Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 90 of 163
Found at i:29028310 original size:15 final size:15
Alignment explanation
Indices: 29028268--29028332 Score: 60
Period size: 15 Copynumber: 4.1 Consensus size: 15
29028258 GTTTATGGAC
29028268 TATGGGTTTAGGGATT
1 TATGGGTTTAGGG-TT
* *
29028284 ATATATGGTTTATGGTT
1 -TAT-GGGTTTAGGGTT
29028301 TATGGGTTTAAGGG-T
1 TATGGGTTT-AGGGTT
*
29028316 TAGGGGTTTAGGGTT
1 TATGGGTTTAGGGTT
29028331 TA
1 TA
29028333 ATGTTTATGA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
14 4 0.10
15 17 0.43
16 6 0.15
17 5 0.12
18 8 0.20
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (15 bp):
TATGGGTTTAGGGTT
Found at i:29028382 original size:7 final size:7
Alignment explanation
Indices: 29028290--29028383 Score: 55
Period size: 7 Copynumber: 13.0 Consensus size: 7
29028280 GATTATATAT
*
29028290 GGTTTAT
1 GGTTTAG
29028297 GGTTTATG
1 GGTTTA-G
29028305 GGTTTAAG
1 GGTTT-AG
29028313 GG-TTAGG
1 GGTTTA-G
29028320 GGTTTAG
1 GGTTTAG
*
29028327 GGTTTAA
1 GGTTTAG
* *
29028334 TGTTTAT
1 GGTTTAG
* *
29028341 GATTTAT
1 GGTTTAG
* *
29028348 GATTTAA
1 GGTTTAG
29028355 GGTTTAG
1 GGTTTAG
**
29028362 GGGATAG
1 GGTTTAG
29028369 AGGTTTAG
1 -GGTTTAG
29028377 GGTTTAG
1 GGTTTAG
29028384 ATTAATTAGT
Statistics
Matches: 69, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
6 1 0.01
7 51 0.74
8 16 0.23
9 1 0.01
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:29028384 original size:15 final size:15
Alignment explanation
Indices: 29028297--29028384 Score: 51
Period size: 15 Copynumber: 6.0 Consensus size: 15
29028287 TATGGTTTAT
29028297 GGTTTATGGGTTTA-A
1 GGTTTA-GGGTTTAGA
*
29028312 GGGTTAGGGGTTTAG-
1 GGTTTA-GGGTTTAGA
**
29028327 GGTTTAATGTTTATGA
1 GGTTTAGGGTTTA-GA
* *
29028343 --TTTATGATTTA-A
1 GGTTTAGGGTTTAGA
**
29028355 GGTTTAGGGGATAGA
1 GGTTTAGGGTTTAGA
29028370 GGTTTAGGGTTTAGA
1 GGTTTAGGGTTTAGA
29028385 TTAATTAGTG
Statistics
Matches: 53, Mismatches: 14, Indels: 12
0.67 0.18 0.15
Matches are distributed among these distances:
12 1 0.02
14 20 0.38
15 32 0.60
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (15 bp):
GGTTTAGGGTTTAGA
Found at i:29030329 original size:19 final size:19
Alignment explanation
Indices: 29030305--29030341 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
29030295 CAACATATAA
29030305 TAATAAAACAAAATTTTAG
1 TAATAAAACAAAATTTTAG
* *
29030324 TAATAATACATAATTTTA
1 TAATAAAACAAAATTTTA
29030342 AAACAAGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (19 bp):
TAATAAAACAAAATTTTAG
Found at i:29031354 original size:19 final size:19
Alignment explanation
Indices: 29031330--29031366 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
29031320 CAACATATAA
29031330 TAATAAAACAAAATTTTAG
1 TAATAAAACAAAATTTTAG
* *
29031349 TAATAATACATAATTTTA
1 TAATAAAACAAAATTTTA
29031367 AAACAAGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (19 bp):
TAATAAAACAAAATTTTAG
Found at i:29033048 original size:115 final size:114
Alignment explanation
Indices: 29032684--29033134 Score: 394
Period size: 116 Copynumber: 3.9 Consensus size: 114
29032674 GGCCATTACA
* * * * * * *
29032684 GCCGCAAAA-ATTATTTTGTTTTAATAAAAAC-GACACCATTTTATTGGATTTCTTAGAGGCATT
1 GCCGCAAAATGTTATTTTGTTTTAATCAAAACGGA-GCCATTTTATTTGATTTTTTAGTGGC-GT
* * * * * *
29032747 TTTTGTGAAACGCCACAATATGTCGAGCTGTAGCGGCGCTATCC-TAAAAAC
64 TTTCGTAAAACGCCGCAATAGGTCGAGCTTTAGCGGCGCTAGCCAT-AAAAC
* * * * ** * * *
29032798 GTCGTAAAAAAT-TTATTCTGTTTTTATCAAAATAGCGCCTTTTTATTTGATTTTTTAGTGGTGT
1 GCCG--CAAAATGTTATTTTGTTTTAATCAAAACGGAGCCATTTTATTTGATTTTTTAGTGGCG-
* ** *
29032862 TTTTGGTAAAACGCCGCAATAGGTCGAGCTTTAGCGGCGCTAGGTAAAAAAC
63 TTTTCGTAAAACGCCGCAATAGGTCGAGCTTTAGCGGCGCTAGCCATAAAAC
* *
29032914 GCCGCAAAAGGTTAATTTGTTTTAATCAAAACGGAGCCATTTTATTTGAATTTTTTAGTGGCGTT
1 GCCGCAAAATGTTATTTTGTTTTAATCAAAACGGAGCCATTTTATTTG-ATTTTTTAGTGGCGTT
*
29032979 TTCGTCAAAACACCGCAATAGGTC-AGGCTTTAGCGGCGCTA-CCATAAAAC
65 TTCGT-AAAACGCCGCAATAGGTCGA-GCTTTAGCGGCGCTAGCCATAAAAC
* * * * **
29033029 GCCGCAAAATGTTATTTTGTTTTAATCAAAACGGCGCTATTTT-TGTAGGTTTTTTAGTGGTATT
1 GCCGCAAAATGTTATTTTGTTTTAATCAAAACGGAGCCATTTTAT-TTGATTTTTTAGTGGCGTT
* * * * *
29033093 TTCGGTTAAACGCCGCAATATGTAGGGATTTAGCGGCGCTAG
65 TTC-GTAAAACGCCGCAATAGGTCGAGCTTTAGCGGCGCTAG
29033135 TGGATAAACA
Statistics
Matches: 270, Mismatches: 53, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
114 52 0.19
115 86 0.32
116 131 0.49
117 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (114 bp):
GCCGCAAAATGTTATTTTGTTTTAATCAAAACGGAGCCATTTTATTTGATTTTTTAGTGGCGTTT
TCGTAAAACGCCGCAATAGGTCGAGCTTTAGCGGCGCTAGCCATAAAAC
Found at i:29033149 original size:115 final size:115
Alignment explanation
Indices: 29032838--29033165 Score: 346
Period size: 115 Copynumber: 2.9 Consensus size: 115
29032828 AATAGCGCCT
* * * *
29032838 TTTTATTTG-ATTTTTTAGTGGTGTTTTTGGTAAAACGCCGCAATAGGTCGAGCTTTAGCGGCGC
1 TTTTATTAGAATTTTTTAGTGGTGTTTTCGGTAAAACGCCGCAATAGGTAGGGCTTTAGCGGCGC
*
29032902 TAGGTAAAAAACGCCGCAAAAGGTTAATTTGTTTTAATCAAAACGGAGCCA
66 TAGG-AATAAACGCCGCAAAAGGTTAATTTGTTTTAATCAAAACGGAGCCA
* * *
29032953 TTTTATTTGAATTTTTTAGTGGCGTTTTC-GTCAAAACACCGCAATAGGTCA-GGCTTTAGCGGC
1 TTTTATTAGAATTTTTTAGTGGTGTTTTCGGT-AAAACGCCGCAATAGGT-AGGGCTTTAGCGGC
** * * * *
29033016 GCTA-CCATAAAACGCCGCAAAATGTTATTTTGTTTTAATCAAAACGGCGCTA
64 GCTAGGAAT-AAACGCCGCAAAAGGTTAATTTGTTTTAATCAAAACGGAGCCA
* * * * *
29033068 TTTT-TGTAG-GTTTTTTAGTGGTATTTTCGGTTAAACGCCGCAATATGTAGGGATTTAGCGGCG
1 TTTTAT-TAGAATTTTTTAGTGGTGTTTTCGGTAAAACGCCGCAATAGGTAGGGCTTTAGCGGCG
* * * *
29033131 CTAGTGGATAAACACCGC-AAAGGTTGATTTCTTTT
65 CTAG-GAATAAACGCCGCAAAAGGTTAATTTGTTTT
29033166 TGGCAAAACG
Statistics
Matches: 177, Mismatches: 27, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
113 1 0.01
114 60 0.34
115 66 0.37
116 50 0.28
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.35
Consensus pattern (115 bp):
TTTTATTAGAATTTTTTAGTGGTGTTTTCGGTAAAACGCCGCAATAGGTAGGGCTTTAGCGGCGC
TAGGAATAAACGCCGCAAAAGGTTAATTTGTTTTAATCAAAACGGAGCCA
Found at i:29033340 original size:28 final size:29
Alignment explanation
Indices: 29033308--29033362 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
29033298 AAATTTGCAG
*
29033308 CCCAACCTTTTTTCCTT-TGCTTTTTTTC
1 CCCAACCTTTTCTCCTTATGCTTTTTTTC
*
29033336 CCCAACCTTTTCTCCTTATTCTTTTTT
1 CCCAACCTTTTCTCCTTATGCTTTTTT
29033363 CCCACCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.09, C:0.33, G:0.02, T:0.56
Consensus pattern (29 bp):
CCCAACCTTTTCTCCTTATGCTTTTTTTC
Found at i:29040569 original size:59 final size:57
Alignment explanation
Indices: 29040477--29040598 Score: 217
Period size: 59 Copynumber: 2.1 Consensus size: 57
29040467 TTACAGCGGG
29040477 ATTACCAATCCAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGA
1 ATTACCAATCCAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGG--CTGA
*
29040536 ATTACCAGTCCAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGCTGA
1 ATTACCAATCCAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGCTGA
29040593 ATTACC
1 ATTACC
29040599 CCANNNNNNN
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
57 10 0.16
59 52 0.84
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (57 bp):
ATTACCAATCCAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGCTGA
Found at i:29052142 original size:16 final size:18
Alignment explanation
Indices: 29052116--29052148 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
29052106 TTAATTTAAA
29052116 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
29052133 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
29052149 CCCAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:29053630 original size:21 final size:21
Alignment explanation
Indices: 29053606--29053678 Score: 53
Period size: 23 Copynumber: 3.5 Consensus size: 21
29053596 GAATTATATA
29053606 TTAAATATATATATTTTATTT
1 TTAAATATATATATTTTATTT
* * *
29053627 TTAATCAAATATATTTTTTAAATT
1 TTAA--ATATATATATTTT-ATTT
* *
29053651 TT-AATATGT-TATTTTCTTT
1 TTAAATATATATATTTTATTT
29053670 TTAAA-ATAT
1 TTAAATATAT
29053679 GTTATTTTGG
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
19 7 0.18
20 7 0.18
21 8 0.21
23 12 0.31
24 5 0.13
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (21 bp):
TTAAATATATATATTTTATTT
Found at i:29054964 original size:25 final size:25
