Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 95 of 322
Found at i:30827225 original size:18 final size:19
Alignment explanation
Indices: 30827182--30827225 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
30827172 TTATATTAAT
* *
30827182 ATTTATGTGAAATTGAATC
1 ATTTATGAGAAATTGAATA
*
30827201 ATGTATGAGAAA-TGAATA
1 ATTTATGAGAAATTGAATA
30827219 ATTTATG
1 ATTTATG
30827226 TTGTGTTTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (19 bp):
ATTTATGAGAAATTGAATA
Found at i:30828801 original size:50 final size:51
Alignment explanation
Indices: 30828691--30828814 Score: 189
Period size: 50 Copynumber: 2.5 Consensus size: 51
30828681 CACTGATCAC
*
30828691 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTACCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
* *
30828742 GTAGTCGAAGCTACCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTACCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
*
30828792 GTAGCCGAAGCTATCACTTATCA
1 GTAGCCGAAGCTACCACTTATCA
30828815 NNNNNNNNNN
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
50 40 0.60
51 27 0.40
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (51 bp):
GTAGCCGAAGCTACCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:30833264 original size:42 final size:42
Alignment explanation
Indices: 30833203--30833329 Score: 152
Period size: 42 Copynumber: 3.0 Consensus size: 42
30833193 CTTCGTTTTC
* ** * *
30833203 TCGATGCAATAGTTCAACTATAGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
*
30833246 T-GATGCCATAGCCCAACTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
*
30833287 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-ATATTCACATA
30833328 TC
1 TC
30833330 TCACTGATGC
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
41 10 0.14
42 62 0.84
43 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:30833349 original size:46 final size:47
Alignment explanation
Indices: 30833288--30833406 Score: 159
Period size: 47 Copynumber: 2.6 Consensus size: 47
30833278 ATTCATATAT
* * * *
30833288 CGATGCCATAGCCCAGCTATGGTCTTACAC-GAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
* * * *
30833334 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
30833381 CGATGCCATATCCCAGATATGGTCTT
1 CGATGCCATATCCCAGATATGGTCTT
30833407 GTACGGAAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
46 26 0.41
47 37 0.59
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATCACAC
Found at i:30833464 original size:31 final size:31
Alignment explanation
Indices: 30833429--30833546 Score: 157
Period size: 31 Copynumber: 3.8 Consensus size: 31
30833419 CTTGTCACTT
* *
30833429 GTAGCTGAAGCTACCACTATTCACTGATTAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
* *
30833460 GTAGCCGGTA-CTACCACTTTTCACTGATCAG
1 GTAG-CTGAAGCTACCACTTTTCACTGATCAG
* * *
30833491 GTAACCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCTGAAGCTACCACTTTTCACTGATCAG
30833522 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCTGAAGCTACCACTTTTCACT
30833547 TGTCATTTGT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
30 3 0.04
31 69 0.92
32 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGCTGAAGCTACCACTTTTCACTGATCAG
Found at i:30833628 original size:50 final size:50
Alignment explanation
Indices: 30833522--30833698 Score: 284
Period size: 50 Copynumber: 3.5 Consensus size: 50
30833512 CACTGATCAG
* * * *
30833522 GTAGCTGAAGCTACCACTTTTCACTTGTCA-TTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
30833573 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
*
30833623 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGAAAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
30833673 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
30833699 GTTGCCATGG
Statistics
Matches: 120, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
50 94 0.78
51 26 0.22
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
Found at i:30837267 original size:20 final size:20
Alignment explanation
Indices: 30837242--30837289 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
30837232 AATAGGGGTC
30837242 ACACACCCGTGTGGCTTGGG
1 ACACACCCGTGTGGCTTGGG
30837262 ACACACCCGTGTGGCTTGGG
1 ACACACCCGTGTGGCTTGGG
30837282 ACACACCC
1 ACACACCC
30837290 ATATGGGTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.19, C:0.35, G:0.29, T:0.17
Consensus pattern (20 bp):
ACACACCCGTGTGGCTTGGG
Found at i:30839573 original size:64 final size:64
Alignment explanation
Indices: 30839499--30839639 Score: 196
Period size: 64 Copynumber: 2.2 Consensus size: 64
30839489 CATTAATTAT
* * * *
30839499 ATATGTACTTACCATACATGCAATA-TTAAAGCATTTAAAGTATG-GTACATATTGCATAATTTG
1 ATATGAACTTACCATAAATGCAATATTTAAA-CATTTAAAATA-GAGTACATATTGCATAACTTG
30839562 C
64 C
* *
30839563 ATATGAACTTACCATAAATGCAATATTTAAACATTTAAAATAGATTACATATTGCATTACTTGC
1 ATATGAACTTACCATAAATGCAATATTTAAACATTTAAAATAGAGTACATATTGCATAACTTGC
30839627 ATATGAACTTACC
1 ATATGAACTTACC
30839640 CCGATACTAA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
63 1 0.01
64 63 0.91
65 5 0.07
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (64 bp):
ATATGAACTTACCATAAATGCAATATTTAAACATTTAAAATAGAGTACATATTGCATAACTTGC
Found at i:30842372 original size:33 final size:34
Alignment explanation
Indices: 30842303--30842373 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
30842293 AACAGTGCTT
* * *
30842303 ACAGTAACGGTCTGGGCCTAAGCCCTATTCATTA
1 ACAGTAACAGTCTGGGCCTAAGCCCTATGCAGTA
* *
30842337 ACAGT-ACAGTCTTGGCCTAAGCCCTCTGCAGTA
1 ACAGTAACAGTCTGGGCCTAAGCCCTATGCAGTA
30842370 ACAG
1 ACAG
30842374 AGTTGGCCTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 27 0.84
34 5 0.16
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (34 bp):
ACAGTAACAGTCTGGGCCTAAGCCCTATGCAGTA
Found at i:30844166 original size:28 final size:28
Alignment explanation
Indices: 30844119--30844183 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
30844109 AAATTAACCC
*
30844119 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
30844147 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
30844175 TAGGGGTAT
1 TAGGGGTAT
30844184 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:30845178 original size:12 final size:13
Alignment explanation
Indices: 30845159--30845191 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
30845149 GGGTTCGGCT
30845159 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
30845172 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
30845184 ATGGAGAA
1 ATGGAGAA
30845192 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:30851691 original size:55 final size:56
Alignment explanation
Indices: 30851626--30851740 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
30851616 AGCATGGCTG
* * *
30851626 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
30851682 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
30851737 CCAG
1 CCAG
30851741 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:30851737 original size:28 final size:27
Alignment explanation
Indices: 30851651--30851740 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
30851641 GTGACAGAGT
*
30851651 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
30851680 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
30851707 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
30851735 CACCAG
1 CACCAG
30851741 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:30851893 original size:28 final size:28
Alignment explanation
Indices: 30851846--30851910 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
30851836 AAATTAACTC
*
30851846 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
30851874 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
30851902 TAGGGGTAT
1 TAGGGGTAT
30851911 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:30852997 original size:12 final size:13
Alignment explanation
Indices: 30852978--30853010 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
30852968 GGGTTCGGCT
30852978 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
30852991 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
30853003 ATGGAGAA
1 ATGGAGAA
30853011 AAGAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:30873916 original size:26 final size:27
Alignment explanation
Indices: 30873876--30873933 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
30873866 TTAGCTCTTA
30873876 TGAGCTTCCCGATTATATGACTCTTCG
1 TGAGCTTCCCGATTATATGACTCTTCG
* * * *
30873903 TGAGTTTCCC-ATTATTTGGCTCTTTG
1 TGAGCTTCCCGATTATATGACTCTTCG
30873929 TGAGC
1 TGAGC
30873934 ATCTAATATG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 17 0.65
27 9 0.35
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.41
Consensus pattern (27 bp):
TGAGCTTCCCGATTATATGACTCTTCG
Found at i:30881303 original size:47 final size:47
Alignment explanation
Indices: 30881203--30881530 Score: 548
Period size: 47 Copynumber: 6.9 Consensus size: 47
30881193 TAGTATGGCG
* *
30881203 TAATGGCCTATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCT
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
30881252 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
30881299 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
30881346 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
30881393 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
30881440 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
30881487 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
30881531 TCCCGAAGGG
Statistics
Matches: 267, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 239 0.90
49 28 0.10
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:30899426 original size:25 final size:25
Alignment explanation
Indices: 30899390--30899441 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
30899380 CGAGTAAGTT
30899390 AACATAGCTTAGTAAGTTTAAAACA
1 AACATAGCTTAGTAAGTTTAAAACA
*
30899415 AACATAGTTTAGTAAGTTTAAAACA
1 AACATAGCTTAGTAAGTTTAAAACA
30899440 AA
1 AA
30899442 TAGACAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.29
Consensus pattern (25 bp):
AACATAGCTTAGTAAGTTTAAAACA
Found at i:30900278 original size:6 final size:6
Alignment explanation
Indices: 30900267--30900349 Score: 91
Period size: 6 Copynumber: 13.8 Consensus size: 6
30900257 AACCAAAATG
*
30900267 AGAATC AGAATC AGAATC A-ATAAC AGAATC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGA-ATC AGAATC AGAATC AGAATC AGAATC
* *
30900315 A-ATATT AGTAA-C AAAATC AGAATC AGAATC AGAAT
1 AGA-ATC AG-AATC AGAATC AGAATC AGAATC AGAAT
30900350 TAGGTGACAG
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
5 4 0.06
6 58 0.89
7 2 0.03
8 1 0.02
ACGTcount: A:0.53, C:0.14, G:0.13, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:30900301 original size:30 final size:30
Alignment explanation
Indices: 30900267--30900345 Score: 115
Period size: 30 Copynumber: 2.6 Consensus size: 30
30900257 AACCAAAATG
30900267 AGAATCAGAATCAGAATCAATAACAG-AATC
1 AGAATCAGAATCAGAATCAATAACAGTAA-C
**
30900297 AGAATCAGAATCAGAATCAATATTAGTAAC
1 AGAATCAGAATCAGAATCAATAACAGTAAC
*
30900327 AAAATCAGAATCAGAATCA
1 AGAATCAGAATCAGAATCA
30900346 GAATTAGGTG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 43 0.96
31 2 0.04
ACGTcount: A:0.53, C:0.15, G:0.13, T:0.19
Consensus pattern (30 bp):
AGAATCAGAATCAGAATCAATAACAGTAAC
Found at i:30900352 original size:30 final size:30
Alignment explanation
Indices: 30900246--30900352 Score: 99
Period size: 30 Copynumber: 3.4 Consensus size: 30
