
Found at i:1008077 original size:19 final size:19
Alignment explanation
Indices: 1008053--1008089 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1008043 ATCACTAGGG
*
1008053 TCAGTGACCGCATAAAACA
1 TCAGTGACCGAATAAAACA
1008072 TCAGTGACCGAATAAAAC
1 TCAGTGACCGAATAAAAC
1008090 TCGCTTTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.24, G:0.16, T:0.16
Consensus pattern (19 bp):
TCAGTGACCGAATAAAACA
Found at i:1011947 original size:19 final size:19
Alignment explanation
Indices: 1011919--1011957 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1011909 AAAGGGTTTT
1011919 GAAGAAAGAA-AGTGAGAGA
1 GAAGAAAGAAGAGTGA-AGA
*
1011938 GAAGAGAGAAGAGTGAAGA
1 GAAGAAAGAAGAGTGAAGA
1011957 G
1 G
1011958 TGAAAGATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.54, C:0.00, G:0.41, T:0.05
Consensus pattern (19 bp):
GAAGAAAGAAGAGTGAAGA
Found at i:1028978 original size:19 final size:18
Alignment explanation
Indices: 1028944--1028981 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1028934 TGGTTTTCTC
1028944 AAAATAAAAATGGAAATG
1 AAAATAAAAATGGAAATG
*
1028962 AAAATGAAAATGAGAAATG
1 AAAATAAAAATG-GAAATG
1028981 A
1 A
1028982 TTCATTTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.66, C:0.00, G:0.18, T:0.16
Consensus pattern (18 bp):
AAAATAAAAATGGAAATG
Found at i:1039240 original size:32 final size:32
Alignment explanation
Indices: 1039192--1039409 Score: 240
Period size: 32 Copynumber: 6.8 Consensus size: 32
1039182 TACAGTAATG
*
1039192 TGATTGGCACAAAGCCATCAGTAGCAGTGATA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATA
* * * * * *
1039224 TAATCGGCACACAGCCATCAGTAACGGTAACA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATA
*
1039256 TGATCGGCACAAAGCCATCAGCAGCAGTGATA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATA
* * * * * *
1039288 TGACCGGCACACAGCCATCAGTAACTGTAACA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATA
*
1039320 TGACCGGCACAAAGCCATCAGTAGCAGTGATA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATA
* * * *
1039352 TGCTCGGCACACAGCCATCAGTAACGGT-ACTA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGA-TA
*
1039384 TGATCTGCACAAAGCCATCAGTAGCA
1 TGATCGGCACAAAGCCATCAGTAGCA
1039410 TCGCAGCAAA
Statistics
Matches: 149, Mismatches: 36, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
31 1 0.01
32 148 0.99
ACGTcount: A:0.34, C:0.27, G:0.22, T:0.17
Consensus pattern (32 bp):
TGATCGGCACAAAGCCATCAGTAGCAGTGATA
Found at i:1039276 original size:64 final size:64
Alignment explanation
Indices: 1039192--1039409 Score: 348
Period size: 64 Copynumber: 3.4 Consensus size: 64
1039182 TACAGTAATG
* *
1039192 TGATTGGCACAAAGCCATCAGTAGCAGTGATATAATCGGCACACAGCCATCAGTAACGGTAACA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGGTAACA
* * *
1039256 TGATCGGCACAAAGCCATCAGCAGCAGTGATATGACCGGCACACAGCCATCAGTAACTGTAACA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGGTAACA
* *
1039320 TGACCGGCACAAAGCCATCAGTAGCAGTGATATGCTCGGCACACAGCCATCAGTAACGGT-ACTA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGGTAAC-A
*
1039384 TGATCTGCACAAAGCCATCAGTAGCA
1 TGATCGGCACAAAGCCATCAGTAGCA
1039410 TCGCAGCAAA
Statistics
Matches: 141, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
63 2 0.01
64 139 0.99
ACGTcount: A:0.34, C:0.27, G:0.22, T:0.17
Consensus pattern (64 bp):
TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGGTAACA
Found at i:1039621 original size:24 final size:24
Alignment explanation
Indices: 1039578--1039623 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
1039568 CCATGCTCAG
*
1039578 AATCAGTCATTCAAATCACAGACA
1 AATCAGTCATCCAAATCACAGACA
1039602 AATCAGTCATACCAAA-CACAGA
1 AATCAGTCAT-CCAAATCACAGA
1039624 TCAGTCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.48, C:0.26, G:0.09, T:0.17
Consensus pattern (24 bp):
AATCAGTCATCCAAATCACAGACA
Found at i:1039732 original size:27 final size:27
Alignment explanation