Alignment explanation
Indices: 29054936--29055021 Score: 68
Period size: 25 Copynumber: 3.5 Consensus size: 25
29054926 CTAGCTTGTA
29054936 CTTCCCGATATATGGCTATCCGGAG
1 CTTCCCGATATATGGCTATCCGGAG
* * *
29054961 CTTCCCAAT-TGATGGCTCTTCGGAG
1 CTTCCCGATAT-ATGGCTATCCGGAG
* * * **
29054986 CTACCCGTTATA-GGCTAGCATGAG
1 CTTCCCGATATATGGCTATCCGGAG
*
29055010 CTTCCCGTTATA
1 CTTCCCGATATA
29055022 CAGCCCGGAT
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
24 19 0.40
25 27 0.57
26 1 0.02
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.30
Consensus pattern (25 bp):
CTTCCCGATATATGGCTATCCGGAG
Found at i:29055058 original size:25 final size:25
Alignment explanation
Indices: 29055030--29055102 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
29055020 TACAGCCCGG
* * *
29055030 ATAAGCTTCCTGTTACATGGCTCAC
1 ATAAGTTTCCCGTTATATGGCTCAC
29055055 ATAAGTTTCCCGTTATATGGCTCAC
1 ATAAGTTTCCCGTTATATGGCTCAC
*
29055080 ATGAGTTTCCCGTTATATGGCTC
1 ATAAGTTTCCCGTTATATGGCTC
29055103 GAGAGTGTGC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (25 bp):
ATAAGTTTCCCGTTATATGGCTCAC
Found at i:29063544 original size:23 final size:24
Alignment explanation
Indices: 29063520--29063568 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
29063510 ATTTTACATT
*
29063520 AATAAAATTAGCATAACTTTTTTAAA
1 AATAAAATTAGCACAACTTTTTT--A
*
29063546 AATAAAATTATCACAACTTTTTT
1 AATAAAATTAGCACAACTTTTTT
29063569 TTTACATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (24 bp):
AATAAAATTAGCACAACTTTTTTA
Found at i:29069017 original size:14 final size:14
Alignment explanation
Indices: 29068998--29069037 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
29068988 TTGATTGCCA
29068998 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
29069012 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
29069026 GGAAAATGTTTT
1 GTAAAATGTTTT
29069038 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:29069046 original size:20 final size:20
Alignment explanation
Indices: 29069021--29069060 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
29069011 CGTAAAATGA
*
29069021 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
29069041 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
29069061 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:29069050 original size:34 final size:35
Alignment explanation
Indices: 29069006--29069072 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
29068996 CAGTAAAATG
*
29069006 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
29069040 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
29069073 CTGGTGTGCG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:29069076 original size:14 final size:15
Alignment explanation
Indices: 29069000--29069076 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
29068990 GATTGCCAGT
* *
29069000 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
29069014 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
29069028 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
29069048 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
29069063 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
29069077 TGTGCGATAG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:29072470 original size:68 final size:68
Alignment explanation
Indices: 29072361--29072497 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 68
29072351 TATATTTATT
* *
29072361 CTATAAAATGGCGGCGATCAAATTTGTATAAACCTAATAAGTATAAAATGTGATGTGACTATTGA
1 CTATAAAATGGCGGCGATCAAATTTGTATAAACCTAATAAGTACAAAATGTGATATGACTATTGA
29072426 CGG
66 CGG
29072429 CTATAAAATGGCGGCGATCAAATTTGTATAAACCTAATAAGTACAAAATGTGATATGACTATTGA
1 CTATAAAATGGCGGCGATCAAATTTGTATAAACCTAATAAGTACAAAATGTGATATGACTATTGA
29072494 CGG
66 CGG
29072497 C
1 C
29072498 GCTGCCGCAA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (68 bp):
CTATAAAATGGCGGCGATCAAATTTGTATAAACCTAATAAGTACAAAATGTGATATGACTATTGA
CGG
Found at i:29076272 original size:108 final size:109
Alignment explanation
Indices: 29076145--29076362 Score: 420
Period size: 108 Copynumber: 2.0 Consensus size: 109
29076135 TGTTGGATGA
29076145 CAATTTTTTAAAATTATGTATGAATAATTAATTTATTAAAATAAATAATGATGAATTTATTATAA
1 CAATTTTTTAAAATTATGTATGAATAATTAATTTATTAAAATAAATAATGATGAATTTATTATAA
29076210 AAAGTATGATTTCTCGAGTTCAAATTTCATAA-TCTATAATATG
66 AAAGTATGATTTCTCGAGTTCAAATTTCATAATTCTATAATATG
29076253 CAATTTTTTAAAATTATGTATGAATAATTAATTTATTAAAATAAATAATGATGAATTTATTATAA
1 CAATTTTTTAAAATTATGTATGAATAATTAATTTATTAAAATAAATAATGATGAATTTATTATAA
29076318 AAAGTATGATTTCTCGAGTTCAAATTTCATAATTTCTATAATATG
66 AAAGTATGATTTCTCGAGTTCAAATTTCATAA-TTCTATAATATG
29076363 TATATTTCTA
Statistics
Matches: 108, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
108 97 0.90
110 11 0.10
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (109 bp):
CAATTTTTTAAAATTATGTATGAATAATTAATTTATTAAAATAAATAATGATGAATTTATTATAA
AAAGTATGATTTCTCGAGTTCAAATTTCATAATTCTATAATATG
Found at i:29076423 original size:108 final size:107
Alignment explanation
Indices: 29076145--29076392 Score: 315
Period size: 108 Copynumber: 2.3 Consensus size: 107
29076135 TGTTGGATGA
* * ***
29076145 CAATTTTTTAAAATTATGTATGAATAATTAATTTATTAAAATAAATAATGATGAATTTATTATAA
1 CAATTTTCTAAAATTATGTA-GAATAATTAATTTATTAAAATAAATAATGATAAAAAAATTATAA
29076210 AAAGTATGATTTCTCGAGTTCAAATTTCATAATCTATAATATG
65 AAAGTATGATTTCTCGAGTTCAAATTTCATAATCTATAATATG
* * ***
29076253 CAATTTTTTAAAATTATGTATGAATAATTAATTTATTAAAATAAATAATGATGAATTTATTATAA
1 CAATTTTCTAAAATTATGTA-GAATAATTAATTTATTAAAATAAATAATGATAAAAAAATTATAA
29076318 AAAGTATGATTTCTCGAGTTCAAATTTCATAATTTCTATAATATG
65 AAAGTATGATTTCTCGAGTTCAAATTTCATAA--TCTATAATATG
* *
29076363 -TATATTTCTAAATTTAT-TA-AATAA-TAATTT
1 CAAT-TTTCTAAAATTATGTAGAATAATTAATTT
29076393 GTTTGAACTT
Statistics
Matches: 134, Mismatches: 3, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
106 6 0.04
107 5 0.04
108 97 0.72
109 4 0.03
110 22 0.16
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.44
Consensus pattern (107 bp):
CAATTTTCTAAAATTATGTAGAATAATTAATTTATTAAAATAAATAATGATAAAAAAATTATAAA
AAGTATGATTTCTCGAGTTCAAATTTCATAATCTATAATATG
Found at i:29077943 original size:12 final size:12
Alignment explanation
Indices: 29077926--29077958 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
29077916 AACCGAGCCG
29077926 TAAATATTTTTA
1 TAAATATTTTTA
29077938 TAAATATTTTTA
1 TAAATATTTTTA
29077950 TAAATATTT
1 TAAATATTT
29077959 ACGGAGTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TAAATATTTTTA
Found at i:29080682 original size:32 final size:32
Alignment explanation
Indices: 29080665--29081467 Score: 1606
Period size: 32 Copynumber: 25.1 Consensus size: 32
29080655 TCTATACATA
29080665 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29080697 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29080729 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29080761 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29080793 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29080825 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29080857 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29080889 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29080921 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29080953 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29080985 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29081017 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29081049 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29081081 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29081113 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29081145 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29081177 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29081209 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29081241 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29081273 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29081305 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29081337 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29081369 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29081401 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29081433 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATATTGATACCACAATAC
29081465 TCA
1 TCA
29081468 TGAAGTTATA
Statistics
Matches: 771, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 771 1.00
ACGTcount: A:0.44, C:0.25, G:0.09, T:0.22
Consensus pattern (32 bp):
TCAAGGATAACCCAATATTGATACCACAATAC
Found at i:29084816 original size:269 final size:269
Alignment explanation
Indices: 29084337--29084874 Score: 1040
Period size: 269 Copynumber: 2.0 Consensus size: 269
29084327 TTATTTGCAT
*
29084337 GAAAAATGAAGTTTAAAATTTGACCCATGCTAGATATTTGTGCATTTTGATGTTTAATGATAGAA
1 GAAAAATGAAGTTTAAAAATTGACCCATGCTAGATATTTGTGCATTTTGATGTTTAATGATAGAA
*
29084402 TAAGGGTGCACGAGGTTAGGAGAACGATTTTTACTAAGTGATTTTCGTTGAAAATGGTTAAAACG
66 TAAGGGTGCACGAGGTTAGGAGAACAATTTTTACTAAGTGATTTTCGTTGAAAATGGTTAAAACG
29084467 GGTTAATTAGTAAAAGTTGTAAATGCTCCTAAAAGTGTGAAATAATAAGAATTTGAGGTTTCTTT
131 GGTTAATTAGTAAAAGTTGTAAATGCTCCTAAAAGTGTGAAATAATAAGAATTTGAGGTTTCTTT
29084532 AGAAGAGAAAAAGGTTTGGTTGACCTTGAATATTATGGAATTTGAATAAAAATCATATTACGAGC
196 AGAAGAGAAAAAGGTTTGGTTGACCTTGAATATTATGGAATTTGAATAAAAATCATATTACGAGC
29084597 CTAGGGGCA
261 CTAGGGGCA
*
29084606 GAAAAATGAAGTTTAAAAATTGACCCATGCTAGATATTTGTGCATTTTGATGTTTAATGGTAGAA
1 GAAAAATGAAGTTTAAAAATTGACCCATGCTAGATATTTGTGCATTTTGATGTTTAATGATAGAA
*
29084671 TAAGGGTGCACGAGGTTAGGAGAACAATTTTTGCTAAGTGATTTTCGTTGAAAATGGTTAAAACG
66 TAAGGGTGCACGAGGTTAGGAGAACAATTTTTACTAAGTGATTTTCGTTGAAAATGGTTAAAACG
29084736 GGTTAATTAGTAAAAGTTGTAAATGCTCCTAAAAGTGTGAAATAATAAGAATTTGAGGTTTCTTT
131 GGTTAATTAGTAAAAGTTGTAAATGCTCCTAAAAGTGTGAAATAATAAGAATTTGAGGTTTCTTT
29084801 AGAAGAGAAAAAGGTTTGGTTGACCTTGAATATTATGGAATTTGAATAAAAATCATATTACGAGC
196 AGAAGAGAAAAAGGTTTGGTTGACCTTGAATATTATGGAATTTGAATAAAAATCATATTACGAGC
29084866 CTAGGGGCA
261 CTAGGGGCA
29084875 AAATTGTAAT
Statistics
Matches: 265, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
269 265 1.00
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (269 bp):
GAAAAATGAAGTTTAAAAATTGACCCATGCTAGATATTTGTGCATTTTGATGTTTAATGATAGAA
TAAGGGTGCACGAGGTTAGGAGAACAATTTTTACTAAGTGATTTTCGTTGAAAATGGTTAAAACG
GGTTAATTAGTAAAAGTTGTAAATGCTCCTAAAAGTGTGAAATAATAAGAATTTGAGGTTTCTTT
AGAAGAGAAAAAGGTTTGGTTGACCTTGAATATTATGGAATTTGAATAAAAATCATATTACGAGC
CTAGGGGCA
Found at i:29085352 original size:82 final size:81
Alignment explanation
Indices: 29085190--29085353 Score: 249
Period size: 82 Copynumber: 2.0 Consensus size: 81
29085180 AGAAATGCAG
*
29085190 GGTCAAGTACATTTGTACTACAACTCGTGATGAATTGACGGAAAAGACCATGGTTGGACCATGGC
1 GGTCAAGTACATTTGTACTACAACTCGTGATGAATTGACGGAAAAGACCATGGTTGGACCACGGC
* *
29085255 AGTGAGTGTGCCAGTGT
66 AGGGAGAGT-CCAGTGT
**
29085272 GGTCAAGTACATTTGTACTACAACTCGTGATGAATTGACGGAAAAGACCATGGTTGGGGCACGGA
1 GGTCAAGTACATTTGTACTACAACTCGTGATGAATTGACGGAAAAGACCATGGTTGGACCACGG-
29085337 CAGAGGAGAGT-CAGTGT
65 CAG-GGAGAGTCCAGTGT
29085354 AAGACCATGT
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
82 67 0.89
83 3 0.04
84 5 0.07
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (81 bp):
GGTCAAGTACATTTGTACTACAACTCGTGATGAATTGACGGAAAAGACCATGGTTGGACCACGGC
AGGGAGAGTCCAGTGT
Found at i:29085470 original size:48 final size:48
Alignment explanation
Indices: 29085351--29085477 Score: 157
Period size: 48 Copynumber: 2.7 Consensus size: 48
29085341 GGAGAGTCAG
* * **
29085351 TGTAAGACCATGTCTGGGACATGGCATCAGC-TCGAGATGAGTGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACCGAGATGAGACCCAA
* * *
29085398 TGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGTGACCCCA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACCGAGATGAGACCCAA
* * *
29085446 TGTAAGACCATATCTGGGATATGGCATTGGCA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCA
29085478 TCCTACTAGG
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
47 30 0.43
48 39 0.57
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCACCGAGATGAGACCCAA
Found at i:29085956 original size:45 final size:44
Alignment explanation
Indices: 29085867--29086022 Score: 163
Period size: 45 Copynumber: 3.5 Consensus size: 44
29085857 TATAGGTGGA
* * ** **
29085867 TGCTATGTGCTGATTCCACCTGATATTAATGAAAATAAAGGTGAT
1 TGCTATGTGCTGATTTCACCGGATACCAATG-GTATAAAGGTGAT
29085912 TGCTATGTGCTGATTTCACCGGATACCAATGGTTATATAA-GTGAT
1 TGCTATGTGCTGATTTCACCGGATACCAATGG-TATA-AAGGTGAT
* * *
29085957 TGCTATGTGCTGAATTCACCCGG-TACCATTGAGTATAAAGGTGGT
1 TGCTATGTGCTGATTTCA-CCGGATACCAATG-GTATAAAGGTGAT
*
29086002 TGCTATGTGCTAATTTCACCG
1 TGCTATGTGCTGATTTCACCG
29086023 AGTACTCTTG
Statistics
Matches: 95, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
44 5 0.05
45 83 0.87
46 7 0.07
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (44 bp):
TGCTATGTGCTGATTTCACCGGATACCAATGGTATAAAGGTGAT
Found at i:29086045 original size:45 final size:45
Alignment explanation
Indices: 29085901--29086046 Score: 133
Period size: 45 Copynumber: 3.2 Consensus size: 45
29085891 ATTAATGAAA
* * * **
29085901 ATAAAGGTGATTGCTATGTGCTGATTTCA-CCGGATACCAATGGTT
1 ATAAAGGTGGTTGCTATGTGCTGAATTCACCCGG-TACCATTGACT
* *
29085946 ATATAA-GTGATTGCTATGTGCTGAATTCACCCGGTACCATTGAGT
1 ATA-AAGGTGGTTGCTATGTGCTGAATTCACCCGGTACCATTGACT
29085991 ATAAAGGTGGTTGCTATGTGCT-AATTTCA-CCGAGTACTC-TTGACT
1 ATAAAGGTGGTTGCTATGTGCTGAA-TTCACCCG-GTAC-CATTGACT
29086036 A-AAAGGGTGGT
1 ATAAA-GGTGGT
29086047 GTTGTGTGCT
Statistics
Matches: 88, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
44 10 0.11
45 71 0.81
46 7 0.08
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (45 bp):
ATAAAGGTGGTTGCTATGTGCTGAATTCACCCGGTACCATTGACT
Found at i:29087555 original size:19 final size:19
Alignment explanation
Indices: 29087531--29087568 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
29087521 GGGTAGATGT
*
29087531 GGGGTTGGGATGGGAGGGG
1 GGGGTTGGGAGGGGAGGGG
29087550 GGGGTTGGGAGGGGAGGGG
1 GGGGTTGGGAGGGGAGGGG
29087569 AGTAAAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.76, T:0.13
Consensus pattern (19 bp):
GGGGTTGGGAGGGGAGGGG
Found at i:29087684 original size:9 final size:9
Alignment explanation
Indices: 29087670--29087706 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
29087660 TATAGTTTGA
29087670 TATTCGAAT
1 TATTCGAAT
29087679 TATTCGAAT
1 TATTCGAAT
*
29087688 TATTCGAGT
1 TATTCGAAT
29087697 TATTCGAAT
1 TATTCGAAT
29087706 T
1 T
29087707 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:29089141 original size:34 final size:34
Alignment explanation
Indices: 29089089--29089157 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
29089079 CCATCCATTT
* *
29089089 TCCTTAGTTTTTAAATCATTCCACCCTTAAAATA
1 TCCTTAGCTTCTAAATCATTCCACCCTTAAAATA
*
29089123 TCCTTAGCTTCTAGATCATTCCACCCTTAAAATA
1 TCCTTAGCTTCTAAATCATTCCACCCTTAAAATA
29089157 T
1 T
29089158 TTACACTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.39
Consensus pattern (34 bp):
TCCTTAGCTTCTAAATCATTCCACCCTTAAAATA
Found at i:29089190 original size:30 final size:29
Alignment explanation
Indices: 29089153--29089221 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
29089143 CCACCCTTAA
* * *
29089153 AATATTTACACTATTAATCCTTTAACTTTT
1 AATATTTACACT-TTAACCCCTTAAATTTT
*
29089183 CATATTTACACTTTAACCCCTTAAATTTT
1 AATATTTACACTTTAACCCCTTAAATTTT
29089212 AAGTATTTAC
1 AA-TATTTAC
29089222 TCCTGGGCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 15 0.45
30 18 0.55
ACGTcount: A:0.33, C:0.19, G:0.01, T:0.46
Consensus pattern (29 bp):
AATATTTACACTTTAACCCCTTAAATTTT
Found at i:29095373 original size:16 final size:16
Alignment explanation
Indices: 29095352--29095383 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29095342 CCGTTTACTG
29095352 ATTCCTTGCCTATTCC
1 ATTCCTTGCCTATTCC
*
29095368 ATTCCTTGCTTATTCC
1 ATTCCTTGCCTATTCC
29095384 TTCAGCAGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.34, G:0.06, T:0.47
Consensus pattern (16 bp):
ATTCCTTGCCTATTCC
Found at i:29096450 original size:21 final size:21
Alignment explanation
Indices: 29096426--29096466 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
29096416 CATGTTTTGG
* *
29096426 TTTCTGTATTAAGTTCATGTT
1 TTTCTATATTAAGTTAATGTT
29096447 TTTCTATATTAAGTTAATGT
1 TTTCTATATTAAGTTAATGT
29096467 ATGGCAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.12, T:0.56
Consensus pattern (21 bp):
TTTCTATATTAAGTTAATGTT
Found at i:29097684 original size:49 final size:49
Alignment explanation
Indices: 29097627--29097730 Score: 190