30900236 AAGAAACATT
* *
30900246 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGTAA-CAAAATCAGAATCAGA
* * *
30900276 ATCAGAATCAATAACAGAATCAGAATCAGA
1 ATCAGAATTAGTAACAAAATCAGAATCAGA
30900306 ATCAGAATCAATATTAGTAACAAAATCAGAATCAGA
1 ATCAG-----A-ATTAGTAACAAAATCAGAATCAGA
30900342 ATCAGAATTAG
1 ATCAGAATTAG
30900353 GTGACAGAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
30 32 0.52
31 3 0.05
35 1 0.02
36 26 0.42
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.20
Consensus pattern (30 bp):
ATCAGAATTAGTAACAAAATCAGAATCAGA
Found at i:30911380 original size:27 final size:27
Alignment explanation
Indices: 30911323--30911374 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
30911313 GGGCTGTTAC
*
30911323 AATTCTACCCTATAGGGGTATTTCAAA
1 AATTCTACCCTACAGGGGTATTTCAAA
30911350 AATTCTACCCTACAGGGGTATTTCA
1 AATTCTACCCTACAGGGGTATTTCA
30911375 GTAATTTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCAAA
Found at i:30911422 original size:27 final size:27
Alignment explanation
Indices: 30911392--30911799 Score: 493
Period size: 27 Copynumber: 15.1 Consensus size: 27
30911382 CACAATCAAA
*
30911392 GGTAAAATGGTAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* **
30911419 GGTAAAACGGTAATTTTACAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
** *
30911446 GGTAAAATAGTAATTCTATAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
** *
30911473 GGTAAAATAGTAATTCTGTAAATTGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* * *
30911500 GGCAAAACAGTAATTCTGTAAATTGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
30911527 GGTAAAACGGTAATTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
30911554 GGTAAAACGGTAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* * **
30911581 GGTAAAATGGTAATTTTAAAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* *
30911608 GGTAAAACGATAATTCTGTAAA-CTGGG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
30911635 GGTAAAACGGTAATTCTGTAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
** * * *
30911662 GGTAAAACAATAATTCTATACATTGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
* *
30911689 GGTAAAACAGTAATTCTGTAAA-CTGAC
1 GGTAAAACGGTAATTCTGTAAATC-GAG
*
30911716 GGTAAAACAGTAATT-TGTAAATCGAG
1 GGTAAAACGGTAATTCTGTAAATCGAG
30911742 GGTAAAACGGTAATTCTGTAAA-CTGAG
1 GGTAAAACGGTAATTCTGTAAATC-GAG
*
30911769 GGTAAAACGGTAATTCTGTAAATCGAT
1 GGTAAAACGGTAATTCTGTAAATCGAG
30911796 GGTA
1 GGTA
30911800 CTTTGGTAAT
Statistics
Matches: 332, Mismatches: 40, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
26 24 0.07
27 305 0.92
28 3 0.01
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (27 bp):
GGTAAAACGGTAATTCTGTAAATCGAG
Found at i:30913494 original size:27 final size:27
Alignment explanation
Indices: 30913442--30913506 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
30913432 CGGCACTTAA
* *
30913442 CAGAGTCACCAGATACAGATATTGTGG
1 CAGAGCCACCAGATACAGATAATGTGG
*
30913469 CAGAGCCACCAGA-ATCAGGTAATGTGG
1 CAGAGCCACCAGATA-CAGATAATGTGG
* *
30913496 CAAACCCACCA
1 CAGAGCCACCA
30913507 ACAGAATACG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.35, C:0.26, G:0.23, T:0.15
Consensus pattern (27 bp):
CAGAGCCACCAGATACAGATAATGTGG
Found at i:30913655 original size:352 final size:353
Alignment explanation
Indices: 30912980--30913849 Score: 1511
Period size: 352 Copynumber: 2.5 Consensus size: 353
30912970 NNNNNNNNNN
* * * *
30912980 GGCACAAAGCCATATTTAGGTTGGCACAGAGCCATTAATAACGGGTCTATAATCGGCACGAAGCC
1 GGCACAAAGACATATTTAGGTTGGCACAGAGCCATTAATAATGGGTCTATAATTGGCATGAAGCC
* *
30913045 CACAACAACGGCACACAGCCTTCGGTAGCGTGATCGGCACTT-ACCCATCGATCGATCAACAGAT
66 CACAACAACGGCACACAGCCTTCGGTAGCGTGATCGGCACTTAACACATCGACCGAT-AACAGAT
30913109 ATTGTGGCAGAGCCACCAGAATCAGATAATGTGGCAAACCCACCTAACAGAATACGTGGCACAAA
130 ATTGTGGCAGAGCCACCAGAATCAGATAATGTGGCAAACCCACCTAACAGAATACGTGGCACAAA
*
30913174 GCCATAGATAACTGTAATAACTTCGGCACATATCCATCAGTGACGGTAATATAACTGGCGCACAG
195 GCCATAGATAACTGTAATAACTTCGGCACATAGCCATCAGTGACGGTAATATAACTGGCGCACAG
30913239 CCTTCGGTAAATATGATCGACACAGAGTCGTCAACAAATATGTTAGGCACATAGCTACAGGTAAA
260 CCTTCGGTAAATATGATCGACACAGAGTCGTCAACAAATATGTTAGGCACATAGCTACAGGTAAA
30913304 TACGTTTGGCACGAAGCCATAGTCAAGAT
325 TACGTTTGGCACGAAGCCATAGTCAAGAT
30913333 GGCACAAAGACATATTTAGGTTGGCACAGAGCCATTAATAATGGGTCTATAATTGGCATGAAGCC
1 GGCACAAAGACATATTTAGGTTGGCACAGAGCCATTAATAATGGGTCTATAATTGGCATGAAGCC
*
30913398 CACAACAACGGCACACAGCCTTCGGTAGCGTGATCGGCACTTAACAGAGTC-ACCAGAT-ACAGA
66 CACAACAACGGCACACAGCCTTCGGTAGCGTGATCGGCACTTAACACA-TCGACC-GATAACAGA
*
30913461 TATTGTGGCAGAGCCACCAGAATCAGGTAATGTGGCAAACCCACC-AACAGAATACGTGGCACAA
129 TATTGTGGCAGAGCCACCAGAATCAGATAATGTGGCAAACCCACCTAACAGAATACGTGGCACAA
30913525 AGCCATAGATAACTGTAATAACTTCGGCACATAGCCATCAGTGACGGTAATATAACTGGCGCACA
194 AGCCATAGATAACTGTAATAACTTCGGCACATAGCCATCAGTGACGGTAATATAACTGGCGCACA
30913590 GCCTTCGGTAAATATGATCGACACAGAGTCGTCAACAAATATGTTAGGCACATAGCTACAGGTAA
259 GCCTTCGGTAAATATGATCGACACAGAGTCGTCAACAAATATGTTAGGCACATAGCTACAGGTAA
30913655 ATACGTTTGGCACGAAGCCATAGTCAAGAT
324 ATACGTTTGGCACGAAGCCATAGTCAAGAT
30913685 GGCACAAAGACATATTTAGGTTGGCACAGAGCCATTAATAATGGGTCTATAATTGGCATGAAGCC
1 GGCACAAAGACATATTTAGGTTGGCACAGAGCCATTAATAATGGGTCTATAATTGGCATGAAGCC
* *
30913750 CACAACAACGGCACACAGCCTTCGGTAGCGTGATCGGCACTTAGC-CATCGATCTG-TCAACAGA
66 CACAACAACGGCACACAGCCTTCGGTAGCGTGATCGGCACTTAACACATCGA-CCGAT-AACAGA
* * *
30913813 TATTGTGACAGAGTCACCA-AATACAGATATTGTGGCA
129 TATTGTGGCAGAGCCACCAGAAT-CAGATAATGTGGCA
30913850 GAGCCACCAG
Statistics
Matches: 493, Mismatches: 16, Indels: 17
0.94 0.03 0.03
Matches are distributed among these distances:
350 3 0.01
351 6 0.01
352 322 0.65
353 152 0.31
354 5 0.01
355 5 0.01
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.21
Consensus pattern (353 bp):
GGCACAAAGACATATTTAGGTTGGCACAGAGCCATTAATAATGGGTCTATAATTGGCATGAAGCC
CACAACAACGGCACACAGCCTTCGGTAGCGTGATCGGCACTTAACACATCGACCGATAACAGATA
TTGTGGCAGAGCCACCAGAATCAGATAATGTGGCAAACCCACCTAACAGAATACGTGGCACAAAG
CCATAGATAACTGTAATAACTTCGGCACATAGCCATCAGTGACGGTAATATAACTGGCGCACAGC
CTTCGGTAAATATGATCGACACAGAGTCGTCAACAAATATGTTAGGCACATAGCTACAGGTAAAT
ACGTTTGGCACGAAGCCATAGTCAAGAT
Found at i:30913886 original size:27 final size:26
Alignment explanation
Indices: 30913807--30913889 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
30913797 TCGATCTGTC
* * *
30913807 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
30913833 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
30913860 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
30913887 AAC
1 AAC
30913890 GCTTCCTTCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:30914283 original size:27 final size:27
Alignment explanation
Indices: 30914088--30914283 Score: 212
Period size: 27 Copynumber: 7.3 Consensus size: 27
30914078 GGGGCAAAAT
* * *
30914088 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
30914115 GATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
30914142 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
30914169 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
30914196 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * * *
30914223 AGTAATTCTACCTTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
30914250 GGAAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
30914277 AGTAATT
1 GGTAATT
30914284 TCACAATCAA
Statistics
Matches: 135, Mismatches: 34, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 135 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:30914283 original size:54 final size:54
Alignment explanation
Indices: 30914087--30914276 Score: 283
Period size: 54 Copynumber: 3.5 Consensus size: 54
30914077 AGGGGCAAAA
* * *
30914087 TGGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTATAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTT
* *
30914141 TGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTT
* * *
30914195 TGGTAATTCTATCCTATAAGGGTATTTC-AGTAATTCTACCTTATAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCGA-TAATTCTACCCTATAGGGGTATTT
*
30914249 TGGAAATTCTACCCTACAAGGGTATTTC
1 TGGTAATTCTACCCTACAAGGGTATTTC
30914277 AGTAATTTCA
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
53 1 0.01
54 121 0.99
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (54 bp):
TGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTT
Found at i:30914324 original size:27 final size:27
Alignment explanation
Indices: 30914288--30914703 Score: 446
Period size: 27 Copynumber: 15.4 Consensus size: 27
30914278 GTAATTTCAC
* *
30914288 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
30914315 AATCGAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
30914342 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
30914369 AATCGAGGGTAAAATAGTAATTCGGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* ***
30914396 AA-CTGAGCGTAAAATAATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
30914423 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
30914450 AA-CTAAGGATAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
30914477 AATCGAGGGTAAAATGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
30914504 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
30914531 AA-CTGAGGGTAAAACATTGATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
30914558 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** * *
30914585 AATCGAGGGTAAAATAGTATTTGTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
30914612 AA-CTGAGGGTAAAATAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
30914639 AATCGAGGGTAAAACGGTAATTCCGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
30914666 AA-CTAAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
30914693 AATCGAGGGTA
1 AATCGAGGGTA
30914704 CTTTGGTAAT
Statistics
Matches: 328, Mismatches: 51, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
26 5 0.02
27 318 0.97
28 5 0.02
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:30914408 original size:81 final size:81
Alignment explanation
Indices: 30914293--30914703 Score: 506
Period size: 81 Copynumber: 5.1 Consensus size: 81
30914283 TTCACAATCA
* * * *
30914293 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTACAAATCGAGGGTAAAACG
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG
*
30914358 GTAATTCTATAAA-TCG
66 GTAATTCTGTAAACT-G
* * * ** *
30914374 AGGGTAAAATAGTAATTCGGTAAA-CTGAGCGTAAAATAATAATTCTGTAAATCGAGGGTAAAAC
1 AGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAC
*
30914438 GGTAATTCTGTAAACTA
65 GGTAATTCTGTAAACTG
* * * *
30914455 AGGATAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAAAAATCGAGGGTAAAACG
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG
30914520 GTAATTCTGTAAACTG
66 GTAATTCTGTAAACTG
* * **
30914536 AGGGTAAAACATTGATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATA
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG
* *
30914601 GTATTTGTGTAAACTG
66 GTAATTCTGTAAACTG
* * ** *
30914617 AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCCGTAAA-CTAAGGGTAAAAC
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAAC
*
30914681 GGTAATTTTGTAAA-TCG
65 GGTAATTCTGTAAACT-G
30914698 AGGGTA
1 AGGGTA
30914704 CTTTGGTAAT
Statistics
Matches: 281, Mismatches: 44, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
80 3 0.01
81 276 0.98
82 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (81 bp):
AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG
GTAATTCTGTAAACTG
Found at i:30917080 original size:25 final size:26