Indices: 1039695--1039980 Score: 308
Period size: 27 Copynumber: 10.7 Consensus size: 27
1039685 CCACCAAGGC
* *
1039695 ATTACGGTCATTTTACCTTACAAGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
1039722 ATTACGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
1039749 ATTATGGTCATTTTACCCAACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
1039776 ATTATGGTCATTTTACCCTACA-GGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* **
1039802 ATTATGGTCATTTTACCCTACAGGGAC
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
1039829 ATTACAGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
*
1039856 ATTACGGTCATTTTAACCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * ** *
1039883 ATTATGGTC-TTTTACACTATTGGGAT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * * *
1039909 ATTTCAGT-ATTCTACCCTACGGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * * *
1039935 ATTTCGATCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
1039962 ATTTCAGTCACTTTACCCT
1 ATTACGGTCATTTTACCCT
1039981 TCGAGGGTGT
Statistics
Matches: 220, Mismatches: 36, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
26 61 0.28
27 159 0.72
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGT
Found at i:1039760 original size:54 final size:54
Alignment explanation
Indices: 1039695--1039980 Score: 283
Period size: 53 Copynumber: 5.4 Consensus size: 54
1039685 CCACCAAGGC
*
1039695 ATTACGGTCATTTTACCTTACAAGGGTATTACGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGT
* * * *
1039749 ATTATGGTCATTTTACCCAACAGGGGTATTATGGTCATTTTACCCTACA-GGGT
1 ATTACGGTCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGT
* * * *
1039802 ATTATGGTCATTTTACCCTAC-AGGGACATTACAGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAAGGG-TATTACGGTCATTTTACCCTACAGGGGT
* * * * ** *
1039856 ATTACGGTCATTTTAACCTACAGGGGTATTATGGTC-TTTTACACTATTGGGAT
1 ATTACGGTCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGT
* * * ** * * * *
1039909 ATTTCAGT-ATTCTACCCTACGGGGGTATTTCGATCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGT
* * *
1039962 ATTTCAGTCACTTTACCCT
1 ATTACGGTCATTTTACCCT
1039981 TCGAGGGTGT
Statistics
Matches: 191, Mismatches: 36, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
52 24 0.13
53 83 0.43
54 81 0.42
55 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (54 bp):
ATTACGGTCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGT
Found at i:1039866 original size:107 final size:106
Alignment explanation
Indices: 1039695--1039964 Score: 312
Period size: 107 Copynumber: 2.5 Consensus size: 106
1039685 CCACCAAGGC
* * * * *
1039695 ATTACGGTCATTTTACCTTACAAGGGTATTACGGTCATTTTACCCTACAGGGGTATTATGGTCAT
1 ATTACGGTCATTTTACCCTACAAGGGCATTACAGTCATTTTACCCTACAGGGGCATTACGGTCAT
*
1039760 TTTACCCAACAGGGGTATTATGGTCATTTTACCCTACAGGGT
66 TTTAACCAACAGGGGTATTATGGTC-TTTTACCCTACAGGGT
*
1039802 ATTATGGTCATTTTACCCTAC-AGGGACATTACAGTCATTTTACCCTACAGGGGCATTACGGTCA
1 ATTACGGTCATTTTACCCTACAAGGG-CATTACAGTCATTTTACCCTACAGGGGCATTACGGTCA
* * **
1039866 TTTTAACCTACAGGGGTATTATGGTCTTTTACACTATTGGGAT
65 TTTTAACCAACAGGGGTATTATGGTCTTTTACCCTACAGGG-T
* * * ** * * *
1039909 ATTTCAGT-ATTCTACCCTACGGGGGTATTTC-GATCATTTTACCCTATAGGGGCATT
1 ATTACGGTCATTTTACCCTACAAGGGCATTACAG-TCATTTTACCCTACAGGGGCATT
1039965 TCAGTCACTT
Statistics
Matches: 140, Mismatches: 19, Indels: 9
0.83 0.11 0.05
Matches are distributed among these distances:
105 1 0.01
106 53 0.38
107 86 0.61
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (106 bp):
ATTACGGTCATTTTACCCTACAAGGGCATTACAGTCATTTTACCCTACAGGGGCATTACGGTCAT
TTTAACCAACAGGGGTATTATGGTCTTTTACCCTACAGGGT
Found at i:1051171 original size:20 final size:20
Alignment explanation
Indices: 1051146--1051223 Score: 120
Period size: 20 Copynumber: 3.9 Consensus size: 20
1051136 TTGTACGGGA
1051146 TTGCACTTCGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
*
1051166 TTGCACTTTGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