Period size: 49 Copynumber: 2.1 Consensus size: 49
29097617 TCATGTGTTA
* *
29097627 TAATTTTATAAAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTGACCTTTTGATTCATGATATTAAACTTAATTT
29097676 TAATTTTATAAAGTGTTGACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTGACCTTTTGATTCATGATATTAAACTTAATTT
29097725 TAATTT
1 TAATTT
29097731 GTTTTTTTCT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTGACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:29098973 original size:17 final size:17
Alignment explanation
Indices: 29098953--29098986 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
29098943 TATATTAAGA
*
29098953 ATTTTATTAAATTATAT
1 ATTTGATTAAATTATAT
29098970 ATTTGATTAAATTATAT
1 ATTTGATTAAATTATAT
29098987 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTGATTAAATTATAT
Found at i:29099008 original size:17 final size:17
Alignment explanation
Indices: 29098986--29099020 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
29098976 TTAAATTATA
29098986 TTTAATAATAATTATGT
1 TTTAATAATAATTATGT
29099003 TTTAATAATAATTATGT
1 TTTAATAATAATTATGT
29099020 T
1 T
29099021 AAAATATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (17 bp):
TTTAATAATAATTATGT
Found at i:29099026 original size:14 final size:16
Alignment explanation
Indices: 29098979--29099020 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
29098969 TATTTGATTA
*
29098979 AATTATATTTAATAAT
1 AATTATGTTTAATAAT
29098995 AATTATGTTTTAATAAT
1 AATTATG-TTTAATAAT
29099012 AATTATGTT
1 AATTATGTT
29099021 AAAATATGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (16 bp):
AATTATGTTTAATAAT
Found at i:29099026 original size:17 final size:17
Alignment explanation
Indices: 29098989--29099026 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
29098979 AATTATATTT
**
29098989 AATAATAATTATGTTTT
1 AATAATAATTATGTTAA
29099006 AATAATAATTATGTTAA
1 AATAATAATTATGTTAA
29099023 AATA
1 AATA
29099027 TGATTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (17 bp):
AATAATAATTATGTTAA
Found at i:29099440 original size:18 final size:18
Alignment explanation
Indices: 29099414--29099448 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
29099404 GCAGAAACCA
29099414 AAAACTAAAAGCAAAAGT
1 AAAACTAAAAGCAAAAGT
*
29099432 AAAAGTAAAAGCAAAAG
1 AAAACTAAAAGCAAAAG
29099449 CAATCATCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.14, T:0.09
Consensus pattern (18 bp):
AAAACTAAAAGCAAAAGT
Found at i:29103828 original size:16 final size:17
Alignment explanation
Indices: 29103807--29103839 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
29103797 CATTCATCTA
29103807 TATT-AAATCGTTAGAG
1 TATTAAAATCGTTAGAG
29103823 TATTAAAATCGTTAGAG
1 TATTAAAATCGTTAGAG
29103840 GTTTCAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.36
Consensus pattern (17 bp):
TATTAAAATCGTTAGAG
Found at i:29106608 original size:6 final size:6
Alignment explanation
Indices: 29106597--29106724 Score: 193
Period size: 6 Copynumber: 21.3 Consensus size: 6
29106587 GTAACCAGTG
29106597 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT
1 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT
*
29106645 CACCAT CACCGT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT
1 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT
** * * * *
29106693 TTCCAT CTCCAT CTCCAT CTCCAT CTCCAT CA
1 CACCAT CACCAT CACCAT CACCAT CACCAT CA
29106725 TCTTCAAGTG
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 116 1.00
ACGTcount: A:0.29, C:0.49, G:0.01, T:0.21
Consensus pattern (6 bp):
CACCAT
Found at i:29117213 original size:132 final size:132
Alignment explanation
Indices: 29116971--29117235 Score: 458
Period size: 132 Copynumber: 2.0 Consensus size: 132
29116961 CACTTTGTAC
*
29116971 ATCAAAATTTCCCTGATAAGCATGATCTTTGAAAAGGTAATAAGTGCTCCGCAAAACATAAAAAT
1 ATCAAAATTTCCCTGATAAGCATGATCTTTGAAAAGGTAATAAGTGCTCCCCAAAACATAAAAAT
** * * *
29117036 AAGTCATTATAAGCTTTCTTCCACTCCGCATCTCATATGGTGCCATCCTTGTTTTAGGCTTCAAA
66 AAGTCACGATAAGCTTTCTTCCACTCCACATCTCATATGGAGCCATCCTTGTTTTAGGCCTCAAA
29117101 GT
131 GT
29117103 ATCAAAATTTCCCTGATAAGCATGATCTTTGAAAAGGTAATAAGTGCTCCCCAAAACATAAAAAT
1 ATCAAAATTTCCCTGATAAGCATGATCTTTGAAAAGGTAATAAGTGCTCCCCAAAACATAAAAAT
* *
29117168 AAGTCACGATAGGCTTTCTTCCTCTCCACATCTCATATGGAGCCATCCTTGTTTTAGGCCTCAAA
66 AAGTCACGATAAGCTTTCTTCCACTCCACATCTCATATGGAGCCATCCTTGTTTTAGGCCTCAAA
29117233 GT
131 GT
29117235 A
1 A
29117236 CATTGTTAAT
Statistics
Matches: 125, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 125 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (132 bp):
ATCAAAATTTCCCTGATAAGCATGATCTTTGAAAAGGTAATAAGTGCTCCCCAAAACATAAAAAT
AAGTCACGATAAGCTTTCTTCCACTCCACATCTCATATGGAGCCATCCTTGTTTTAGGCCTCAAA
GT
Found at i:29120871 original size:15 final size:15
Alignment explanation
Indices: 29120851--29120882 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
29120841 CATTTCACTA
*
29120851 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
29120866 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
29120881 TT
1 TT
29120883 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:29124437 original size:10 final size:10
Alignment explanation
Indices: 29124422--29124455 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
29124412 TAATTTTAAT
29124422 TTTTAATTTA
1 TTTTAATTTA
29124432 TTTTAATTTA
1 TTTTAATTTA
*
29124442 TTTTACTTTA
1 TTTTAATTTA
29124452 TTTT
1 TTTT
29124456 TTTCCAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTAATTTA
Found at i:29131567 original size:21 final size:21
Alignment explanation
Indices: 29131543--29131590 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
29131533 AGGAGCTTAT
29131543 GGAACTAAAAGCTCAACTTCA
1 GGAACTAAAAGCTCAACTTCA
* *
29131564 GGAACTGAAAGCTTAACTTCA
1 GGAACTAAAAGCTCAACTTCA
29131585 GGAACT
1 GGAACT
29131591 TCTCGATCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (21 bp):
GGAACTAAAAGCTCAACTTCA
Found at i:29134274 original size:25 final size:25
Alignment explanation
Indices: 29134233--29134280 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
29134223 CAGTATCTAC
29134233 ATTTGTTTAAACCAGGTAAATTTGT
1 ATTTGTTTAAACCAGGTAAATTTGT
* *
29134258 ATTTGTTTGAACGAGGTAAATTT
1 ATTTGTTTAAACCAGGTAAATTT
29134281 CGAGGCCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (25 bp):
ATTTGTTTAAACCAGGTAAATTTGT
Found at i:29137316 original size:138 final size:135
Alignment explanation
Indices: 29137043--29137321 Score: 348
Period size: 138 Copynumber: 2.1 Consensus size: 135
29137033 GAGAACATAG
* *
29137043 ATATAATTAATATATGAATTTGATTCCTACAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATGCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* *** *
29137108 AATATAAACAATTATATTATTTGGTATCAGTCAAAATATAAAAGACATGAAAATTAATATTCGTT
66 AATAT--A-AATTATATTAATAAATATCAGGCAAAATATAAAAGACATGAAAATTAATATTCGTT
29137173 TGAAAAGA
128 TGAAAAGA
***
29137181 ATATAATTAATATATGAATTTGATGCATACAAAATATTAATTGTATATATTTTTTTTGAATTTAT
1 ATATAATTAATATATGAATTTGATGCATACAAAATATTAATTGTATATA-TTTTACCGAATTTAT
* ** * * *
29137246 TAATAT-AATTATATTAATAAAT-TC-GGCAAAATATAAAATATTTGGAAATTAATGTTCTTTTG
65 TAATATAAATTATATTAATAAATATCAGGCAAAATATAAAAGACATGAAAATTAATATTCGTTTG
29137308 AAAAGA
130 AAAAGA
*
29137314 AAATAATT
1 ATATAATT
29137322 CTGTTTTTTT
Statistics
Matches: 123, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
133 44 0.36
134 2 0.02
135 12 0.10
138 47 0.38
139 18 0.15
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (135 bp):
ATATAATTAATATATGAATTTGATGCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
AATATAAATTATATTAATAAATATCAGGCAAAATATAAAAGACATGAAAATTAATATTCGTTTGA
AAAGA
Found at i:29137418 original size:74 final size:77
Alignment explanation
Indices: 29137300--29137445 Score: 181
Period size: 74 Copynumber: 1.9 Consensus size: 77
29137290 GAAATTAATG
* * *
29137300 TTCTTTTGAAAAGAAAATAATTCTGTTTTTTTCAACTATTCATTTACATTGTCTATTAATAAAAG
1 TTCTTTTGAAAAGAAAATAATTCTGTTTTTCTCAACTATTCATTTACATTCTCTACTAATAAAAG
29137365 AATAATCATATA
66 AATAATCATATA
* * * * * **
29137377 TTCTTTTG-GAAGAATATAATTCT-TTTTTCT-AACTTTTCATTTTCCTTCTCTACTAATAAGGG
1 TTCTTTTGAAAAGAAAATAATTCTGTTTTTCTCAACTATTCATTTACATTCTCTACTAATAAAAG
29137439 AATAATC
66 AATAATC
29137446 CTAGTTTTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