Alignment explanation
Indices: 30917043--30917100 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
30917033 ACACACAGCC
* *
30917043 ATGTGTACAGGCATATGGTTTGG-CG
1 ATGTATACAGGCATATAGTTTGGCCG
* *
30917068 ATGTATACGGGCATGTAGTTTGGCCG
1 ATGTATACAGGCATATAGTTTGGCCG
30917094 AGTGTAT
1 A-TGTAT
30917101 GAGTGTGCGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 19 0.70
26 3 0.11
27 5 0.19
ACGTcount: A:0.21, C:0.12, G:0.34, T:0.33
Consensus pattern (26 bp):
ATGTATACAGGCATATAGTTTGGCCG
Found at i:30919428 original size:14 final size:15
Alignment explanation
Indices: 30919409--30919438 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30919399 GTTTATTATA
30919409 TGTGAA-GTATCATG
1 TGTGAATGTATCATG
30919423 TGTGAATGTATCATG
1 TGTGAATGTATCATG
30919438 T
1 T
30919439 CTTAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.40
Consensus pattern (15 bp):
TGTGAATGTATCATG
Found at i:30923292 original size:43 final size:43
Alignment explanation
Indices: 30923244--30923376 Score: 112
Period size: 42 Copynumber: 3.1 Consensus size: 43
30923234 GGCTTTGAGC
*
30923244 CTAGCAGGCATAATGCCGGTGAAATGATATTGGACTTAAAGGT
1 CTAGCAAGCATAATGCCGGTGAAATGATATTGGACTTAAAGGT
* * * *** *
30923287 CTAGCAAGCTTTAA-GCTGGTG-AAT-ATTATTGGGCTCCGA-GC
1 CTAGCAAGC-ATAATGCCGGTGAAATGA-TATTGGACTTAAAGGT
* * **
30923328 CTAGCAAGCATAATGTCTGTGAAATGATATCAGACTTAAAGGT
1 CTAGCAAGCATAATGCCGGTGAAATGATATTGGACTTAAAGGT
30923371 CTAGCA
1 CTAGCA
30923377 GGTTTATTGC
Statistics
Matches: 65, Mismatches: 19, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
40 3 0.05
41 15 0.23
42 22 0.34
43 22 0.34
44 3 0.05
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.27
Consensus pattern (43 bp):
CTAGCAAGCATAATGCCGGTGAAATGATATTGGACTTAAAGGT
Found at i:30925787 original size:224 final size:224
Alignment explanation
Indices: 30925397--30925813 Score: 744
Period size: 224 Copynumber: 1.9 Consensus size: 224
30925387 ATTGAACTGA
*
30925397 TTGTAATATATTTGTGATATGACAAAATTGGAAAGGTATGAAAAGAAGTTTATAAAATGTGTGCA
1 TTGTAATATATTTGTGATATGACAAAATTGGAAAGGTATAAAAAGAAGTTTATAAAATGTGTGCA
30925462 TCAGTGTAAAGATATGTATGAGATTGTATAAAGTAAATGGTAATGAAAAATCAAATTGGGTGGAA
66 TCAGTGTAAAGATATGTATGAGATTGTATAAAGTAAATGGTAATGAAAAATCAAATTGGGTGGAA
*
30925527 CACAGGGAATGAGTACGATCGTTCACTAATGAATTGACAGAAAAGAGCATGGTTGGACCATGGTC
131 CACAGGGAATGAGTACGATCGTTCACTAATGAATTGACAGAAAAGACCATGGTTGGACCATGGTC
30925592 TTTTCCGTCAATTCATTAGTATAAAGTAT
196 TTTTCCGTCAATTCATTAGTATAAAGTAT
** * *
30925621 TTGTAATATATTTGTGATATGACGGAATTGGAAAGGTATAAAAAGAAGTTTATGATATGTGTGCA
1 TTGTAATATATTTGTGATATGACAAAATTGGAAAGGTATAAAAAGAAGTTTATAAAATGTGTGCA
*
30925686 TCAGTGTAAAGATATGTATGAGATTGTATAAAGTAAATGGTAATGAAAGATCAAATTGGGTGGAA
66 TCAGTGTAAAGATATGTATGAGATTGTATAAAGTAAATGGTAATGAAAAATCAAATTGGGTGGAA
* * *
30925751 CGCATGGAATGAGTACGATCGTTCACTAATGAATTGATAGAAAAGACCATGGTTGGACCATGG
131 CACAGGGAATGAGTACGATCGTTCACTAATGAATTGACAGAAAAGACCATGGTTGGACCATGG
30925814 CAATACATGA
Statistics
Matches: 183, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
224 183 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (224 bp):
TTGTAATATATTTGTGATATGACAAAATTGGAAAGGTATAAAAAGAAGTTTATAAAATGTGTGCA
TCAGTGTAAAGATATGTATGAGATTGTATAAAGTAAATGGTAATGAAAAATCAAATTGGGTGGAA
CACAGGGAATGAGTACGATCGTTCACTAATGAATTGACAGAAAAGACCATGGTTGGACCATGGTC
TTTTCCGTCAATTCATTAGTATAAAGTAT
Found at i:30929388 original size:30 final size:30
Alignment explanation
Indices: 30929354--30929414 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
30929344 TCCTTAACTC
30929354 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
30929384 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
30929414 A
1 A
30929415 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:30932998 original size:16 final size:17
Alignment explanation
Indices: 30932975--30933012 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
30932965 AATAAACAAT
30932975 TAAA-TAAATT-GGAAA
1 TAAATTAAATTGGGAAA
30932990 TAAATTAAATTGGGAAA
1 TAAATTAAATTGGGAAA
30933007 TAAATT
1 TAAATT
30933013 CGGAATTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.19
16 6 0.29
17 11 0.52
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (17 bp):
TAAATTAAATTGGGAAA
Found at i:30947463 original size:94 final size:90
Alignment explanation
Indices: 30947341--30947558 Score: 251
Period size: 94 Copynumber: 2.4 Consensus size: 90
30947331 AGACATTTGC
*
30947341 GCTAGTGTTAGACATGTTTGGGACATGCATCGGCCAC-ATAATAAGAGCCAGTGTGAGACCATGT
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACGA-AATAAGAGCCAGTGTGAGA-CATGT
* *
30947405 TTGGGACATGGCATCGGC-ATTGAGATGAGT
64 CTGGGACAT-GCATCGGCTA-CGAGAT--GT
* * * *** * *
30947435 GCTAGTGTAAGACATGTTTAGGACATGCATCGGCCTCGAGATGTTAGCTAGTGTTAGACATGTCT
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACGAAATAAGAGCCAGTGTGAGACATGTCT
*
30947500 GGGACATGCGTCGGCTACGAGATGT
66 GGGACATGCATCGGCTACGAGATGT
*
30947525 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGC
30947559 ACGGTTACGT
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
90 34 0.31
92 12 0.11
93 14 0.13
94 47 0.44
95 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (90 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACGAAATAAGAGCCAGTGTGAGACATGTCT
GGGACATGCATCGGCTACGAGATGT
Found at i:30947477 original size:46 final size:45
Alignment explanation
Indices: 30947341--30947558 Score: 217
Period size: 46 Copynumber: 4.8 Consensus size: 45
30947331 AGACATTTGC
* * * * *
30947341 GCTAGTGTTAGACATGTTTGGGACATGCATCGGCCAC-ATAATAAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGA-GAT-GGT
* * * *
30947387 GCCAGTGTGAGACCATGTTTGGGACATGGCATCGGCATTGAGATGAGT
1 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGAGATG-GT
* *
30947435 GCTAGTGTAAGACATGTTTAGGACATGCATCGGCCTCGAGATGTT
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATGGT
* * *
30947480 AGCTAGTGTTAGACATGTCTGGGACATGCGTCGG-CTACGAGAT-GT
1 -GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCT-CGAGATGGT
*
30947525 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGC
30947559 ACGGTTACGT
Statistics
Matches: 144, Mismatches: 21, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
44 31 0.22
45 4 0.03
46 60 0.42
47 27 0.19
48 21 0.15
49 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATGGT
Found at i:30947578 original size:90 final size:91
Alignment explanation
Indices: 30947341--30947595 Score: 211
Period size: 90 Copynumber: 2.8 Consensus size: 91
30947331 AGACATTTGC
* * * * * * *
30947341 GCTAGTGTTAGACATGTTTGGGACATGCATCGGCCAC-ATA-ATAAGAGCCAGTGTGAGACCATG
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACGAGACGT--TAG-CAGTGTAAGA-CATG
* *
30947404 TTTGGGACATGGCATCGGCATTGAGATGAGT
62 TCTGGGACATGGCATCGGCATCGAGAT-AGT
* * * *
30947435 GCTAGTGTAAGACATGTTTAGGACATGCATCGGCCTCGAGATGTTAGCTAGTGTTAGACATGTCT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACGAGACGTTAGC-AGTGTAAGACATGTCT
*
30947500 GGGACAT-GCGTCGGC-TACGAGAT-GT
65 GGGACATGGCATCGGCAT-CGAGATAGT
* *
30947525 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CACG-GTTACGTGT-GTCAGTGTAAGACCTG
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACGAG--ACGT-TAG-CAGTGTAAGACATG
30947587 TCTGGGACA
62 TCTGGGACA
30947596 CGACATCGAC
Statistics
Matches: 137, Mismatches: 16, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
88 1 0.01
89 3 0.02
90 57 0.42
91 3 0.02
92 12 0.09
93 14 0.10
94 44 0.32
95 2 0.01
96 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.26
Consensus pattern (91 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACGAGACGTTAGCAGTGTAAGACATGTCTG
GGACATGGCATCGGCATCGAGATAGT
Found at i:30949442 original size:21 final size:22
Alignment explanation
Indices: 30949389--30949448 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
30949379 TATTATATTG
* *
30949389 ATAAG-TGATTAAAACATCATAA
1 ATAAGATGAATAAAAGAT-ATAA
* *
30949411 ATAATATGAATTAAAGATATAA
1 ATAAGATGAATAAAAGATATAA
30949433 A-AAGATGAATAAAAGA
1 ATAAGATGAATAAAAGA
30949449 AGAAATTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 13 0.42
22 9 0.29
23 9 0.29
ACGTcount: A:0.60, C:0.03, G:0.12, T:0.25
Consensus pattern (22 bp):
ATAAGATGAATAAAAGATATAA
Found at i:30955542 original size:30 final size:29
Alignment explanation
Indices: 30955506--30955569 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
30955496 ATGAATCAAA
30955506 AGCTTTGGCACCAAGTGTGCGATTTAAACT
1 AGCTTTGGCACCAAGTGTGCGATTT-AACT
*
30955536 AGCTTTGGCACTAAGTGTGCGATTTAACT
1 AGCTTTGGCACCAAGTGTGCGATTTAACT
30955565 AGCTT
1 AGCTT
30955570 CAGCTACTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (29 bp):
AGCTTTGGCACCAAGTGTGCGATTTAACT
Found at i:30959912 original size:12 final size:12
Alignment explanation
Indices: 30959895--30959925 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
30959885 ATGGAATATT
30959895 TCAAAATCACCA
1 TCAAAATCACCA
30959907 TCAAAATCACCA
1 TCAAAATCACCA
30959919 TCAAAAT
1 TCAAAAT
30959926 AAAAAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (12 bp):
TCAAAATCACCA
Found at i:30960136 original size:11 final size:11
Alignment explanation
Indices: 30960122--30960146 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30960112 TTTAATTTAA
30960122 TTATAATTAGT
1 TTATAATTAGT
30960133 TTATAATTAGT
1 TTATAATTAGT
30960144 TTA
1 TTA
30960147 CCATTTTGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (11 bp):
TTATAATTAGT
Found at i:30963743 original size:27 final size:27
Alignment explanation
Indices: 30963713--30963983 Score: 318
Period size: 27 Copynumber: 10.2 Consensus size: 27
30963703 ATTACGAAAG
*
30963713 TACCATCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
30963740 TACCCTCGATTTATAGAATTACTC-TTT
1 TACCCTCGATTTACAGAATTAC-CGTTT
*
30963767 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
30963794 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
30963821 TACCCTCGATTTAAAAAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
30963848 TACCTTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
30963875 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
30963902 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
30963929 TACCCTCGATTTATAGAATTACC----
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
30963952 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
30963979 TACCC
1 TACCC
30963984 CTAGGGTGTT
Statistics
Matches: 212, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
23 22 0.10
27 189 0.89
28 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:30964263 original size:27 final size:26
Alignment explanation
Indices: 30964219--30964270 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
30964209 CTCGCTGCAA
*
30964219 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
30964246 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
30964271 GTAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:30964524 original size:6 final size:6
Alignment explanation
Indices: 30964487--30964617 Score: 72
Period size: 6 Copynumber: 21.3 Consensus size: 6
30964477 TTGCATTCAC
* * * *
30964487 ATTCTA ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
30964536 -TCACCTA ATTCTG ATTCTG GTTCTG ATTCTG ATTCTG -TCACCTG ATTCTA
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
30964586 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
30964618 AATGTTTCAT
Statistics
Matches: 93, Mismatches: 21, Indels: 22
0.68 0.15 0.16
Matches are distributed among these distances:
5 5 0.05
6 76 0.82
7 9 0.10