* * *
1051186 TTGCTCTTCAGTGCCTCTGA
1 TTGCACTTCGGTGCCTCTGT
1051206 TTGCACTTCGGTGCCTCT
1 TTGCACTTCGGTGCCTCT
1051224 ATTACACATC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.06, C:0.29, G:0.23, T:0.41
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTGT
Found at i:1059368 original size:3 final size:3
Alignment explanation
Indices: 1059360--1059406 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
1059350 CTCTATGAGA
*
1059360 TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1059407 CTCGGGATCC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:1060978 original size:22 final size:19
Alignment explanation
Indices: 1060939--1060980 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
1060929 TGCAGAGTTG
1060939 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
1060958 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
1060980 A
1 A
1060981 ATTATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:1062446 original size:14 final size:14
Alignment explanation
Indices: 1062429--1062459 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1062419 AAGCTTAGAA
*
1062429 TTTTGTTAAACGAT
1 TTTTGCTAAACGAT
1062443 TTTTGCTAAACGAT
1 TTTTGCTAAACGAT
1062457 TTT
1 TTT
1062460 CAGCGAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.52
Consensus pattern (14 bp):
TTTTGCTAAACGAT
Found at i:1062997 original size:51 final size:50
Alignment explanation
Indices: 1062874--1063105 Score: 207
Period size: 51 Copynumber: 4.6 Consensus size: 50
1062864 AAAGTGATGG
* * *** *
1062874 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-ATGAAAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATA-GTTTGA
* * * * * * *
1062924 TCGCATTTGTAGTACTGTGTGCAAGCTACTATGCGTACCGGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAG-TTTGA
* *
1062975 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATA-TTAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTT--TGA
* * * * *
1063026 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGAACCGAAAAGTTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTTTGA
* * *
1063076 TCACGTGTGTAGCACTATATGAAGGCTACT
1 TCACGTGTGTAGTACTATGTGCAGGCTACT
1063106 GCGTGTATTG
Statistics
Matches: 146, Mismatches: 31, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
49 2 0.01
50 64 0.44
51 78 0.53
52 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTTTGA
Found at i:1063113 original size:101 final size:101
Alignment explanation
Indices: 1062874--1063113 Score: 275
Period size: 101 Copynumber: 2.4 Consensus size: 101
1062864 AAAGTGATGG
* * * *
1062874 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGAAAGGTCGCATTTGTAGTAC
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAATGAAAGGTCACATGTGTAGTAC
* * * * *
1062939 TGTGTGCAAGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAAGCTACTACGCGAACCGAAAAGCTTCGA
* * * * *
1062975 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATATTAATGGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGA-ATGAAAGGTCACATGTGTAGTA
* * * *
1063040 CTATGTGTAGGCTACTACGTGAACCGAAAAG-TTTGA
65 CTATGTGCAAGCTACTACGCGAACCGAAAAGCTTCGA
* * *
1063076 TCACGTGTGTAGCACTATATGAAGGCTACTGCGTGTAT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTAT
1063114 TGAATGATAA
Statistics
Matches: 116, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
101 76 0.66
102 40 0.34
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAATGAAAGGTCACATGTGTAGTAC
TATGTGCAAGCTACTACGCGAACCGAAAAGCTTCGA
Found at i:1091013 original size:20 final size:20
Alignment explanation
Indices: 1090980--1091018 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1090970 GCCATATGGT
1090980 TTGGCTTGTGTTATGGTATA
1 TTGGCTTGTGTTATGGTATA
1091000 TTGG-TTGTGATTATGGTAT
1 TTGGCTTGTG-TTATGGTAT
1091019 TTTGAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.15, C:0.03, G:0.31, T:0.51
Consensus pattern (20 bp):
TTGGCTTGTGTTATGGTATA