74 32 0.54
75 6 0.10
76 13 0.22
77 8 0.14
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.46
Consensus pattern (77 bp):
TTCTTTTGAAAAGAAAATAATTCTGTTTTTCTCAACTATTCATTTACATTCTCTACTAATAAAAG
AATAATCATATA
Found at i:29137458 original size:20 final size:20
Alignment explanation
Indices: 29137433--29137473 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
29137423 TCTCTACTAA
29137433 TAAGGGAATAATCCTAGTTT
1 TAAGGGAATAATCCTAGTTT
29137453 TAAGGGAATAATCCTAGTTT
1 TAAGGGAATAATCCTAGTTT
29137473 T
1 T
29137474 CTTTTTTAAT
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:0.10, G:0.20, T:0.37
Consensus pattern (20 bp):
TAAGGGAATAATCCTAGTTT
Found at i:29139423 original size:30 final size:30
Alignment explanation
Indices: 29139387--29139475 Score: 110
Period size: 28 Copynumber: 3.0 Consensus size: 30
29139377 TATCAGTGCA
* *
29139387 GTGTGGGCCTTAACCCATTACAGTAACAGT
1 GTGTGGGCCTTAGCCCAATACAGTAACAGT
* *
29139417 GTGTGGGTCTTAGCCCAATACAGTAATA--
1 GTGTGGGCCTTAGCCCAATACAGTAACAGT
*
29139445 GTGTGGGCCTTAGCCCAATATAGTAATCAGT
1 GTGTGGGCCTTAGCCCAATACAGTAA-CAGT
29139476 ACAATGTAGT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 24 0.49
29 1 0.02
30 24 0.49
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (30 bp):
GTGTGGGCCTTAGCCCAATACAGTAACAGT
Found at i:29139889 original size:27 final size:27
Alignment explanation
Indices: 29139833--29140272 Score: 491
Period size: 27 Copynumber: 16.4 Consensus size: 27
29139823 GGTATATCAG
29139833 TCATTTTACCCTAT-G-GGGTATTTC-A
1 TCATTTTACCCT-TCGAGGGTATTTCGA
29139858 GTCATTTTACCCTTCGAGGGTATTTCGA
1 -TCATTTTACCCTTCGAGGGTATTTCGA
*
29139886 TCATTTTACCCTTCGGGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
29139913 TCATTTTACCCTTCGGGGGTATTTCAA
1 TCATTTTACCCTTCGAGGGTATTTCGA
* * *
29139940 TCATTTTGCCCTTCAAGGGTATTT-TA
1 TCATTTTACCCTTCGAGGGTATTTCGA
* * *
29139966 GTCATTTTACCCTTCAAGGGTATTTTGG
1 -TCATTTTACCCTTCGAGGGTATTTCGA
* * *
29139994 TCATTTTACCCTTCGGGGGTATTTTGG
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
29140021 TCATTTTACCCTTTGAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
29140048 TCATTTTACCCTTCAAGGGTATTT-TA
1 TCATTTTACCCTTCGAGGGTATTTCGA
29140074 GTCATTTTACCCTTCGAGGGTATTTCGA
1 -TCATTTTACCCTTCGAGGGTATTTCGA
* * *
29140102 TCGTTTTACCCTTCGGGGGTATTTTGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
* * *
29140129 TCATTTTACTCTTTGAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
29140156 CCATTTTA-CCTTCGAGGGTATTTCAA
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
29140182 TCATTTTACCATTC-AGGGGTATTTCGG
1 TCATTTTACCCTTCGA-GGGTATTTCGA
* * *
29140209 TCGTTTTAGCCTTTGAGGGTATTTC-A
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
29140235 GTTATTTTACCCTTCGAGGGTATTTCGG
1 -TCATTTTACCCTTCGAGGGTATTTCGA
29140263 TCATTTTACC
1 TCATTTTACC
29140273 ACGAATCGTA
Statistics
Matches: 353, Mismatches: 49, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
25 1 0.00
26 36 0.10
27 313 0.89
28 3 0.01
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTCGA
Found at i:29141217 original size:18 final size:19
Alignment explanation
Indices: 29141175--29141217 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
29141165 GGAAAAATCG
*
29141175 ACAACAAGAGAAGAAGAAA
1 ACAAAAAGAGAAGAAGAAA
*
29141194 CCAAAAAGA-AAGAAGAAA
1 ACAAAAAGAGAAGAAGAAA
*
29141212 AGAAAA
1 ACAAAA
29141218 GATGAGGGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.72, C:0.09, G:0.19, T:0.00
Consensus pattern (19 bp):
ACAAAAAGAGAAGAAGAAA
Found at i:29153675 original size:45 final size:45
Alignment explanation
Indices: 29153619--29153778 Score: 216
Period size: 45 Copynumber: 3.6 Consensus size: 45
29153609 TTGGCTTGAA
*
29153619 AAACGAATAAGACCATAGTTGAAAGACACTATGACACTATATTGG
1 AAACGAATAAGACCATAGTTGAAAGACACTATGACACTATATCGG
* * *
29153664 AAACAAATAAGATCATAGTTGAAAGAGACTATGACACTATATCGG
1 AAACGAATAAGACCATAGTTGAAAGACACTATGACACTATATCGG
* * *
29153709 AAATGAATAGGACCATAGTTGAAAGACACTATGGCAAC-ATGA-CGG
1 AAACGAATAAGACCATAGTTGAAAGACACTATGAC-ACTAT-ATCGG
*
29153754 AAATGAATAAGACCATAGTTGAAAG
1 AAACGAATAAGACCATAGTTGAAAG
29153779 TGTTGGAACG
Statistics
Matches: 102, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
45 99 0.97
46 3 0.03
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.21
Consensus pattern (45 bp):
AAACGAATAAGACCATAGTTGAAAGACACTATGACACTATATCGG
Found at i:29157497 original size:27 final size:27
Alignment explanation
Indices: 29157459--29157520 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
29157449 AAACCCCAAA
*
29157459 AAAGGAATGCCTTTCTGGCAATATATG
1 AAAGGAATGCCTTTCTGGAAATATATG
* *
29157486 AAAGGAATGCCTTTGTGGAAATGTATG
1 AAAGGAATGCCTTTCTGGAAATATATG
29157513 AAAGGAAT
1 AAAGGAAT
29157521 TCATTGACGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.27
Consensus pattern (27 bp):
AAAGGAATGCCTTTCTGGAAATATATG
Found at i:29163036 original size:135 final size:136
Alignment explanation
Indices: 29162768--29163037 Score: 337
Period size: 137 Copynumber: 2.0 Consensus size: 136
29162758 TGTTATTAGA
* * * * * **
29162768 GTTACCATATTTTGGGGTGCTAGTCCTGAATGTCCTATCGATGGCTGAGTTCCAACATTTGTTGT
1 GTTACCATATTTTGGGGTGCTAGCCCTAAATGTCCTACCGATGGCTGAGGTCCAACATTAGTTAC
* * *
29162833 GGATACTCGTCAGCTTGTGTGAGTGGCATCGTGTAGCTACATTCCAACCGTCAGCTTGTGTGAGC
66 GGATACTCATCAACTTGTGTGA--GGCATCGTGTAGCTACATTCCAACCGTCAGCTTGTGTGACC
29162898 AAACCCAG
129 AAACCCAG
* * * **
29162906 GTTACCATGTTTT-GGGTGCTGGCCCTAAATGTCCTGCCGATGGCTGAGGTCCGGCATTAGTTAC
1 GTTACCATATTTTGGGGTGCTAGCCCTAAATGTCCTACCGATGGCTGAGGTCCAACATTAGTTAC
* **
29162970 GGATACTTATCAACTTGTGTGCA-GCATCGTGTAGCTACATTCTGACCGTCAGCTTGTGTGACCA
66 GGATACTCATCAACTTGTGTG-AGGCATCGTGTAGCTACATTCCAACCGTCAGCTTGTGTGACCA
29163034 AACC
130 AACC
29163038 TATTTTACAG
Statistics
Matches: 113, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
135 42 0.37
137 58 0.51
138 13 0.12
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (136 bp):
GTTACCATATTTTGGGGTGCTAGCCCTAAATGTCCTACCGATGGCTGAGGTCCAACATTAGTTAC
GGATACTCATCAACTTGTGTGAGGCATCGTGTAGCTACATTCCAACCGTCAGCTTGTGTGACCAA
ACCCAG
Found at i:29165475 original size:2 final size:2
Alignment explanation
Indices: 29165468--29165494 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
29165458 TAAAGTTTTA
29165468 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
29165495 GTTAATGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:29175098 original size:12 final size:13
Alignment explanation
Indices: 29175065--29175106 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
29175055 AGTGTTAACA
*
29175065 TGAATTTATGATT
1 TGAATTTGTGATT
*
29175078 TG-ATATGTGA-T
1 TGAATTTGTGATT
29175089 TGAATTTGTGATT
1 TGAATTTGTGATT
29175102 TGAAT
1 TGAAT
29175107 AAGGTTTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 3 0.12
12 13 0.54
13 8 0.33
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (13 bp):
TGAATTTGTGATT
Found at i:29175710 original size:9 final size:9
Alignment explanation
Indices: 29175693--29175722 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
29175683 AATTTTTATT
*
29175693 GGTTAAAAA
1 GGTTTAAAA
29175702 GGTTTAAAA
1 GGTTTAAAA
29175711 GGTTTAAAA
1 GGTTTAAAA
29175720 GGT
1 GGT
29175723 AAACATTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.30
Consensus pattern (9 bp):
GGTTTAAAA
Found at i:29177074 original size:26 final size:26
Alignment explanation
Indices: 29177038--29177110 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
29177028 CATTAGGGCG
29177038 TAGCAGGCTTCGTGCCGGTGTATATT
1 TAGCAGGCTTCGTGCCGGTGTATATT
**
29177064 TAGCAGGCTTCGTGCCAATGTATATT
1 TAGCAGGCTTCGTGCCGGTGTATATT
* *
29177090 TAGCAGGCTTTGTGTCGGTGT
1 TAGCAGGCTTCGTGCCGGTGT
29177111 TTTTAGTAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.16, C:0.18, G:0.30, T:0.36
Consensus pattern (26 bp):
TAGCAGGCTTCGTGCCGGTGTATATT
Found at i:29178728 original size:43 final size:42
Alignment explanation
Indices: 29178571--29178738 Score: 112
Period size: 43 Copynumber: 4.0 Consensus size: 42
29178561 ACATATATCA
* * * * *
29178571 CATA-CAATGCCATATCCCAGATATGGTCTTACATGTTAT-T
1 CATATCAATGCAATGTCCCAGACATGGTCTTACACGTAATCT
* * * * *
29178611 ACATATTAATGTCACTGTCCCAGACAAGGTCTT--ATGTGAA-AT
1 -CATATCAATG-CAATGTCCCAGACATGGTCTTACACGT-AATCT
* * * *
29178653 CATATACGATGCCAATGTTCCAAACATAGTCTTACACGTAATCT