8 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:30964550 original size:37 final size:37
Alignment explanation
Indices: 30964509--30964596 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
30964499 ATTCTGTTAC
*
30964509 CTGATACTGATTCTGATTCTAATTCTGTCACCTAATT
1 CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
* * *
30964546 CTGATTCTGGTTCTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
*
30964583 CTAATTCTGATTCT
1 CTGATTCTGATTCT
30964597 CATTTTGATT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
Found at i:30964552 original size:19 final size:19
Alignment explanation
Indices: 30964521--30964591 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
30964511 GATACTGATT
30964521 CTGATTCTAATTCTGTCAC
1 CTGATTCTAATTCTGTCAC
* * *
30964540 CTAATTCTGATTCTGGT--T
1 CTGATTCTAATTCT-GTCAC
*
30964558 CTGATTCTGATTCTGTCAC
1 CTGATTCTAATTCTGTCAC
30964577 CTGATTCTAATTCTG
1 CTGATTCTAATTCTG
30964592 ATTCTCATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.05
18 13 0.30
19 26 0.60
20 2 0.05
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.45
Consensus pattern (19 bp):
CTGATTCTAATTCTGTCAC
Found at i:30964581 original size:31 final size:31
Alignment explanation
Indices: 30964487--30964596 Score: 103
Period size: 31 Copynumber: 3.4 Consensus size: 31
30964477 TTGCATTCAC
* * * *
30964487 ATTCTAATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATTCTG
*
30964518 ATTCTGATTCTAATTCTGTCACCTAATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTCA-C-----CTGATTCTG
* *
30964555 GTTCTGATTCTGATTCTGTCACCTGATTCTA
1 ATTCTGATTCTGATTCTGTCACCTGATTCTG
30964586 ATTCTGATTCT
1 ATTCTGATTCT
30964597 CATTTTGATT
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
31 35 0.55
32 1 0.02
36 1 0.02
37 27 0.42
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATTCTG
Found at i:30964606 original size:37 final size:36
Alignment explanation
Indices: 30964487--30964608 Score: 128
Period size: 37 Copynumber: 3.4 Consensus size: 36
30964477 TTGCATTCAC
* *
30964487 ATTCTAATTTTGATTCTGTTACCTGATACTGATTCTG
1 ATTCT-ATTTTGATTCTGTCACCTGATTCTGATTCTG
*
30964524 ATTCTA-----ATTCTGTCACCTAATTCTGATTCTG
1 ATTCTATTTTGATTCTGTCACCTGATTCTGATTCTG
* * *
30964555 GTTCTGATTCTGATTCTGTCACCTGATTCTAATTCTG
1 ATTCT-ATTTTGATTCTGTCACCTGATTCTGATTCTG
30964592 ATTCTCATTTTGATTCT
1 ATTCT-ATTTTGATTCT
30964609 AGTTCTGATA
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
31 26 0.37
32 1 0.01
36 1 0.01
37 42 0.60
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.48
Consensus pattern (36 bp):
ATTCTATTTTGATTCTGTCACCTGATTCTGATTCTG
Found at i:30964864 original size:27 final size:27
Alignment explanation
Indices: 30964804--30964856 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
30964794 CTCGCTGCAA
* *
30964804 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGGCCTAGCAACATATATCTGT
30964831 TCTGGTGGCCTAGCAACA-ATATCTGT
1 TCTGGTGGCCTAGCAACATATATCTGT
30964857 ATTTGGTGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (27 bp):
TCTGGTGGCCTAGCAACATATATCTGT
Found at i:30965888 original size:30 final size:30
Alignment explanation
Indices: 30965852--30965913 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
30965842 AAGTTCTAGT
* *
30965852 TGAAGTGTGATAGTGATAGTAGGATGAGAG
1 TGAAGTGTGATAGTGATAGTACGATCAGAG
30965882 TGAAGTGTGATAGTGATAGTACGATCAGAG
1 TGAAGTGTGATAGTGATAGTACGATCAGAG
30965912 TG
1 TG
30965914 CGCAGCGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.32, C:0.03, G:0.37, T:0.27
Consensus pattern (30 bp):
TGAAGTGTGATAGTGATAGTACGATCAGAG
Found at i:30967096 original size:27 final size:27
Alignment explanation
Indices: 30967066--30967392 Score: 338
Period size: 27 Copynumber: 12.2 Consensus size: 27
30967056 ATTACCAAAG
* * *
30967066 TACCCTCAATTTACAGAAGTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
30967093 TACCCTTGATTTTACAGAATTACTGTTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
**
30967121 TACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
***
30967148 T-CCCTC-ATTTTACAGAATTATTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
30967174 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
30967201 TACCTTCGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
30967228 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
30967255 TACCCTCGATTTGCAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
30967282 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * * *
30967309 TACCCTCAATTTATAGAAATACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
30967336 TACCCTCGAGTTACA-AA-TACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * * *
30967361 TACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
30967388 TACCC
1 TACCC
30967393 CGAGGGTGTT
Statistics
Matches: 257, Mismatches: 37, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
25 20 0.08
26 27 0.11
27 186 0.72
28 24 0.09
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:30967741 original size:27 final size:26
Alignment explanation
Indices: 30967703--30967762 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
30967693 ACACACATAT
* *
30967703 ATATATGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
30967729 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
30967756 ATATCTG
1 ATATCTG
30967763 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:30967923 original size:6 final size:6
Alignment explanation
Indices: 30967881--30967977 Score: 81
Period size: 6 Copynumber: 15.8 Consensus size: 6
30967871 TTGCATTCAC
* * *
30967881 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
30967930 ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG GTTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
30967978 AGTTTTGATA
Statistics
Matches: 71, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
5 3 0.04
6 60 0.85
7 6 0.08
8 2 0.03
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:30967942 original size:43 final size:43
Alignment explanation
Indices: 30967875--30967977 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 43
30967865 TTGGGATTGC
* * *
30967875 ATTCACATTCTGATTTTGATTCTGTTACCTGATACTAATTCTG
1 ATTCTCATTCTGATTCTGATTCTGTCACCTGATACTAATTCTG
* * *
30967918 ATTCTGATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTG
1 ATTCTCATTCTGATTCTGATTCTGTCACCTGATACTAATTCTG
* *
30967961 GTTCTCATTTTGATTCT
1 ATTCTCATTCTGATTCT
30967978 AGTTTTGATA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.49
Consensus pattern (43 bp):
ATTCTCATTCTGATTCTGATTCTGTCACCTGATACTAATTCTG
Found at i:30971685 original size:19 final size:19
Alignment explanation
Indices: 30971657--30971695 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
30971647 TGAGTATGTA
30971657 TGTGCCATAACATGTTTGC
1 TGTGCCATAACATGTTTGC
*
30971676 TGTGCGATAACATGTTTGC
1 TGTGCCATAACATGTTTGC
30971695 T
1 T
30971696 TATTAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (19 bp):
TGTGCCATAACATGTTTGC
Found at i:30989070 original size:13 final size:13
Alignment explanation
Indices: 30989052--30989081 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
30989042 TATGACACGT
30989052 AATATGCGTACAA
1 AATATGCGTACAA
30989065 AATATGCGTACAA
1 AATATGCGTACAA
30989078 AATA
1 AATA
30989082 ATCGGTCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.23
Consensus pattern (13 bp):
AATATGCGTACAA
Found at i:30992762 original size:39 final size:40
Alignment explanation
Indices: 30992716--30992800 Score: 127
Period size: 39 Copynumber: 2.1 Consensus size: 40
30992706 GACTAAGATT
* *
30992716 CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAG-CC
1 CGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCC
*
30992755 CGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCC
1 CGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCC
*
30992795 TGAAGG
1 CGAAGG
30992801 AGTATGATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 34 0.83
40 7 0.17
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.25
Consensus pattern (40 bp):
CGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCC
Found at i:31000399 original size:80 final size:79
Alignment explanation
Indices: 31000180--31000404 Score: 260
Period size: 79 Copynumber: 2.8 Consensus size: 79
31000170 TCGAATGATG
* * * * *
31000180 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCGAAGGCATT
*
31000244 TGTGCGAGATACTAAT
64 TGTGCGAGATACTAAA
* * *
31000260 TCCGGGCTAAG-CCCGAAGGCA-TTGATGCGAGTTCCTA-AATCCGGGTTAAGTCCCAAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTATAA-CCGGGCTAAGT-CCGAAGGCAT
*
31000322 TTGTGCGAGTTACTAAA
63 TTGTGCGAGATACTAAA
* *
31000339 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCTGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCC-GAAGGCATTT
31000404 G
65 G
31000405 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
78 2 0.02
79 61 0.50
80 54 0.44
81 5 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:31000411 original size:40 final size:40
Alignment explanation
Indices: 31000180--31000404 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
31000170 TCGAATGATG
* * * *
31000180 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
31000220 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31000260 TCCGGGCTAAG-CCCGAAGGCA-TTGATGCGAGTTCCTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTAAA
* *
31000299 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31000339 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
31000380 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31000405 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 18, Indels: 14
0.83 0.09 0.07
Matches are distributed among these distances:
38 3 0.02
39 30 0.19
40 114 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31023797 original size:20 final size:20
Alignment explanation
Indices: 31023758--31023844 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
31023748 GATATGATAT
*
31023758 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
* *
31023778 ACATAATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
*
31023798 ACATGATATGTATGAAATGA
1 ACATGATATGTATGAAATGC
31023818 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
31023838 ACATGAT
1 ACATGAT
31023845 GTATTCATAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 57 0.97
21 2 0.03
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:31023999 original size:25 final size:26
Alignment explanation
Indices: 31023894--31024029 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
31023884 GAGGAAGTGT
*
31023894 AAAAGGGCTTATGCCCCAGTTCATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
31023920 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
31023946 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
31023972 AAAAGGGCTT-TGTCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
31023997 AAAAGGGCTT-TTCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
31024020 AAAAGAGGCT
1 AAAAG-GGCT
31024030 AGGCCTCCAA
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 27 0.27
26 60 0.61
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:31024226 original size:42 final size:42
Alignment explanation
Indices: 31024161--31024252 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
31024151 TAATCTCCCA
* ** *
31024161 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
* *
31024203 AAATGGGCTTGCATACGTCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
31024245 AAATGGGC
1 AAATGGGC