Found at i:1106788 original size:20 final size:20
Alignment explanation
Indices: 1106739--1106790 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
1106729 AGACTATGAA
*
1106739 CCATTCCATCTACTTACTTT
1 CCATTCCATTTACTTACTTT
1106759 CCATTCCATTTACTTACTTT
1 CCATTCCATTTACTTACTTT
*
1106779 GCATTCCATTTA
1 CCATTCCATTTA
1106791 TCAACATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.21, C:0.31, G:0.02, T:0.46
Consensus pattern (20 bp):
CCATTCCATTTACTTACTTT
Found at i:1110039 original size:6 final size:6
Alignment explanation
Indices: 1110030--1110090 Score: 104
Period size: 6 Copynumber: 10.2 Consensus size: 6
1110020 TGGGAAAAAG
* *
1110030 AAAATA AAAATA AAAATA AGAATA AGAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1110078 AAAATA AAAATA A
1 AAAATA AAAATA A
1110091 CATAAAACAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:1125390 original size:129 final size:129
Alignment explanation
Indices: 1125158--1125396 Score: 311
Period size: 129 Copynumber: 1.9 Consensus size: 129
1125148 CTTACCAATG
* * * * *
1125158 TCTTGGCCCTGGATTCGTTTGATATTGATTCACCAACCCCACTATGAAACAAATATCTGGATGTG
1 TCTTGGCCCTGGATTCGCTTGATATCGACTCACCAACCCCACTACGAAACAAATATCTGGACGTG
* * *
1125223 TGCATAACATGACATACATGGGACTTTCTACTGTAGAAGCATAAGGAAACATTCTCATGTTTTC
66 TGCATAACATGACACACATGGGACTTCCTACTGCAGAAGCATAAGGAAACATTCTCATGTTTTC
* * * * * *
1125287 TCTTGGTCTTGGATTTGCTTGATATCGACTCACCAACCCTACTACGAAACATATATCTGGGCGTG
1 TCTTGGCCCTGGATTCGCTTGATATCGACTCACCAACCCCACTACGAAACAAATATCTGGACGTG
*
1125352 TGCATAACAT-AGCACACATGAGG-CTTCCTATTGCAGAAGCATAAG
66 TGCATAACATGA-CACACATG-GGACTTCCTACTGCAGAAGCATAAG
1125397 AAGCCTTTCT
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
128 1 0.01
129 90 0.97
130 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (129 bp):
TCTTGGCCCTGGATTCGCTTGATATCGACTCACCAACCCCACTACGAAACAAATATCTGGACGTG
TGCATAACATGACACACATGGGACTTCCTACTGCAGAAGCATAAGGAAACATTCTCATGTTTTC
Found at i:1126292 original size:7 final size:7
Alignment explanation
Indices: 1126280--1126334 Score: 83
Period size: 7 Copynumber: 7.6 Consensus size: 7
1126270 ATCATGCAGA
1126280 AAAATCC
1 AAAATCC
1126287 AAAATCC
1 AAAATCC
1126294 AAAATCC
1 AAAATCC
1126301 AAAATCC
1 AAAATCC
1126308 AAAATCC
1 AAAATCC
1126315 AAATAATCC
1 -AA-AATCC
*
1126324 AAAGTCC
1 AAAATCC
1126331 AAAA
1 AAAA
1126335 GAAAATCCCA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
7 35 0.80
8 4 0.09
9 5 0.11
ACGTcount: A:0.58, C:0.25, G:0.02, T:0.15
Consensus pattern (7 bp):
AAAATCC
Found at i:1128119 original size:20 final size:20
Alignment explanation
Indices: 1128091--1128129 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1128081 AAAATTAATT
* *
1128091 AATTTAATAACATTTTATTA
1 AATTAAATAACATTATATTA
1128111 AATTAAATAACATTATATT
1 AATTAAATAACATTATATT
1128130 TCACTTAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTAAATAACATTATATTA
Found at i:1144289 original size:73 final size:73
Alignment explanation
Indices: 1144206--1144423 Score: 373
Period size: 73 Copynumber: 3.0 Consensus size: 73
1144196 ATATATATAA
*
1144206 GCGAGTTGAGTGTAATTGCATGTAAGAGTATATGCTAGTTGTATGATTTAATGAAACATGAATAT
1 GCGAGTTGAGTGTAATTGCATGTAAGAGTATATGCTAGTTGTATGATTTAATGAAACGTGAATAT
1144271 GTTATTTT
66 GTTATTTT
*
1144279 GTGAGTTGAGTGTAATTGCATGTAAGAGTATATGCTAGTTGTATGATTTAATGAAACGTGAATAT
1 GCGAGTTGAGTGTAATTGCATGTAAGAGTATATGCTAGTTGTATGATTTAATGAAACGTGAATAT
1144344 GTTATTTT
66 GTTATTTT
* * * * *
1144352 GCGAGTTGAGTGTAATTGCATGTAAAAATATATGATAGTTTTATGATTTAATGAAACGTGAATAC
1 GCGAGTTGAGTGTAATTGCATGTAAGAGTATATGCTAGTTGTATGATTTAATGAAACGTGAATAT
1144417 GTTATTT
66 GTTATTT
1144424 CGACTTAGTT
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 137 1.00
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.40
Consensus pattern (73 bp):
GCGAGTTGAGTGTAATTGCATGTAAGAGTATATGCTAGTTGTATGATTTAATGAAACGTGAATAT
GTTATTTT
Found at i:1152916 original size:19 final size:19
Alignment explanation