1 CATAT-CAATG-CAATGTCCCAGACATGGTCTTACACGTAATCT
*
29178697 CATATCAATGCAAATGTCCCAGACATGGTCTTACACGAAATC
1 CATATCAATGC-AATGTCCCAGACATGGTCTTACACGTAATC
29178739 ACACCCCGAG
Statistics
Matches: 96, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
41 13 0.14
42 26 0.27
43 48 0.50
44 9 0.09
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (42 bp):
CATATCAATGCAATGTCCCAGACATGGTCTTACACGTAATCT
Found at i:29182339 original size:25 final size:25
Alignment explanation
Indices: 29182277--29182339 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
29182267 TATCATGATT
*
29182277 TGTAAATCGATAAGCTCATATAAGC
1 TGTAAATCGGTAAGCTCATATAAGC
* *
29182302 TGTAAATCAGTAAGCTCATATGAGC
1 TGTAAATCGGTAAGCTCATATAAGC
29182327 TG-AGAATCGGTAA
1 TGTA-AATCGGTAA
29182340 CCCTAATGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (25 bp):
TGTAAATCGGTAAGCTCATATAAGC
Found at i:29186566 original size:17 final size:18
Alignment explanation
Indices: 29186534--29186567 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29186524 CCATGTAGTC
*
29186534 TGCCCGTGTGGGCCCACA
1 TGCCCATGTGGGCCCACA
29186552 TGCCCATGT-GGCCCAC
1 TGCCCATGTGGGCCCAC
29186568 TCGACCCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.12, C:0.41, G:0.29, T:0.18
Consensus pattern (18 bp):
TGCCCATGTGGGCCCACA
Found at i:29187995 original size:15 final size:15
Alignment explanation
Indices: 29187975--29188006 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
29187965 AAGACTACCA
29187975 ACATATTAGCACTCC
1 ACATATTAGCACTCC
29187990 ACATATTAGCACTCC
1 ACATATTAGCACTCC
29188005 AC
1 AC
29188007 CTAACCACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.34, G:0.06, T:0.25
Consensus pattern (15 bp):
ACATATTAGCACTCC
Found at i:29190372 original size:24 final size:24
Alignment explanation
Indices: 29190324--29190370 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
29190314 ACTGGTCATA
*
29190324 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
29190348 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
29190371 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:29191016 original size:27 final size:27
Alignment explanation
Indices: 29190994--29191276 Score: 300
Period size: 27 Copynumber: 10.5 Consensus size: 27
29190984 AAAATATCTT
*
29190994 CATATGGTAAAATGATCGAAATACCCC
1 CATAGGGTAAAATGATCGAAATACCCC
* *
29191021 TCATAGGGTAGAATGATCGAAATACCTC
1 -CATAGGGTAAAATGATCGAAATACCCC
* *
29191049 CATAGGGTAAAATGATCAAAATACCTC
1 CATAGGGTAAAATGATCGAAATACCCC
* * * *
29191076 CATAGGATAGAATGACCGAAATACCCT
1 CATAGGGTAAAATGATCGAAATACCCC
* * * *
29191103 AATAGGGTAAAATGACCAAAATACCAC
1 CATAGGGTAAAATGATCGAAATACCCC
* *
29191130 CATAAGGTAAAATGACCGAAATACCCC
1 CATAGGGTAAAATGATCGAAATACCCC
* *
29191157 CATAGGGTAAAATAATCGAAATACCCT
1 CATAGGGTAAAATGATCGAAATACCCC
* * *
29191184 CA-AGGGTAAAATAACCAAAATACCCC
1 CATAGGGTAAAATGATCGAAATACCCC
* * *
29191210 CATAGGATAGAATGATCGAAATACCCT
1 CATAGGGTAAAATGATCGAAATACCCC
* *
29191237 CATAGGATAAAATGA-CTGAAATACCCT
1 CATAGGGTAAAATGATC-GAAATACCCC
*
29191264 CATAGGATAAAAT
1 CATAGGGTAAAAT
29191277 TACTGTTGTA
Statistics
Matches: 218, Mismatches: 35, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
26 24 0.11
27 170 0.78
28 24 0.11
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.20
Consensus pattern (27 bp):
CATAGGGTAAAATGATCGAAATACCCC
Found at i:29191133 original size:81 final size:81
Alignment explanation
Indices: 29190978--29191276 Score: 334
Period size: 81 Copynumber: 3.7 Consensus size: 81
29190968 TTTATACTGT
* * * * * * *
29190978 ATGAGCAAAATATCTTCATATGG-TAAAATGATCGAAATACCCCTCATAGGGTAGAATGATCGAA
1 ATGATCAAAATACCTCCATA-GGATAAAATGACCGAAATA-CCCTCATAGGGTAAAATGACCAAA
*
29191042 ATACCTCCATAGGGTAAA
64 ATACCACCATAGGGTAAA
* *
29191060 ATGATCAAAATACCTCCATAGGATAGAATGACCGAAATACCCTAATAGGGTAAAATGACCAAAAT
1 ATGATCAAAATACCTCCATAGGATAAAATGACCGAAATACCCTCATAGGGTAAAATGACCAAAAT
*
29191125 ACCACCATAAGGTAAA
66 ACCACCATAGGGTAAA
* * * * * * *
29191141 ATGACCGAAATACCCCCATAGGGTAAAATAATCGAAATACCCTCA-AGGGTAAAATAACCAAAAT
1 ATGATCAAAATACCTCCATAGGATAAAATGACCGAAATACCCTCATAGGGTAAAATGACCAAAAT
* * *
29191205 ACCCCCATAGGATAGA
66 ACCACCATAGGGTAAA
* * *
29191221 ATGATCGAAATACC-CTCATAGGATAAAATGACTGAAATACCCTCATAGGATAAAAT
1 ATGATCAAAATACCTC-CATAGGATAAAATGACCGAAATACCCTCATAGGGTAAAAT
29191277 TACTGTTGTA
Statistics
Matches: 184, Mismatches: 30, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.01
80 68 0.37
81 84 0.46
82 31 0.17
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.20
Consensus pattern (81 bp):
ATGATCAAAATACCTCCATAGGATAAAATGACCGAAATACCCTCATAGGGTAAAATGACCAAAAT
ACCACCATAGGGTAAA
Found at i:29197754 original size:39 final size:39
Alignment explanation
Indices: 29197706--29197788 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 39
29197696 ATCATAATTA
29197706 TAATAATTCATGAAAAGTATTTGCAACACCAACCATAAT
1 TAATAATTCATGAAAAGTATTTGCAACACCAACCATAAT
*
29197745 TAATAATTCATGAAAAGTGTTTGCAACACCAACCATAAT
1 TAATAATTCATGAAAAGTATTTGCAACACCAACCATAAT
29197784 TAATA
1 TAATA
29197789 TATTAATAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (39 bp):
TAATAATTCATGAAAAGTATTTGCAACACCAACCATAAT
Found at i:29199974 original size:24 final size:25
Alignment explanation
Indices: 29199918--29199974 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
29199908 CGAACACTTA
***
29199918 AACGGGAAGCTCTTTCGAGCCATAT
1 AACGGGAAGCTCTAAAGAGCCATAT
* *
29199943 AACAGGAAGCTCTAAAGAGCC-TTT
1 AACGGGAAGCTCTAAAGAGCCATAT
29199967 AACGGGAA
1 AACGGGAA
29199975 TCTCGTACGA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (25 bp):
AACGGGAAGCTCTAAAGAGCCATAT
Found at i:29200058 original size:25 final size:24
Alignment explanation
Indices: 29200030--29200087 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
29200020 AAAGCTCTGG
29200030 AGAGCCATTAATTAG-GAAGCTCATA
1 AGAGCCATT-A-TAGAGAAGCTCATA
*
29200055 AGAGCCAGTTATCGAGAAGCTCATA
1 AGAGCCA-TTATAGAGAAGCTCATA
*
29200080 AGCGCCAT
1 AGAGCCAT
29200088 AACGGGAAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 3 0.10
25 24 0.83
26 2 0.07
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (24 bp):
AGAGCCATTATAGAGAAGCTCATA
Found at i:29202634 original size:116 final size:116
Alignment explanation
Indices: 29202430--29202652 Score: 356
Period size: 116 Copynumber: 1.9 Consensus size: 116
29202420 AATAGGATGT
* * * *
29202430 CATGTCACTTTTCCATTACGTTTGTAATGAAAAATGGTTAAAAGGACTAATTTGTTGTTTTTCGA
1 CATGTCACTTTTCCATTACATTTGTAATGAAAAATGATTAAAAGGACTAATTTATTATTTTTCGA
*
29202495 AAGTTGAGTGACTGAATTGAAATCAGAGTGACTGTTTTGTCAACTACATGC
66 AAGTTGAGTCACTGAATTGAAATCAGAGTGACTGTTTTGTCAACTACATGC
** * * *
29202546 CATGTCACTTTTCTGTTACATTTGTAATGGAAAATGATTAAAATGACTAATTTATTATTTTTTGA
1 CATGTCACTTTTCCATTACATTTGTAATGAAAAATGATTAAAAGGACTAATTTATTATTTTTCGA
29202611 AAGTTGAGTCACTGAATTGAAATCAGAGTGACTGTTTTGTCA
66 AAGTTGAGTCACTGAATTGAAATCAGAGTGACTGTTTTGTCA
29202653 GCCACATCAA
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
116 97 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (116 bp):
CATGTCACTTTTCCATTACATTTGTAATGAAAAATGATTAAAAGGACTAATTTATTATTTTTCGA
AAGTTGAGTCACTGAATTGAAATCAGAGTGACTGTTTTGTCAACTACATGC
Found at i:29210187 original size:113 final size:113
Alignment explanation
Indices: 29210028--29210318 Score: 286
Period size: 113 Copynumber: 2.6 Consensus size: 113
29210018 TTTTGGTTTG
* * * *
29210028 GCGCCGCAAAATC-TCA-AGACCAAAACGCATCGTTTTTGTCTTGATGTATACAATAATTAGTGG
1 GCGCCGCAAAA-CATCATA-ACCAAAACGCATCGTTTTGGTATCGATGTATACAAGAATTAGTGG
* ** * * *
29210091 TGATTATGATAAAACGCC-GCT-AAAGCAAGTATTAGCGGCGCATTGCGGGAA
64 CGATTACAAAAAAACGCCAG-TAAAAG-AAGTATTAGCGGCGC-TTACGGAAA
* * **
29210142 GCGCCGCAAAA-ATCTTAACGAAAACGCATCGTTTTGGTATCGATGTATATTAGAATTAGTGGCG
1 GCGCCGCAAAACATCATAACCAAAACGCATCGTTTTGGTATCGATGTATACAAGAATTAGTGGCG
* *
29210206 TTTACAAAAAAACGCCAGTAAAAGAAGTCTTAGCGGCGCTTACGGAAA
66 ATTACAAAAAAACGCCAGTAAAAGAAGTATTAGCGGCGCTTACGGAAA
* ** * * * **
29210254 GCGCCGCAAAACATGATAACCAAAACGCAGAGTTTTGATCTTGATGTATATTAGAATTAGTGGCG
1 GCGCCGCAAAACATCATAACCAAAACGCATCGTTTTGGTATCGATGTATACAAGAATTAGTGGCG
29210319 CTTCATAGAA
Statistics
Matches: 148, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
112 18 0.12
113 113 0.76
114 17 0.11
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (113 bp):