31024253 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:31024317 original size:31 final size:31
Alignment explanation
Indices: 31024276--31024385 Score: 166
Period size: 31 Copynumber: 3.5 Consensus size: 31
31024266 CGTTTACAGT
* * *
31024276 AAAGGGTTCGGCCTAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
31024307 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
31024338 AAAGGTTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
31024369 AAAGACTTCGACCCAGT
1 AAAGGCTTCGGCCCAGT
31024386 AACCGTTAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:31027021 original size:28 final size:27
Alignment explanation
Indices: 31026979--31027089 Score: 109
Period size: 27 Copynumber: 4.1 Consensus size: 27
31026969 GGAGGAAGCG
*
31026979 TTCTAGTGGCCATGCCACAAATATCTGT
1 TTCTAGTGGCTATGCCAC-AATATCTGT
*
31027007 TTCTGGTGGCTATGCCACAAATATCTG-
1 TTCTAGTGGCTATGCCAC-AATATCTGT
* *
31027034 TTCTAATGGCTCTGCCACAATATCTGT
1 TTCTAGTGGCTATGCCACAATATCTGT
* * * *
31027061 ATCT-GCTGACTCTGTCACAATATCTGT
1 TTCTAG-TGGCTATGCCACAATATCTGT
31027088 TT
1 TT
31027090 TGGCAGCCGT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
26 8 0.11
27 38 0.54
28 25 0.35
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (27 bp):
TTCTAGTGGCTATGCCACAATATCTGT
Found at i:31027080 original size:54 final size:54
Alignment explanation
Indices: 31026978--31027088 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
31026968 TGGAGGAAGC
* * * *
31026978 GTTCTAGTGGCCATGCCACAAATATCTGTTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTAATGGCCATGCCACAAATATCTGTATCTGCTGACTATGCCAC-AATATCT
* *
31027033 GTTCTAATGGCTC-TGCCAC-AATATCTGTATCTGCTGACTCTGTCACAATATCT
1 GTTCTAATGGC-CATGCCACAAATATCTGTATCTGCTGACTATGCCACAATATCT
31027086 GTT
1 GTT
31027089 TTGGCAGCCG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
53 10 0.20
54 22 0.45
55 16 0.33
56 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (54 bp):
GTTCTAATGGCCATGCCACAAATATCTGTATCTGCTGACTATGCCACAATATCT
Found at i:31033587 original size:43 final size:43
Alignment explanation
Indices: 31033422--31033589 Score: 148
Period size: 43 Copynumber: 4.0 Consensus size: 43
31033412 ATATCGTACA
* * * *
31033422 ATGCCAACGTCCCAGACGTTGTCTTACATGCTG-TCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AGATCACATATCG
* * * * *
31033465 AGGTC-ACTGTCCTAGACAAGGTCTTACACGA-ATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAGATCACATATCG
*
31033506 ATGCCAATGTCCCAGACATGGTCTTACACGTAG-TCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AGATCACATATCG
* ** *
31033549 ATGCCAACGTCTCAGATGTGGTCTTACACGAGAACACATAT
1 ATGCCAACGTCCCAGACATGGTCTTACACGAGATCACATAT
31033590 AGGAAATCCT
Statistics
Matches: 98, Mismatches: 20, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
41 25 0.26
42 18 0.18
43 55 0.56
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAGATCACATATCG
Found at i:31039215 original size:38 final size:37
Alignment explanation
Indices: 31039155--31039448 Score: 292
Period size: 38 Copynumber: 8.1 Consensus size: 37
31039145 ATATTTGATG
** * *
31039155 TATATCTGGGTTAAATCTCGCAGGCTTCGTGCTAGTAT
1 TATATC-GGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
* *
31039193 TATATCTAGGTTTTATCCCGCAGGCTTCGTGCTTGTAT
1 TATATC-GGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
*
31039231 TATATCCGGGTTTTATCCCGCAGGTTTCGTGCTGGTAT
1 TATAT-CGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
31039269 TATATCCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
1 TATAT-CGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
31039307 TATATCCGGG-TTTATCCCGCAGGCTTCGTGCTGGTAT
1 TATAT-CGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
* * **
31039344 TATATCCGGG-TATATCCCGCAGGCTTTGTGCNAG--T
1 TATAT-CGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
31039379 TA-A---------ATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
** * *
31039406 TATATCCGGGTTAAATCCTGCAGGCTTAGTGCTGGTAT
1 TATAT-CGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
31039444 TATAT
1 TATAT
31039449 TCGAGCTTAA
Statistics
Matches: 224, Mismatches: 18, Indels: 28
0.83 0.07 0.10
Matches are distributed among these distances:
25 18 0.08
27 3 0.01
28 1 0.00
34 1 0.00
35 3 0.01
37 57 0.25
38 140 0.62
39 1 0.00
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.36
Consensus pattern (37 bp):
TATATCGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
Found at i:31039396 original size:62 final size:62
Alignment explanation
Indices: 31039320--31039437 Score: 193
Period size: 62 Copynumber: 1.9 Consensus size: 62
31039310 ATCCGGGTTT
* *
31039320 ATCCCGCAGGCTTCGTGCTGGTATTATATCCGGG-TATATCCCGCAGGCTTTGTGCNAGTTAA
1 ATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGC-AGTTAA
*
31039382 ATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCTGCAGGCTTAGTGC
1 ATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGC
31039438 TGGTATTATA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
62 34 0.65
63 18 0.35
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.31
Consensus pattern (62 bp):
ATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCAGTTAA
Found at i:31039480 original size:40 final size:38
Alignment explanation
Indices: 31039378--31039481 Score: 136
Period size: 38 Copynumber: 2.7 Consensus size: 38
31039368 TTTGTGCNAG
* *
31039378 TTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGG
1 TTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGC
* *
31039416 TTAAATCCTGCAGGCTTAGTGCTGGTATTATATTCGAGC
1 TTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCG-GC
* *
31039455 TTAAAGTCCCGCAGGTTTTGTGCTGGT
1 TTAAA-TCCCGCAGGCTTAGTGCTGGT
31039482 GACTGGGTTC
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 33 0.58
39 6 0.11
40 18 0.32
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (38 bp):
TTAAATCCCGCAGGCTTAGTGCTGGTATTATATCCGGC
Found at i:31039549 original size:199 final size:202
Alignment explanation
Indices: 31039301--31039711 Score: 675
Period size: 212 Copynumber: 2.0 Consensus size: 202
31039291 GGCTTCGTGC
31039301 TGGTATTATATCCGGGTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTATATCCCGCAG
1 TGGTATTATATCCGGGTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTATATCCCGCAG
*
31039366 GCTTTGTG-C-NA-GTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCTGCA
66 GCTTTGTGCCGTATGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCTGCA
31039428 GGCTTAGTGCTGGTATTATATTCGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGTGACTGGGTTCG
131 GGCTTAGTGCTGGTATTATATTCGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGTGACTGGGTTCG
31039493 GGTTTTA
196 GGTTTTA
31039500 TGGTATTATATCCGGGTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTATATCCCGCAG
1 TGGTATTATATCCGGGTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTATATCCCGCAG
** *
31039565 GCTTTGTGCCGGTATTATCTTTGGGTTTTATCCTGCAGGCTTCGTGCTGGTATTATATCCGGGTT
66 GCTTTGTGCC-G---TA----T--GTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTT
31039630 AAATCCTGCAGGCTTAGTGCTGGTATTATATTCGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGTG
121 AAATCCTGCAGGCTTAGTGCTGGTATTATATTCGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGTG
31039695 ACTGGGTTCGGGTTTTA
186 ACTGGGTTCGGGTTTTA
31039712 ACCTAGCAGG
Statistics
Matches: 195, Mismatches: 4, Indels: 13
0.92 0.02 0.06
Matches are distributed among these distances:
199 73 0.37
200 1 0.01
205 1 0.01
212 120 0.62
ACGTcount: A:0.16, C:0.20, G:0.28, T:0.36
Consensus pattern (202 bp):
TGGTATTATATCCGGGTTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTATATCCCGCAG
GCTTTGTGCCGTATGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCTGCA
GGCTTAGTGCTGGTATTATATTCGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGTGACTGGGTTCG
GGTTTTA
Found at i:31039605 original size:38 final size:38
Alignment explanation
Indices: 31039500--31039693 Score: 221
Period size: 38 Copynumber: 5.1 Consensus size: 38
31039490 TCGGGTTTTA
31039500 TGGTATTATATCCGGGTT-TATCCCGCAGGCTTCGTGC
1 TGGTATTATATCCGGGTTATATCCCGCAGGCTTCGTGC
*
31039537 TGGTATTATATCCGGG-TATATCCCGCAGGCTTTGTGC
1 TGGTATTATATCCGGGTTATATCCCGCAGGCTTCGTGC
* * ** * *
31039574 CGGTATTATCTTTGGGTTTTATCCTGCAGGCTTCGTGC
1 TGGTATTATATCCGGGTTATATCCCGCAGGCTTCGTGC
* * *
31039612 TGGTATTATATCCGGGTTAAATCCTGCAGGCTTAGTGC
1 TGGTATTATATCCGGGTTATATCCCGCAGGCTTCGTGC
* * * * *
31039650 TGGTATTATATTCGAGCTTAAAGTCCCGCAGGTTTTGTGC
1 TGGTATTATATCCG-GGTTATA-TCCCGCAGGCTTCGTGC
31039690 TGGT
1 TGGT
31039694 GACTGGGTTC
Statistics
Matches: 133, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
36 1 0.01
37 46 0.35
38 62 0.47
39 6 0.05
40 18 0.14
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.37
Consensus pattern (38 bp):
TGGTATTATATCCGGGTTATATCCCGCAGGCTTCGTGC
Found at i:31039623 original size:75 final size:76
Alignment explanation
Indices: 31039516--31039658 Score: 234
Period size: 75 Copynumber: 1.9 Consensus size: 76
31039506 TATATCCGGG
* *
31039516 TTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGG-TATATCCCGCAGGCTTTGTGCCGGTAT
1 TTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCCGGTAT
31039580 TATCTTTGGGT
66 TATCTTTGGGT
* * *
31039591 TTTATCCTGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCTGCAGGCTTAGTGCTGGTAT
1 TTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCCGGTAT
31039656 TAT
66 TAT
31039659 ATTCGAGCTT
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
75 36 0.58
76 26 0.42
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.38
Consensus pattern (76 bp):
TTTATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCCGGTAT
TATCTTTGGGT
Found at i:31053799 original size:43 final size:43
Alignment explanation
Indices: 31053751--31053913 Score: 145
Period size: 43 Copynumber: 3.8 Consensus size: 43
31053741 ATCGAGATGT
* *
31053751 GATTACATGTAAGACCATGTTTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
* * *
31053794 GATTACGTGTAATACCATGTCTCGGACATTGGCATCGTA-TGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
* * * ** *
31053836 TAATTTCGTGTAAGACTTTGTCTGGGACAATGGCATCG-ATATGTA
1 -GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TG-A
* * *
31053881 -TTTACATGTAAGACCATATCTGGGATA-TGGCAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT
31053914 TGTACGAGTT
Statistics
Matches: 97, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
42 10 0.10
43 84 0.87
44 2 0.02
45 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.34
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:31055902 original size:67 final size:68
Alignment explanation
Indices: 31055742--31055984 Score: 290
Period size: 68 Copynumber: 3.6 Consensus size: 68
31055732 CCTGCAAGAA
* * *
31055742 TGTAAGACCATAGCTGGACTATGGCAACGTATGAAGTCCGCCAGGACAGTAAACATGACATCATA
1 TGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTCCACCAGGACAGTAAACATGACATCATA
31055807 TAG
66 TAG
* * * * * * ** *
31055810 TGTAAGACCATAGTTGGGCTGTGGCAACATATGAATTCTACTAGGACCGTTTACATGA-ATTATA
1 TGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTCCACCAGGACAGTAAACATGACATCATA
31055874 TAG
66 TAG
* ** * * * * *
31055877 TGTAAGACCATAGCTGGGTTATGGCAACGCATGATGTCCGCCAGGATAGTAAACGTGGCATCATA
1 TGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTCCACCAGGACAGTAAACATGACATCATA
31055942 TAG
66 TAG
*
31055945 TGTAAGACCATAGCTGGGCTATGGAAACATATGAAGTCCA
1 TGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTCCA
31055985 TTAGGACATT
Statistics
Matches: 139, Mismatches: 35, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