Indices: 1152892--1152936 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
1152882 TTCTTTGCAT
1152892 GTTGTGGACAATCTTTATA
1 GTTGTGGACAATCTTTATA
1152911 GTTGTGGACAATCTTTATA
1 GTTGTGGACAATCTTTATA
*
1152930 GCTGTGG
1 GTTGTGG
1152937 TTGTCACTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.22, C:0.11, G:0.27, T:0.40
Consensus pattern (19 bp):
GTTGTGGACAATCTTTATA
Found at i:1162861 original size:16 final size:17
Alignment explanation
Indices: 1162829--1162861 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1162819 AAAACGAGCC
1162829 TAAATTAGAAATAATTA
1 TAAATTAGAAATAATTA
*
1162846 TAAATTA-AATTAATTA
1 TAAATTAGAAATAATTA
1162862 ACCTCTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
TAAATTAGAAATAATTA
Found at i:1175721 original size:19 final size:19
Alignment explanation
Indices: 1175694--1175736 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
1175684 CTTTAACTCT
1175694 TATTCTGAATTACCTCAAG
1 TATTCTGAATTACCTCAAG
*
1175713 TATTTTGAATTACCTCAAG
1 TATTCTGAATTACCTCAAG
1175732 TATTC
1 TATTC
1175737 CATTTAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (19 bp):
TATTCTGAATTACCTCAAG
Found at i:1179757 original size:50 final size:50
Alignment explanation
Indices: 1179550--1179758 Score: 256
Period size: 50 Copynumber: 4.1 Consensus size: 50
1179540 ATTTAGGGTA
* * * *
1179550 AGAGATCCCATGTAGGACCATGTCTGGGACATGGCATTGGCGTCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGC-ACC--GAG---ATG
* *
1179606 AGAGGTCCCATGTAAGGCCATGTCTGGGACATGGCGTTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
1179656 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * * *
1179706 AGAGGTCCCCTGTAAGACCATGTCTGGGGCATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1179756 AGA
1 AGA
1179759 ACTCCNNNNN
Statistics
Matches: 138, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
50 96 0.70
53 3 0.02
55 2 0.01
56 37 0.27
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:1182260 original size:19 final size:19
Alignment explanation
Indices: 1182236--1182275 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
1182226 AGAATGAATG
1182236 TTCATAAACCCTAAATCAT
1 TTCATAAACCCTAAATCAT
1182255 TTCATAAACCCTAAATCAT
1 TTCATAAACCCTAAATCAT
1182274 TT
1 TT
1182276 TTAAGGTACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.25, G:0.00, T:0.35
Consensus pattern (19 bp):
TTCATAAACCCTAAATCAT
Found at i:1193138 original size:18 final size:18
Alignment explanation
Indices: 1193094--1193138 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1193084 TGATACTGTA
*
1193094 AAAGAAGAAGTTGTTGTT
1 AAAGAAGAAGTTGTTGCT
* *
1193112 GAAGCAGAAGTTGTTGCT
1 AAAGAAGAAGTTGTTGCT
1193130 AAAGAAGAA
1 AAAGAAGAA
1193139 AAAGTTGCTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.04, G:0.29, T:0.24
Consensus pattern (18 bp):
AAAGAAGAAGTTGTTGCT
Found at i:1195824 original size:23 final size:23
Alignment explanation
Indices: 1195798--1195859 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 23
1195788 AGACCAAATA
***
1195798 TTAACAAAATTAATATTTATTGT
1 TTAACAAAATTAATATTTACCAT
***
1195821 TT-A-AAAATTGCCATTTACCAT
1 TTAACAAAATTAATATTTACCAT
1195842 TTAACAAAATTAATATTT
1 TTAACAAAATTAATATTT
1195860 TTTAAGCTTT
Statistics
Matches: 28, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
21 14 0.50
22 2 0.07
23 12 0.43
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.44
Consensus pattern (23 bp):
TTAACAAAATTAATATTTACCAT
Found at i:1196228 original size:32 final size:32
Alignment explanation
Indices: 1196192--1196256 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
1196182 GTTAAAGGTT
1196192 AGATTTTTTTTAACACCTTGATTAGATTGTGA
1 AGATTTTTTTTAACACCTTGATTAGATTGTGA
1196224 AGATTTTTTTTAACACCTTGATTAGATTGTGA
1 AGATTTTTTTTAACACCTTGATTAGATTGTGA
1196256 A
1 A
1196257 TGTTAATAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.46
Consensus pattern (32 bp):
AGATTTTTTTTAACACCTTGATTAGATTGTGA
Done.