GCGCCGCAAAACATCATAACCAAAACGCATCGTTTTGGTATCGATGTATACAAGAATTAGTGGCG
ATTACAAAAAAACGCCAGTAAAAGAAGTATTAGCGGCGCTTACGGAAA
Found at i:29210375 original size:75 final size:75
Alignment explanation
Indices: 29210252--29210393 Score: 212
Period size: 75 Copynumber: 1.9 Consensus size: 75
29210242 CGCTTACGGA
* * * * *
29210252 AAGCGCCGCAAAACATGATAACCAAAACGCAGAGTTTTGATCTTGATGTATATTAGAATTAGTGG
1 AAGCGCCGCAAAAAATGATAACCAAAACGCAGAGGTTTGATCTCGATGTATAATACAATTAGTGG
29210317 CGCTTCATAG
66 CGCTTCATAG
* * *
29210327 AAGCGCCGCAAAAAATGTTAACCAAAACGCAGCGGTTTGGTCTCGATGTATAATACAATTAGTGG
1 AAGCGCCGCAAAAAATGATAACCAAAACGCAGAGGTTTGATCTCGATGTATAATACAATTAGTGG
29210392 CG
66 CG
29210394 TTAGGGGAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 59 1.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.25
Consensus pattern (75 bp):
AAGCGCCGCAAAAAATGATAACCAAAACGCAGAGGTTTGATCTCGATGTATAATACAATTAGTGG
CGCTTCATAG
Found at i:29210527 original size:114 final size:113
Alignment explanation
Indices: 29210325--29210774 Score: 387
Period size: 114 Copynumber: 3.9 Consensus size: 113
29210315 GGCGCTTCAT
* * * * * * * *
29210325 AGAAGCGCCGCAAAAAATGTTA-ACCAAAACGCAGCGGTTTGGTCTCGATGTATAATACAATTAG
1 AGAAGCGCCGCAAGATATG-CACACCAAAACGCAG-AGTTTGGTCTTGAGGTATATTAGAATTAG
* * * *
29210389 TGGCG-TTAGGGGAAAACGCTGCTAAAGCATAACATTCGCGGCGATTTTCT
64 TGGCGCTTA-TGGAAAACGCCGCTAAAGCATAACATTAGCGGCGATTTTCC
* * * *
29210439 AGAATCGCCACAAGATATGCACACCAAAACGCAGAGTTTGGTGTTGAGGTATATTAGGATTAGTG
1 AGAAGCGCCGCAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTG
* * * * *
29210504 GCGCTTACTGTAAAACGCCGCTAAAGCGT-ACTATTAGTGGCGCTTCTCC
66 GCGCTTA-TGGAAAACGCCGCTAAAGCATAAC-ATTAGCGGCGATTTTCC
* * * * * * *
29210553 AGAAGCGCCGCTAA-AT-TTCTTA-ACCAAAACTCAGCGTTTTGGTCTTGATGTATACTATAGTT
1 AGAAGCGCCGC-AAGATATGC--ACACCAAAACGCAGAG-TTTGGTCTTGAGGTATATTAGAATT
* ** ** *
29210615 AGTGGCGCTTATGAGAAAATGCCGCTAAATAATAGTATTAGCGGCGA-TTT-G
62 AGTGGCGCTTATG-GAAAACGCCGCTAAAGCATAACATTAGCGGCGATTTTCC
29210666 AGTTAAGCGCCGCAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAG
1 AG--AAGCGCCGCAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAG
* *
29210731 TGGCGCTGATTGGAAAACGCCGCTAAAGTAT-ACTATTAGCGGCG
64 TGGCGCTTA-TGGAAAACGCCGCTAAAGCATAAC-ATTAGCGGCG
29210775 CGTTTTTAGA
Statistics
Matches: 263, Mismatches: 57, Indels: 32
0.75 0.16 0.09
Matches are distributed among these distances:
113 34 0.13
114 146 0.56
115 81 0.31
116 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (113 bp):
AGAAGCGCCGCAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTG
GCGCTTATGGAAAACGCCGCTAAAGCATAACATTAGCGGCGATTTTCC
Found at i:29210624 original size:115 final size:110
Alignment explanation
Indices: 29210309--29210942 Score: 306
Period size: 114 Copynumber: 5.5 Consensus size: 110
29210299 GTATATTAGA
** * *
29210309 ATTAGTGGCGCTTCAT-AGAAGCGCCGCAAAAAATGTTAACCAAAACGCAGCGGTTTGGTCTCGA
1 ATTAGTGGCGCTTC-TCAGAAGCGCCGC-AAATTTCTTAACCAAAACGCAGC-GTTTGGTCTTGA
* * * *
29210373 TGTATAATACAATTAGTGGCG-TTAGGGGAAAACGCTGCTAAAGCATAAC
63 TGTAT-ATATAGTTAGTGGCGCTTA-TGGAAAACGCCGCTAAAGCATAAC
* * * * * * * * *
29210422 ATTCGCGGCGATTTTCTAGAATCGCCACAAGATATGC--ACACCAAAACGCAGAGTTTGGTGTTG
1 ATTAGTGGCGCTTCTC-AGAAGCGCCGCAA-AT-TTCTTA-ACCAAAACGCAGCGTTTGGTCTTG
* * *
29210485 AGGTATAT-TAGGATTAGTGGCGCTTACTGTAAAACGCCGCTAAAGCGT-AC
62 ATGTATATATA-G-TTAGTGGCGCTTA-TGGAAAACGCCGCTAAAGCATAAC
*
29210535 TATTAGTGGCGCTTCTCCAGAAGCGCCGCTAAATTTCTTAACCAAAACTCAGCGTTTTGGTCTTG
1 -ATTAGTGGCGCTTCT-CAGAAGCGCCGC-AAATTTCTTAACCAAAACGCAGCG-TTTGGTCTTG
* ** **
29210600 ATGTATACTATAGTTAGTGGCGCTTATGAGAAAATGCCGCTAAATAATAGT
62 ATGTATA-TATAGTTAGTGGCGCTTATG-GAAAACGCCGCTAAAGCATAAC
* * * * *
29210651 ATTAGCGGCGATT-TGAGTTAAGCGCCGCAAGATATGC--ACACCAAAACGCAGAGTTTGGTCTT
1 ATTAGTGGCGCTTCTCAG--AAGCGCCGCAA-AT-TTCTTA-ACCAAAACGCAGCGTTTGGTCTT
* * *
29210713 GAGGTATAT-TAGAATTAGTGGCGCTGATTGGAAAACGCCGCTAAAGTAT-AC
61 GATGTATATATAG--TTAGTGGCGCTTA-TGGAAAACGCCGCTAAAGCATAAC
* * * * * * * ** * **
29210764 TATTAGCGGCGCGTTTTTAGATGCGTCGCAGAATATATTAACTGAAACGCTGCGTTTAAATCTTG
1 -ATTAGTGGCGC-TTCTCAGAAGCGCCGCA-AATTTCTTAACCAAAACGCAGCGTTT-GGTCTTG
** * * * **
29210829 ATGTATACTGGAATTAGTGGC-ATTCA-CGATAAATCGCCGCTAAAGCATATT
62 ATGTATA-TATAGTTAGTGGCGCTT-ATGGA-AAA-CGCCGCTAAAGCATAAC
* * ** *
29210880 ATTAGCGGCGCTTTTTGGTAAGCGCCGCAAAATATCTTAACCAAAACGCA-CAGTTTTGGTCTT
1 ATTAGTGGCGCTTCTCAG-AAGCGCCGC-AAATTTCTTAACCAAAACGCAGC-G-TTTGGTCTT
29210943 AACCATGCAT
Statistics
Matches: 395, Mismatches: 83, Indels: 84
0.70 0.15 0.15
Matches are distributed among these distances:
111 1 0.00
112 6 0.02
113 45 0.11
114 170 0.43
115 158 0.40
116 12 0.03
117 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (110 bp):
ATTAGTGGCGCTTCTCAGAAGCGCCGCAAATTTCTTAACCAAAACGCAGCGTTTGGTCTTGATGT
ATATATAGTTAGTGGCGCTTATGGAAAACGCCGCTAAAGCATAAC
Found at i:29210732 original size:229 final size:227
Alignment explanation
Indices: 29210309--29210775 Score: 598
Period size: 229 Copynumber: 2.0 Consensus size: 227
29210299 GTATATTAGA
*
29210309 ATTAGTGGCGCTTCATAGAAGCGCCGCAAAAAATGTTAACCAAAACGCAGCGGTTTGGTCTCGAT
1 ATTAGTGGCGCTTCATAGAAGCGCCGCAAAAAATCTTAACCAAAACGCAGCGGTTTGGTCTCGAT
* * * * *
29210374 GTATAATACAATTAGTGGCGTTAGGGGAAAACGCTGCTAAAGCATAACATTCGCGGCGATTTTCT
66 GTATAATACAATTAGTGGCGTTAGGAGAAAACGCCGCTAAAGAATAACATTAGCGGCGATTTTCG
* * *
29210439 AGAATCGCCACAAGATATGCACACCAAAACGCAGAGTTTGGTGTTGAGGTATATTAGGATTAGTG
131 AGAAGCGCCACAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTG
* * *
29210504 GCGCTTACTGTAAAACGCCGCTAAAGCGTACT
196 GCGCTGACTGGAAAACGCCGCTAAAGCATACT
* ** * * *
29210536 ATTAGTGGCGCTTC-TCCAGAAGCGCCGCTAAATTTCTTAACCAAAACTCAGCGTTTTGGTCTTG
1 ATTAGTGGCGCTTCAT--AGAAGCGCCGCAAAAAATCTTAACCAAAACGCAGCGGTTTGGTCTCG
* * * * * * **
29210600 ATGTATACTATAGTTAGTGGCGCTTATGAGAAAATGCCGCTAAATAATAGTATTAGCGGCGA-TT
64 ATGTATAATACAATTAGTGGCG-TTAGGAGAAAACGCCGCTAAAGAATAACATTAGCGGCGATTT
*
29210664 T-GAGTTAAGCGCCGCAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAAT
128 TCGAG--AAGCGCCACAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAAT
* *
29210728 TAGTGGCGCTGATTGGAAAACGCCGCTAAAGTATACT
191 TAGTGGCGCTGACTGGAAAACGCCGCTAAAGCATACT
*
29210765 ATTAGCGGCGC
1 ATTAGTGGCGC
29210776 GTTTTTAGAT
Statistics
Matches: 205, Mismatches: 30, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
226 1 0.00
227 16 0.08
228 62 0.30
229 126 0.61
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (227 bp):
ATTAGTGGCGCTTCATAGAAGCGCCGCAAAAAATCTTAACCAAAACGCAGCGGTTTGGTCTCGAT
GTATAATACAATTAGTGGCGTTAGGAGAAAACGCCGCTAAAGAATAACATTAGCGGCGATTTTCG
AGAAGCGCCACAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAGTG
GCGCTGACTGGAAAACGCCGCTAAAGCATACT
Found at i:29210830 original size:229 final size:229
Alignment explanation
Indices: 29210309--29210942 Score: 565
Period size: 229 Copynumber: 2.8 Consensus size: 229
29210299 GTATATTAGA
* * * * ** *
29210309 ATTAGTGGCGCTTCAT--AGAAGCGCCGCAAAAAATGTTAACCAAAACGCAGCGGTTT-GGTCTC
1 ATTAGCGGCGCTTC-TCCAGAAGCGCCGCTAAATATATTAACCAAAACGCAGC-GTTTAAATCTT
* * * * * * * ** *
29210371 GATGTATAATACAATTAGTGGCGTT-AGGGGAAAA-CGCTGCTAAAGCATAACATTCGCGGCGAT
64 GATGTATACTAGAATTAGTGGCATTCA-CGAAAAATCGCCGCTAAAGAATAGTATTAGCGGCGA-
* * * * *
29210434 TTTCTA-G-AATCGCCACAAGATATGCACACCAAAACGCAGAGTTTGGTGTTGAGGTATATTAGG
127 TTT-GAGGTAAGCGCCGCAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGA
* * *
29210497 ATTAGTGGCGCTTACTGTAAAACGCCGCTAAAGCGTACT
191 ATTAGTGGCGCTGACTGGAAAACGCCGCTAAAGCATACT
* * * * ***
29210536 ATTAGTGGCGCTTCTCCAGAAGCGCCGCTAAATTTCTTAACCAAAACTCAGCGTTTTGGTCTTGA
1 ATTAGCGGCGCTTCTCCAGAAGCGCCGCTAAATATATTAACCAAAACGCAGCGTTTAAATCTTGA
* * * * *
29210601 TGTATACTATAGTTAGTGGCGCTT-ATGAGAAAAT-GCCGCTAAATAATAGTATTAGCGGCGATT
66 TGTATACTAGAATTAGTGGC-ATTCACGA-AAAATCGCCGCTAAAGAATAGTATTAGCGGCGATT
*
29210664 TGAGTTAAGCGCCGCAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATT
129 TGAGGTAAGCGCCGCAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATT
* *
29210729 AGTGGCGCTGATTGGAAAACGCCGCTAAAGTATACT
194 AGTGGCGCTGACTGGAAAACGCCGCTAAAGCATACT
** * * ** *
29210765 ATTAGCGGCGCGTT-TTTAGATGCGTCGC-AGAATATATTAACTGAAACGCTGCGTTTAAATCTT
1 ATTAGCGGCGC-TTCTCCAGAAGCGCCGCTA-AATATATTAACCAAAACGCAGCGTTTAAATCTT
* * * * *
29210828 GATGTATACTGGAATTAGTGGCATTCACGATAAATCGCCGCTAAAGCATATTATTAGCGGCGCTT