67 50 0.36
68 89 0.64
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (68 bp):
TGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTCCACCAGGACAGTAAACATGACATCATA
TAG
Found at i:31055990 original size:135 final size:135
Alignment explanation
Indices: 31055742--31055991 Score: 383
Period size: 135 Copynumber: 1.9 Consensus size: 135
31055732 CCTGCAAGAA
*
31055742 TGTAAGACCATAGCTGGACTATGGCAACGTATGAAGTCCGCCAGGACAGTAAACATGACATCATA
1 TGTAAGACCATAGCTGGACTATGGCAACGCATGAAGTCCGCCAGGACAGTAAACATGACATCATA
* * * * *
31055807 TAGTGTAAGACCATAGTTGGGCTGTGGCAACATATGAATTCTACTAGGACCGTTTACATGAATTA
66 TAGTGTAAGACCATAGCTGGGCTATGGAAACATATGAAGTCCACTAGGACCGTTTACATGAATTA
31055872 TATAG
131 TATAG
** * * * *
31055877 TGTAAGACCATAGCTGGGTTATGGCAACGCATGATGTCCGCCAGGATAGTAAACGTGGCATCATA
1 TGTAAGACCATAGCTGGACTATGGCAACGCATGAAGTCCGCCAGGACAGTAAACATGACATCATA
*
31055942 TAGTGTAAGACCATAGCTGGGCTATGGAAACATATGAAGTCCATTAGGAC
66 TAGTGTAAGACCATAGCTGGGCTATGGAAACATATGAAGTCCACTAGGAC
31055992 ATTGAACTAG
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
135 102 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (135 bp):
TGTAAGACCATAGCTGGACTATGGCAACGCATGAAGTCCGCCAGGACAGTAAACATGACATCATA
TAGTGTAAGACCATAGCTGGGCTATGGAAACATATGAAGTCCACTAGGACCGTTTACATGAATTA
TATAG
Found at i:31059398 original size:22 final size:22
Alignment explanation
Indices: 31059373--31059420 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
31059363 CATGATTTTT
31059373 TCAAAATGACATACTTAAAGGA
1 TCAAAATGACATACTTAAAGGA
*
31059395 TCAAAATTACATACTTAAAGGA
1 TCAAAATGACATACTTAAAGGA
31059417 -CAAA
1 TCAAA
31059421 TGGACTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.52, C:0.15, G:0.10, T:0.23
Consensus pattern (22 bp):
TCAAAATGACATACTTAAAGGA
Found at i:31060955 original size:6 final size:6
Alignment explanation
Indices: 31060944--31061142 Score: 205
Period size: 6 Copynumber: 32.8 Consensus size: 6
31060934 AACCAAAATG
*
31060944 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
31060992 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
31061041 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGAATC AGAATC AGTATT
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
* *
31061089 AGTAA-C AGAATC AGAATC AGAATC AGAATT ACGTGA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
31061138 AGAAT
1 AGAAT
31061143 GTGAATGCAA
Statistics
Matches: 163, Mismatches: 14, Indels: 32
0.78 0.07 0.15
Matches are distributed among these distances:
5 11 0.07
6 139 0.85
7 10 0.06
8 3 0.02
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:31061080 original size:97 final size:97
Alignment explanation
Indices: 31060944--31061142 Score: 348
Period size: 97 Copynumber: 2.1 Consensus size: 97
31060934 AACCAAAATG
31060944 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
*
31061009 CAGAATCAGAATTAGGTGACAGAATCAGAATC
66 CAGAATCAGAATTACGTGACAGAATCAGAATC
*
31061041 AGAATCAGTAA-CAGAATCAG-AATCAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGA
1 AGAATCAG-AATCAGAATCAGTAA-CAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGA
31061104 ATCAGAATCAGAATTACGTGACAGAATCAGAATC
64 ATCAGAATCAGAATTACGTGACAGAATCAGAATC
31061138 AGAAT
1 AGAAT
31061143 GTGAATGCAA
Statistics
Matches: 98, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
96 2 0.02
97 94 0.96
98 2 0.02
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.20
Consensus pattern (97 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTACGTGACAGAATCAGAATC
Found at i:31061294 original size:26 final size:25
Alignment explanation
Indices: 31061260--31061329 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 25
31061250 AGCATGTCTG
31061260 CCAGAACAGATATTGTGACAGAGTA
1 CCAGAACAGATATTGTGACAGAGTA
* *
31061285 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAG-TA
*
31061312 CCAGAATCAGATAATGTG
1 CCAGAA-CAGATATTGTG
31061330 GCAAACCCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
25 5 0.13
26 18 0.46
27 16 0.41
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (25 bp):
CCAGAACAGATATTGTGACAGAGTA
Found at i:31061322 original size:27 final size:26
Alignment explanation
Indices: 31061260--31061332 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
31061250 AGCATGTCTG
* *
31061260 CCAGAA-CAGATATTGTGACAGAGTA
1 CCAGAATCAGATATTGTGGCAGAGCA
31061285 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATATTGTGGCAGAG-CA
*
31061312 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATATTGTGGCA
31061333 AACCCACCTG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 1 0.02
25 4 0.10
26 16 0.39
27 18 0.44
28 2 0.05
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (26 bp):
CCAGAATCAGATATTGTGGCAGAGCA
Found at i:31061339 original size:27 final size:27
Alignment explanation
Indices: 31061284--31061340 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
31061274 GTGACAGAGT
* * *
31061284 ACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGATACAGATAATGTGGCAAACCC
31061311 ACCAGA-ATCAGATAATGTGGCAAACCC
1 ACCAGATA-CAGATAATGTGGCAAACCC
31061338 ACC
1 ACC
31061341 TGACAGAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.16
Consensus pattern (27 bp):
ACCAGATACAGATAATGTGGCAAACCC
Found at i:31061545 original size:22 final size:22
Alignment explanation
Indices: 31061497--31061555 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
31061487 GTAAATACGT
*
31061497 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
31061519 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
31061541 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
31061556 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:31061722 original size:27 final size:26
Alignment explanation
Indices: 31061643--31061725 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
31061633 TCGATCGGTC
* * *
31061643 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
31061669 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
31061696 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
31061723 AAC
1 AAC
31061726 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:31061954 original size:27 final size:27
Alignment explanation
Indices: 31061924--31062119 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
31061914 GGGGCAAAAT
* * *
31061924 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31061951 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31061978 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
31062005 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
31062032 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
31062059 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
31062086 AGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31062113 AGTAATT
1 GGTAATT
31062120 TCACAATCAA
Statistics
Matches: 148, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 148 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:31062620 original size:27 final size:27
Alignment explanation
Indices: 31062124--31062612 Score: 732
Period size: 27 Copynumber: 18.1 Consensus size: 27
31062114 GTAATTTCAC
* *
31062124 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
31062151 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
31062178 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
31062205 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
31062232 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
31062259 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
31062286 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
31062313 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
31062340 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
31062367 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
31062394 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
31062421 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
31062448 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
31062475 AATCGAGTGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
31062502 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
31062529 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
31062556 AATCGAGGGTAAAACGGTGATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
31062583 AATTGAGGGTAAAACGGTAATTATGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
31062610 AAT
1 AAT
31062613 TGGGGGTACT
Statistics
Matches: 418, Mismatches: 38, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
26 3 0.01
27 412 0.99
28 3 0.01
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:31064643 original size:6 final size:6
Alignment explanation
Indices: 31064632--31064733 Score: 104
Period size: 6 Copynumber: 16.8 Consensus size: 6
31064622 AACCAAAATG
*
31064632 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
31064680 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
31064729 AGAAT
1 AGAAT
31064734 GTGAATGCAA
Statistics
Matches: 81, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
5 6 0.07
6 68 0.84
7 5 0.06
8 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:31064647 original size:30 final size:29
Alignment explanation
Indices: 31064611--31064733 Score: 140
Period size: 30 Copynumber: 4.1 Consensus size: 29
31064601 AAGAAACATT
* * *
31064611 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
31064641 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
31064671 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
*
31064701 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
31064732 AT
1 AT
31064734 GTGAATGCAA
Statistics
Matches: 81, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
29 1 0.01
30 55 0.68
31 25 0.31
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:31064885 original size:26 final size:25
Alignment explanation
Indices: 31064851--31064920 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 25
31064841 AGCATGTCTG
31064851 CCAGAACAGATATTGTGACAGAGTA
1 CCAGAACAGATATTGTGACAGAGTA
* *
31064876 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAG-TA
*
31064903 CCAGAATCAGATAATGTG
1 CCAGAA-CAGATATTGTG
31064921 GCAAACCCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
25 5 0.13
26 18 0.46
27 16 0.41
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (25 bp):
CCAGAACAGATATTGTGACAGAGTA
Found at i:31064913 original size:27 final size:26
Alignment explanation
Indices: 31064851--31064923 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
31064841 AGCATGTCTG
* *
31064851 CCAGAA-CAGATATTGTGACAGAGTA
1 CCAGAATCAGATATTGTGGCAGAGCA
31064876 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATATTGTGGCAGAG-CA
*
31064903 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATATTGTGGCA
31064924 AACCCACCTG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 1 0.02
25 4 0.10
26 16 0.39
27 18 0.44
28 2 0.05
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (26 bp):
CCAGAATCAGATATTGTGGCAGAGCA
Found at i:31064930 original size:27 final size:27
Alignment explanation
Indices: 31064875--31064931 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
31064865 GTGACAGAGT
* * *
31064875 ACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGATACAGATAATGTGGCAAACCC
31064902 ACCAGA-ATCAGATAATGTGGCAAACCC
1 ACCAGATA-CAGATAATGTGGCAAACCC
31064929 ACC
1 ACC
31064932 TGACAGAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.16
Consensus pattern (27 bp):
ACCAGATACAGATAATGTGGCAAACCC
Found at i:31065136 original size:22 final size:22
Alignment explanation
Indices: 31065088--31065146 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
31065078 GTAAATACGT
*
31065088 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
31065110 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
31065132 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
31065147 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:31065313 original size:27 final size:26
Alignment explanation
Indices: 31065234--31065316 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
31065224 TCGATCGGTC
* * *
31065234 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
31065260 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
31065287 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
31065314 AAC
1 AAC
31065317 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:31065545 original size:27 final size:27
Alignment explanation
Indices: 31065515--31065683 Score: 203
Period size: 27 Copynumber: 6.3 Consensus size: 27
31065505 GGGGCAAAAT
* * *
31065515 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31065542 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31065569 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
31065596 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
31065623 GGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
31065650 GAAAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
31065677 AGTAATT
1 GGTAATT
31065684 TCACAATCAA
Statistics
Matches: 121, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 121 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:31065725 original size:27 final size:27
Alignment explanation
Indices: 31065688--31065771 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
31065678 GTAATTTCAC
*
31065688 AATCAAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTCTATA
* * *
31065715 AATCGATGGTAAAAT-GATAATTTTGTA
1 AATCGAGGGTAAAATAG-TAATTCTATA
* **
31065742 AACCGAGGGTAAACCAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTCTATA
31065769 AAT
1 AAT
31065772 GGTAATTTTA
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
26 1 0.02
27 42 0.95
28 1 0.02
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTCTATA
Found at i:31065778 original size:42 final size:42
Alignment explanation
Indices: 31065726--31065813 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
31065716 ATCGATGGTA
** *
31065726 AAATGATAATTTTGTAAACCGAGGGTAAACCAGTAATTCTAT
1 AAATGATAATTTTACAAACCGAGGGTAAAACAGTAATTCTAT
* ** * *
31065768 AAATGGTAATTTTACAAATTGAGGGTAAAACGGTAATTCTGT
1 AAATGATAATTTTACAAACCGAGGGTAAAACAGTAATTCTAT
31065810 AAAT
1 AAAT
31065814 CGAGGGTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (42 bp):
AAATGATAATTTTACAAACCGAGGGTAAAACAGTAATTCTAT
Found at i:31065802 original size:27 final size:27
Alignment explanation
Indices: 31065783--31066051 Score: 313
Period size: 27 Copynumber: 10.2 Consensus size: 27
31065773 GTAATTTTAC
*
31065783 AAATTGAGGGTAAAACGGTAATTCTGT
1 AAATCGAGGGTAAAACGGTAATTCTGT
**
31065810 AAATCGAGGGTAAAATAGTAATTCTGT
1 AAATCGAGGGTAAAACGGTAATTCTGT
* *
31065837 AAA-CTAAGGATAAAACGGTAATTC---
1 AAATC-GAGGGTAAAACGGTAATTCTGT
*
31065861 ---T-GAGGGTAAAATGGTAATTCTGT
1 AAATCGAGGGTAAAACGGTAATTCTGT
*
31065884 AAATCGAGGGTAAAACGATAATTCTGT
1 AAATCGAGGGTAAAACGGTAATTCTGT
* **
31065911 AAATTGAGGGTAAAATAGTAATTCTGT
1 AAATCGAGGGTAAAACGGTAATTCTGT
31065938 AAA-CTGAGGGTAAAACGGTAATTCTGT
1 AAATC-GAGGGTAAAACGGTAATTCTGT
* * **
31065965 AAATCGAGGGTAAAATGGTAATTTTAA
1 AAATCGAGGGTAAAACGGTAATTCTGT
*
31065992 AAATCGAGGGTAAAACGGTAATTCAGT
1 AAATCGAGGGTAAAACGGTAATTCTGT
*
31066019 AAATCAAGGGTAAAACGGTAATTCTGT
1 AAATCGAGGGTAAAACGGTAATTCTGT
31066046 AAATCG
1 AAATCG
31066052 GGAGTACTTT
Statistics
Matches: 200, Mismatches: 31, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
20 16 0.08
26 2 0.01
27 181 0.90
28 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AAATCGAGGGTAAAACGGTAATTCTGT
Found at i:31065818 original size:69 final size:69
Alignment explanation
Indices: 31065699--31065839 Score: 174
Period size: 69 Copynumber: 2.0 Consensus size: 69
31065689 ATCAAGGGTA
* * * * *
31065699 AAATAGTAATTCTATAAATCGATGGTAAAATGATAATTTTGTAAACCGAGGGTAAACCAGTAATT
1 AAATAGTAATTCTACAAATCGAGGGTAAAACGATAATTCTGTAAACCGAGGGTAAAACAGTAATT
31065764 CTAT
66 CTAT
* * * * * *
31065768 AAATGGTAATTTTACAAATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATT
1 AAATAGTAATTCTACAAATCGAGGGTAAAACGATAATTCTGTAAACCGAGGGTAAAACAGTAATT
*
31065833 CTGT
66 CTAT
31065837 AAA
1 AAA
31065840 CTAAGGATAA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (69 bp):
AAATAGTAATTCTACAAATCGAGGGTAAAACGATAATTCTGTAAACCGAGGGTAAAACAGTAATT
CTAT
Found at i:31066065 original size:81 final size:81
Alignment explanation
Indices: 31065863--31066082 Score: 264
Period size: 81 Copynumber: 2.7 Consensus size: 81
31065853 GGTAATTCTG
* * * * ** * *
31065863 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATTGAGGGTAAAATA
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAAAAATCGAGGGTAAAACA
* *
31065928 GTAATTCTGTAAACTG
66 GTAATTCAGTAAACTA
*
31065944 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAAAAATCGAGGGTAAAACG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAAAAATCGAGGGTAAAACA
31066009 GTAATTCAGTAAA-TCA
66 GTAATTCAGTAAACT-A
*** * *
31066025 AGGGTAAAACGGTAATTCTGTAAATCG-GGAGTACTTTGGTAATTTTACAAGTCGAGGG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGG-GTAAAATGGTAATTTTAAAAATCGAGGG
31066083 CATTTCAGTA
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
80 3 0.02
81 118 0.98
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.28
Consensus pattern (81 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAAAAATCGAGGGTAAAACA
GTAATTCAGTAAACTA
Found at i:31067020 original size:27 final size:27
Alignment explanation
Indices: 31066925--31067020 Score: 131
Period size: 27 Copynumber: 3.6 Consensus size: 27
31066915 TAGGCCCACA
* * * *
31066925 ATTTTGGTAATTTTAC-AAACTAGGGGC
1 ATTTTGGTAATTTTTCTAATCGA-GGGT
*
31066952 ATTTTGGTAATTTTGCTAATCGAGGGT
1 ATTTTGGTAATTTTTCTAATCGAGGGT
31066979 ATTTTGGTAATTTTTCTAATCGAGGGT
1 ATTTTGGTAATTTTTCTAATCGAGGGT
31067006 ATTTTGGTAATTTTT
1 ATTTTGGTAATTTTT
31067021 TAAACCAAGG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 59 0.94
28 4 0.06
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.47
Consensus pattern (27 bp):
ATTTTGGTAATTTTTCTAATCGAGGGT
Found at i:31067031 original size:27 final size:27
Alignment explanation
Indices: 31066925--31067062 Score: 111
Period size: 27 Copynumber: 5.1 Consensus size: 27
31066915 TAGGCCCACA
** * * *
31066925 ATTTTGGTAATTTTACAAACTAGGGGC
1 ATTTTGGTAATTTTTTAAACCAAGGGT
* * *
31066952 ATTTTGGTAATTTTGCT-AATCGAGGGT
1 ATTTTGGTAATTTT-TTAAACCAAGGGT
* *
31066979 ATTTTGGTAATTTTTCT-AATCGAGGGT
1 ATTTTGGTAATTTTT-TAAACCAAGGGT
31067006 ATTTTGGTAATTTTTTAAACCAAGGGT
1 ATTTTGGTAATTTTTTAAACCAAGGGT
** * *
31067033 A-TTCAGTAGTTTTGTAAACCAAGGGT
1 ATTTTGGTAATTTTTTAAACCAAGGGT
31067059 ATTT
1 ATTT
31067063 CAGTAATTCT
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
26 23 0.25
27 70 0.75
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.43
Consensus pattern (27 bp):
ATTTTGGTAATTTTTTAAACCAAGGGT
Found at i:31067032 original size:54 final size:54
Alignment explanation
Indices: 31066925--31067035 Score: 127
Period size: 54 Copynumber: 2.1 Consensus size: 54
31066915 TAGGCCCACA
* * *
31066925 ATTTTGGTAATTTTACAAACTAGGGGCATTTTGGTAATTTTGCTAATCGAGGGT
1 ATTTTGGTAATTTTACAAACGAGGGGCATTTTGGTAATTTTGCTAACCAAGGGT
* * * *
31066979 ATTTTGGTAATTTTTCTAATCGA-GGGTATTTTGGTAATTTT-TTAAACCAAGGGT
1 ATTTTGGTAATTTTAC-AAACGAGGGGCATTTTGGTAATTTTGCT-AACCAAGGGT
31067033 ATT
1 ATT
31067036 CAGTAGTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
53 1 0.02
54 43 0.90
55 4 0.08
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (54 bp):
ATTTTGGTAATTTTACAAACGAGGGGCATTTTGGTAATTTTGCTAACCAAGGGT
Found at i:31067050 original size:26 final size:27
Alignment explanation
Indices: 31067001--31067067 Score: 91
Period size: 26 Copynumber: 2.5 Consensus size: 27
31066991 TTTCTAATCG
** * *
31067001 AGGGTATTTTGGTAATTTTTTAAACCA
1 AGGGTATTTCAGTAGTTTTGTAAACCA
31067028 AGGGTA-TTCAGTAGTTTTGTAAACCA
1 AGGGTATTTCAGTAGTTTTGTAAACCA
31067054 AGGGTATTTCAGTA
1 AGGGTATTTCAGTA
31067068 ATTCTACCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 22 0.63
27 13 0.37
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAGTTTTGTAAACCA
Found at i:31067089 original size:27 final size:27
Alignment explanation
Indices: 31067059--31067132 Score: 112
Period size: 27 Copynumber: 2.7 Consensus size: 27
31067049 AACCAAGGGT
31067059 ATTTCAGTAATTCTACCCTATAGGGGC
1 ATTTCAGTAATTCTACCCTATAGGGGC
* *
31067086 ATTTCAGTAATTTTACCCTATAGGGGT
1 ATTTCAGTAATTCTACCCTATAGGGGC
* *
31067113 ATTTCAGTAATACTAGCCTA
1 ATTTCAGTAATTCTACCCTA
31067133 CAGATATGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.36
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTATAGGGGC
Found at i:31087348 original size:13 final size:13
Alignment explanation
Indices: 31087320--31087356 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
31087310 TCAATATTTA
*
31087320 AATTTACATCATTC
1 AATTT-CATGATTC
31087334 AATTTCATGATTC
1 AATTTCATGATTC
31087347 AATTTCATGA
1 AATTTCATGA
31087357 CCAAAACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.43
Consensus pattern (13 bp):
AATTTCATGATTC
Found at i:31089744 original size:17 final size:17
Alignment explanation
Indices: 31089722--31089754 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31089712 CACTAAAATG
*
31089722 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
31089739 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
31089755 GTATATTTAT
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:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:31099101 original size:30 final size:30
Alignment explanation
Indices: 31099067--31099127 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
31099057 TCCTTAACTC
31099067 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
31099097 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
31099127 A
1 A
31099128 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:31101545 original size:20 final size:20
Alignment explanation
Indices: 31101520--31101560 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
31101510 GTGACATTTC
31101520 TCACCAAATAGATAGTGGCG
1 TCACCAAATAGATAGTGGCG
31101540 TCACCAAATAGATAGTGGCG
1 TCACCAAATAGATAGTGGCG
31101560 T
1 T
31101561 AAAATCTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (20 bp):
TCACCAAATAGATAGTGGCG
Found at i:31110963 original size:27 final size:27
Alignment explanation
Indices: 31110927--31111391 Score: 469
Period size: 27 Copynumber: 17.3 Consensus size: 27
31110917 TTACACTACA
*
31110927 AGGGAATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
31110954 GGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
31110981 AGGGTATTTC-AGTAATTTTACAAATTG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* *
31111008 AGGGTGTTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
31111035 AGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
31111062 AGGGT-CTTCTGGTAATTTTACAAATTG
1 AGGGTATTTC-GATAATTTTACAAATCG
* * * * * *
31111089 AAGGTGTTTCGAAAATTTCAAAAATAG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
31111116 GGGGTATTTCAATAGTTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
** *
31111143 AGGGTATTTTAATAA-TTT-CATAATTG
1 AGGGTATTTCGATAATTTTACA-AATCG
* *
31111169 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
31111196 AGGGTGTTTTGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
31111223 AGGGTGTTTTGATAATTTCAC-AATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
31111249 -GGGATATTTTGATAATTTTACAAATTG
1 AGGG-TATTTCGATAATTTTACAAATCG
31111276 AGGGTATTTC-AGTAATTTTAC-AATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * *
31111302 AGGGTATTTTGGTAATTTTACAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
31111329 AGGGTATTTCAATAATTTCACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
31111356 GGGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
31111383 AGGGTATTT
1 AGGGTATTT
31111392 TAGTAATTTC
Statistics
Matches: 367, Mismatches: 58, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
25 5 0.01
26 67 0.18
27 287 0.78
28 8 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:31111222 original size:80 final size:81
Alignment explanation
Indices: 31110927--31111400 Score: 521
Period size: 81 Copynumber: 5.9 Consensus size: 81
31110917 TTACACTACA
* * *
31110927 AGGGAATTTCGATAATTTTACAAATCGGGGGTGTTTCGATAATTTTACAAATCGAGGGTATTTCA
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCGAGGGTATTTTA
31110992 GTAATTTTACAAATTG
66 GTAATTTTACAAATTG
* * * * *
31111008 AGGGTGTTTCGGTAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCGAGGGTCTTCTG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCGAGGGTATTTTA
31111073 GTAATTTTACAAATTG
66 GTAATTTTACAAATTG
* * * * * * * * * *
31111089 AAGGTGTTTCGAAAATTTCAAAAATAGGGGGTATTTCAATAGTTTTACAAATCGAGGGTATTTTA
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCGAGGGTATTTTA
*
31111154 ATAA-TTT-CATAATTG
66 GTAATTTTACA-AATTG
* * * *
31111169 AGGGTATTTTGGTAATTTTACAAATCGAGGGTGTTTTGATAATTTTACAAATCGAGGGTGTTTT-
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCGAGGGTATTTTA
* *
31111233 GATAATTTCAC-AATCG
66 G-TAATTTTACAAATTG
* * *
31111249 -GGGATATTTTGATAATTTTACAAATTGAGGGTATTTC-AGTAATTTTAC-AATCGAGGGTATTT
1 AGGG-TATTTCGATAATTTTACAAATCGAGGGTGTTTCGA-TAATTTTACAAATCGAGGGTATTT
* **
31111311 TGGTAATTTTACAAATCA
64 TAGTAATTTTACAAATTG
* * * * * * *
31111329 AGGGTATTTCAATAATTTCACAAATTGGGGGTATTTCGGTAATTTTACAAATTGAGGGTATTTTA
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCGAGGGTATTTTA
31111394 GTAATTT
66 GTAATTT
31111401 CTCTTTATTA
Statistics
Matches: 329, Mismatches: 53, Indels: 22
0.81 0.13 0.05
Matches are distributed among these distances:
79 28 0.09
80 146 0.44
81 154 0.47
82 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCGAGGGTATTTTA
GTAATTTTACAAATTG
Found at i:31114971 original size:28 final size:27
Alignment explanation
Indices: 31114897--31114974 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
31114887 TCTGGTACTA
* * *
31114897 ATTCTATAATGGACTTAGGCCCACCTG
1 ATTCTGTAATGGGCTTAGGCCCACCAG
*
31114924 ATTCTGTAATGGGATTAGGCCCACCAG
1 ATTCTGTAATGGGCTTAGGCCCACCAG
*
31114951 ATTCTGTTAATGGGCTAAGGCCCA
1 ATTCTG-TAATGGGCTTAGGCCCA
31114975 GTTTGTTTCT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 29 0.66
28 15 0.34
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (27 bp):
ATTCTGTAATGGGCTTAGGCCCACCAG
Found at i:31117656 original size:27 final size:27
Alignment explanation
Indices: 31117626--31117711 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 27
31117616 GCATCTGGTA
31117626 CTGATTCTGTAATAGGCTTAGGCCCAC
1 CTGATTCTGTAATAGGCTTAGGCCCAC
* * *
31117653 CTGATTCTGTAATTGGATTAGGCACAC
1 CTGATTCTGTAATAGGCTTAGGCCCAC
* * *
31117680 CAGATTCTGTTAATGGGCTAAGG-CCAC
1 CTGATTCTG-TAATAGGCTTAGGCCCAC
31117707 CTGAT
1 CTGAT
31117712 ACGGTGTCTG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
27 39 0.80
28 10 0.20
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (27 bp):
CTGATTCTGTAATAGGCTTAGGCCCAC
Found at i:31125921 original size:15 final size:15
Alignment explanation
Indices: 31125901--31125931 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31125891 AAATATGAAA
31125901 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
31125916 GATATGTTTTGTATT
1 GATATGTTTTGGATT
31125931 G
1 G
31125932 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:31126544 original size:45 final size:45
Alignment explanation
Indices: 31126480--31126569 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
31126470 GGAATTATGC
*
31126480 TATGTGTTTTCGTGTAAGACCATGTCTGGGATATTGGCAACGATA
1 TATGTGTTTTCGTGTAAGACCATGTCTGGGACATTGGCAACGATA
* * *
31126525 TATGTGTTTTCGTGTAAGACCATGTTTGGGACGTTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCATGTCTGGGACATTGGCAACGATA
31126570 CGTTGTTACA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.22, C:0.13, G:0.28, T:0.37
Consensus pattern (45 bp):
TATGTGTTTTCGTGTAAGACCATGTCTGGGACATTGGCAACGATA
Found at i:31127443 original size:27 final size:27
Alignment explanation
Indices: 31127413--31127820 Score: 391
Period size: 27 Copynumber: 15.1 Consensus size: 27
31127403 AACACCATTG
* * * **
31127413 GGGTAAAATGATAATTTTATAAATTAA
1 GGGTAAAACGATAATTCTGTAAATCGA
* *
31127440 GGGTAAAACGGTAATTCTGTAAATTGA
1 GGGTAAAACGATAATTCTGTAAATCGA
* *
31127467 GGGTAAAA-TAGTAATTCTATAAATCGA
1 GGGTAAAACGA-TAATTCTGTAAATCGA
* * *
31127494 GGGTAAAACGGTAATTCTATAAATCAA
1 GGGTAAAACGATAATTCTGTAAATCGA
* * *
31127521 GGATAAAA-TAGTAATTTTGT-AATCGA
1 GGGTAAAACGA-TAATTCTGTAAATCGA
* * *
31127547 GGGTAAAACGGTAATTCTGCAAATTGA
1 GGGTAAAACGATAATTCTGTAAATCGA
*
31127574 GGGTAAAA-TAGTAATTCTGTAAATCGA
1 GGGTAAAACGA-TAATTCTGTAAATCGA
*
31127601 GGGTAAAA-TAGTAATTCTGTAAATCGA
1 GGGTAAAACGA-TAATTCTGTAAATCGA
* *
31127628 GGTTAAAA-TAGTAATTCTGTAAATCGA
1 GGGTAAAACGA-TAATTCTGTAAATCGA
* *
31127655 GGGTAAACCGATAATTTTGTAAATCGA
1 GGGTAAAACGATAATTCTGTAAATCGA
* * * **
31127682 GGGTAAAA-TAGTAATTTTTTAAATTAA
1 GGGTAAAACGA-TAATTCTGTAAATCGA
*
31127709 GGGTAAAACAATAATTCTGTAAATCGA
1 GGGTAAAACGATAATTCTGTAAATCGA
* *
31127736 GGGTAAAACGATAATTTTATAAATCGA
1 GGGTAAAACGATAATTCTGTAAATCGA
* *
31127763 GGGTAAAAC-AGTAATTCTATAAATCAA
1 GGGTAAAACGA-TAATTCTGTAAATCGA
31127790 GGGTAAAACGATAATTCTGTAAATCGA
1 GGGTAAAACGATAATTCTGTAAATCGA
31127817 GGGT
1 GGGT
31127821 TCTTTGGTAA
Statistics
Matches: 320, Mismatches: 50, Indels: 22
0.82 0.13 0.06
Matches are distributed among these distances:
26 21 0.07
27 296 0.93
28 3 0.01
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (27 bp):
GGGTAAAACGATAATTCTGTAAATCGA
Found at i:31127472 original size:54 final size:54
Alignment explanation
Indices: 31127413--31127820 Score: 473
Period size: 54 Copynumber: 7.6 Consensus size: 54
31127403 AACACCATTG
** *
31127413 GGGTAAAAT-GATAATTTTATAAATTAAGGGTAAAACGGTAATTCTGTAAATTGA
1 GGGTAAAATAG-TAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGA
* * *
31127467 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCAA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGA
* * * *
31127521 GGATAAAATAGTAATTTTGT-AATCGAGGGTAAAACGGTAATTCTGCAAATTGA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGA
* * **
31127574 GGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGA
* * * * * *
31127628 GGTTAAAATAGTAATTCTGTAAATCGAGGGTAAACCGATAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGA
* ** **
31127682 GGGTAAAATAGTAATTTTTTAAATTAAGGGTAAAACAATAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGA
* * * *
31127736 GGGTAAAA-CGATAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCAA
1 GGGTAAAATAG-TAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGA
* * *
31127790 GGGTAAAA-CGATAATTCTGTAAATCGAGGGT
1 GGGTAAAATAG-TAATTTTATAAATCGAGGGT
31127821 TCTTTGGTAA
Statistics
Matches: 309, Mismatches: 42, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
53 48 0.16
54 260 0.84
55 1 0.00
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (54 bp):
GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGA
Found at i:31127670 original size:81 final size:81
Alignment explanation
Indices: 31127413--31127820 Score: 489
Period size: 81 Copynumber: 5.0 Consensus size: 81
31127403 AACACCATTG
* * ** ** * *
31127413 GGGTAAAATGATAATTTTATAAATTAAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAATAG
1 GGGTAAAACGATAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAG
*
31127478 TAATTCTATAAATCGA
66 TAATTCTGTAAATCGA
* * * * *
31127494 GGGTAAAACGGTAATTCTATAAATCAAGGATAAAATAGTAATTTTGT-AATCGAGGGTAAAACGG
1 GGGTAAAACGATAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAG
* *
31127558 TAATTCTGCAAATTGA
66 TAATTCTGTAAATCGA
* * * *
31127574 GGGTAAAA-TAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGTTAAAATA
1 GGGTAAAACGA-TAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACA
31127638 GTAATTCTGTAAATCGA
65 GTAATTCTGTAAATCGA
* * * * * ** *
31127655 GGGTAAACCGATAATTTTGTAAATCGAGGGTAAAATAGTAATTTTTTAAATTAAGGGTAAAACAA
1 GGGTAAAACGATAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAG
31127720 TAATTCTGTAAATCGA
66 TAATTCTGTAAATCGA
* * * *
31127736 GGGTAAAACGATAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAAC-G
1 GGGTAAAACGATAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAG
31127800 ATAATTCTGTAAATCGA
66 -TAATTCTGTAAATCGA
31127817 GGGT
1 GGGT
31127821 TCTTTGGTAA
Statistics
Matches: 281, Mismatches: 42, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
80 67 0.24
81 213 0.76
82 1 0.00
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (81 bp):
GGGTAAAACGATAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAG
TAATTCTGTAAATCGA
Found at i:31127843 original size:27 final size:27
Alignment explanation
Indices: 31127813--31128021 Score: 160
Period size: 27 Copynumber: 7.7 Consensus size: 27
31127803 ATTCTGTAAA
31127813 TCGAGGGT-TCTTTGGTAATTTTACAAG
1 TCGAGGGTAT-TTTGGTAATTTTACAAG
* * *
31127840 TCGAGGGTATTTTAGTAATTTTATAGG
1 TCGAGGGTATTTTGGTAATTTTACAAG
** * *
31127867 TCGAGGGTATTTCAGTAATTTCACAAA
1 TCGAGGGTATTTTGGTAATTTTACAAG
31127894 TC-AGAGGTATTTTGGTAATTTTACAA-
1 TCGAG-GGTATTTTGGTAATTTTACAAG
* *
31127920 ACTAGGGGTATTTTGGTAATTTTACAA-
1 TCGA-GGGTATTTTGGTAATTTTACAAG
* * *
31127947 ACCAGGGGTATTTTGGTAATTTTA-TAG
1 TCGA-GGGTATTTTGGTAATTTTACAAG
* * * *
31127974 ACCAAAGGTATTTTGGTAATTTTATAA-
1 -TCGAGGGTATTTTGGTAATTTTACAAG
* *
31128001 ACTAAGGGTATTTTGGTAATT
1 TC-GAGGGTATTTTGGTAATT
31128022 CTACCCTACA
Statistics
Matches: 154, Mismatches: 20, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
26 5 0.03
27 144 0.94
28 5 0.03
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
TCGAGGGTATTTTGGTAATTTTACAAG
Found at i:31127871 original size:54 final size:52
Alignment explanation
Indices: 31127812--31128021 Score: 190
Period size: 54 Copynumber: 3.9 Consensus size: 52
31127802 AATTCTGTAA
*
31127812 ATCGAGGGT-TCTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTATAG
1 ATCGAGGGTAT-TTTGGTAATTTTACAA-TC-AGGGTATTTTGGTAATTTTATAG
* ** * *
31127866 GTCGAGGGTATTTCAGTAATTTCACAAATCAGAGGTATTTTGGTAATTTTACA-
1 ATCGAGGGTATTTTGGTAATTTTAC-AATCAG-GGTATTTTGGTAATTTTATAG
* * *
31127919 AACTAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAG
1 ATCGA-GGGTATTTTGGTAATTTTAC-AATCA-GGGTATTTTGGTAATTTTATAG
* * * * *
31127974 ACCAAAGGTATTTTGGTAATTTTATAAACTAAGGGTATTTTGGTAATT
1 ATCGAGGGTATTTTGGTAATTTTA-CAA-TCAGGGTATTTTGGTAATT
31128022 CTACCCTACA
Statistics
Matches: 128, Mismatches: 20, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
53 4 0.03
54 116 0.91
55 8 0.06
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (52 bp):
ATCGAGGGTATTTTGGTAATTTTACAATCAGGGTATTTTGGTAATTTTATAG
Done.