64 GATGTATACTAGAATTAGTGGCATTCACGAAAAATCGCCGCTAAAGAATAGTATTAGCGGCGATT
** * *
29210893 TTTGGTAAGCGCCGCAAAATAT-CTTA-ACCAAAACGCACAGTTTTGGTCTT
129 TGAGGTAAGCGCCGCAAGATATGC--ACACCAAAACGCAGAG-TTTGGTCTT
29210943 AACCATGCAT
Statistics
Matches: 334, Mismatches: 58, Indels: 27
0.80 0.14 0.06
Matches are distributed among these distances:
226 1 0.00
227 19 0.06
228 66 0.20
229 236 0.71
230 12 0.04
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (229 bp):
ATTAGCGGCGCTTCTCCAGAAGCGCCGCTAAATATATTAACCAAAACGCAGCGTTTAAATCTTGA
TGTATACTAGAATTAGTGGCATTCACGAAAAATCGCCGCTAAAGAATAGTATTAGCGGCGATTTG
AGGTAAGCGCCGCAAGATATGCACACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGAATTAG
TGGCGCTGACTGGAAAACGCCGCTAAAGCATACT
Found at i:29211278 original size:21 final size:22
Alignment explanation
Indices: 29211256--29211306 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
29211246 ATGGTGTTTT
29211256 GGGTTTAGAG-TTTAAGAGTTTG
1 GGGTTTAGAGATTTAAGA-TTTG
*
29211278 GGGTTTA-AGATTTAGGATTTG
1 GGGTTTAGAGATTTAAGATTTG
29211299 GGGTTTAG
1 GGGTTTAG
29211307 GCTACTTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (22 bp):
GGGTTTAGAGATTTAAGATTTG
Found at i:29211281 original size:22 final size:23
Alignment explanation
Indices: 29211251--29211306 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
29211241 GGGTTATGGT
*
29211251 GTTTTGGGTTTAGAG-TTTAAGA
1 GTTTGGGGTTTAGAGATTTAAGA
*
29211273 GTTTGGGGTTTA-AGATTTAGGA
1 GTTTGGGGTTTAGAGATTTAAGA
29211295 -TTTGGGGTTTAG
1 GTTTGGGGTTTAG
29211307 GCTACTTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.20, C:0.00, G:0.36, T:0.45
Consensus pattern (23 bp):
GTTTGGGGTTTAGAGATTTAAGA
Found at i:29212167 original size:44 final size:44
Alignment explanation
Indices: 29212117--29212210 Score: 161
Period size: 44 Copynumber: 2.1 Consensus size: 44
29212107 AATTCTTGCG
* *
29212117 TCCTTCTTGCCCAATTTCTTGAATTCCCAAATCCGTAAATCGCC
1 TCCTTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCC
*
29212161 TCCTTCTTGCCGAATTTCTTGAAATCCCAAATCCCTAAATCGCC
1 TCCTTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCC
29212205 TCCTTC
1 TCCTTC
29212211 CTCCTTCCAG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.22, C:0.35, G:0.09, T:0.34
Consensus pattern (44 bp):
TCCTTCTTGCCCAATTTCTTGAAATCCCAAATCCCTAAATCGCC
Found at i:29214219 original size:12 final size:12
Alignment explanation
Indices: 29214199--29214237 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
29214189 AAACGTAGTG
29214199 TAACTTACATAA
1 TAACTTACATAA
*
29214211 TATCTTACATAA
1 TAACTTACATAA
29214223 TAACTTACATAA
1 TAACTTACATAA
29214235 TAA
1 TAA
29214238 TACATACCGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (12 bp):
TAACTTACATAA
Found at i:29214334 original size:96 final size:94
Alignment explanation
Indices: 29214146--29214426 Score: 346
Period size: 87 Copynumber: 3.0 Consensus size: 94
29214136 NNNNNNNNNN
* **
29214146 TACCCTACATAAATTAAATAAGTTACATAATATACAAAAACAAAAACGTAGTGTAACTTACATAA
1 TACCCTACATAAATTAAATAAGTTACA-AATA-ACAAAAACAAAAACTTA-CATAACTTACATAA
* *
29214211 TATCTTACATA-ATAACTTACATA-ATAATACA
63 TATCTTACATATATAA-TGACTTACATAATACA
*
29214242 TACCGTACATAAATTAAATAAGTTACAAATTACACAAAAACAAAAACTTACATAACTTACATAAT
1 TACCCTACATAAATTAAATAAGTTACAAA-TA-ACAAAAACAAAAACTTACATAACTTACATAAT
29214307 ATCTTACATATATAATGACTTACATAATACA
64 ATCTTACATATATAATGACTTACATAATACA
*** * *
29214338 TAATTTACAT-AACTACATAAG--AC----AACAAAAACAAAAACTTACATAACTTACATAATAT
1 TACCCTACATAAATTAAATAAGTTACAAATAACAAAAACAAAAACTTACATAACTTACATAATAT
29214396 CTTACATATATAATGACTTACATAATACA
66 CTTACATATATAATGACTTACATAATACA
29214425 TA
1 TA
29214427 ATTTACATAA
Statistics
Matches: 170, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
87 65 0.38
88 1 0.01
93 2 0.01
95 39 0.23
96 63 0.37
ACGTcount: A:0.51, C:0.16, G:0.03, T:0.29
Consensus pattern (94 bp):
TACCCTACATAAATTAAATAAGTTACAAATAACAAAAACAAAAACTTACATAACTTACATAATAT
CTTACATATATAATGACTTACATAATACA
Found at i:29214368 original size:87 final size:88
Alignment explanation
Indices: 29214275--29214449 Score: 343
Period size: 87 Copynumber: 2.0 Consensus size: 88
29214265 TACAAATTAC
29214275 ACAAAAACAAAAACTTACATAACTTACATAATATCTTACATATATAATGACTTACATAATACATA
1 ACAAAAACAAAAACTTACATAACTTACATAATATCTTACATATATAATGACTTACATAATACATA
29214340 ATTTACATAAC-TACATAAGACA
66 ATTTACATAACTTACATAAGACA
29214362 ACAAAAACAAAAACTTACATAACTTACATAATATCTTACATATATAATGACTTACATAATACATA
1 ACAAAAACAAAAACTTACATAACTTACATAATATCTTACATATATAATGACTTACATAATACATA
29214427 ATTTACATAACTTACATAAGACA
66 ATTTACATAACTTACATAAGACA
29214450 TAACTTACAT
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
87 76 0.87
88 11 0.13
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.29
Consensus pattern (88 bp):
ACAAAAACAAAAACTTACATAACTTACATAATATCTTACATATATAATGACTTACATAATACATA
ATTTACATAACTTACATAAGACA
Found at i:29214385 original size:9 final size:9
Alignment explanation
Indices: 29214373--29214524 Score: 119
Period size: 9 Copynumber: 17.7 Consensus size: 9
29214363 CAAAAACAAA
29214373 AACTTACAT
1 AACTTACAT
29214382 AACTTACAT
1 AACTTACAT
29214391 AATATCTTACAT
1 -A-A-CTTACAT
29214403 -A-TATA-AT
1 AACT-TACAT
*
29214410 GACTTACAT
1 AACTTACAT
29214419 AA--TACAT
1 AACTTACAT
*
29214426 AATTTACAT
1 AACTTACAT
29214435 AACTTACAT
1 AACTTACAT
*
29214444 AA--GACAT
1 AACTTACAT
29214451 AACTTACAT
1 AACTTACAT
* *
29214460 AAGTTTCAT
1 AACTTACAT
*
29214469 AA--TACAC
1 AACTTACAT
*
29214476 AACTTACAC
1 AACTTACAT
*
29214485 AACTTACAC
1 AACTTACAT
29214494 AACTTACAT
1 AACTTACAT
29214503 AACTTACAT
1 AACTTACAT
29214512 AA--TACAT
1 AACTTACAT
29214519 AACTTA
1 AACTTA
29214525 TTCCTAAATC
Statistics
Matches: 119, Mismatches: 9, Indels: 30
0.75 0.06 0.19
Matches are distributed among these distances:
7 28 0.24
8 5 0.04
9 77 0.65
10 1 0.01
11 1 0.01
12 7 0.06
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:29214445 original size:25 final size:25
Alignment explanation
Indices: 29214290--29214520 Score: 138
Period size: 25 Copynumber: 9.0 Consensus size: 25
29214280 AACAAAAACT
29214290 TACATAACTTACATAATATCTTACATATA
1 TACATAACTTACAT-A-A-CTTACATA-A
*
29214319 TA-ATGACTTACATAA--TACATAA
1 TACATAACTTACATAACTTACATAA
*
29214341 TTTACATAAC-TACATAAGAC-AACA-AA
1 --TACATAACTTACAT-A-ACTTACATAA
* *
29214367 AACAAAAACTTACATAACTTACATAA
1 TAC-ATAACTTACATAACTTACATAA
* * *
29214393 TATC-TTACATATATAATGACTTACATAA
1 TA-CATAAC-T-TA-CATAACTTACATAA
*
29214421 TACATAATTTACATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* * *
29214446 GACATAACTTACATAAGTTTCATAA
1 TACATAACTTACATAACTTACATAA
* * *
29214471 TACACAACTTACACAACTTACACAA
1 TACATAACTTACATAACTTACATAA
29214496 CTTACATAACTTACATAA--TACATAA
1 --TACATAACTTACATAACTTACATAA
29214521 CTTATTCCTA
Statistics
Matches: 157, Mismatches: 28, Indels: 38
0.70 0.13 0.17
Matches are distributed among these distances:
22 1 0.01
23 6 0.04
24 11 0.07
25 73 0.46
26 15 0.10
27 23 0.15
28 26 0.17
29 2 0.01
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:29214470 original size:34 final size:33
Alignment explanation
Indices: 29214414--29214524 Score: 104
Period size: 34 Copynumber: 3.3 Consensus size: 33
29214404 TATAATGACT
29214414 TACATAA--TACATAATTTACATAACTTACATAA
1 TACATAACTTACATAATTT-CATAACTTACATAA
* *
29214446 GACATAACTTACATAAGTTTCATAA--TACACAA
1 TACATAACTTACATAA-TTTCATAACTTACATAA
* * *
29214478 CTTACACAACTTACACAACTTACATAACTTACATAA
1 --TACATAACTTACATAA-TTTCATAACTTACATAA
29214514 TACATAACTTA
1 TACATAACTTA
29214525 TTCCTAAATC
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
32 12 0.19
34 42 0.67
35 3 0.05
36 6 0.10
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.31
Consensus pattern (33 bp):
TACATAACTTACATAATTTCATAACTTACATAA
Found at i:29214519 original size:16 final size:16
Alignment explanation
Indices: 29214290--29214524 Score: 99
Period size: 16 Copynumber: 14.7 Consensus size: 16
29214280 AACAAAAACT
29214290 TACATAACTTACATAA
1 TACATAACTTACATAA
29214306 T--AT--CTTACATATA
1 TACATAACTTACATA-A
*
29214319 TA-ATGACTTACATAA
1 TACATAACTTACATAA
*
29214334 TACATAATTTACATAA
1 TACATAACTTACATAA
*
29214350 CTACATAAGAC-AACA-AA
1 -TACAT-A-ACTTACATAA
* *
29214367 AACAAAAACTTACATAA
1 TAC-ATAACTTACATAA
29214384 CTTACATAATATCTTACATATA
1 --TACAT-A-A-CTTACATA-A
*
29214406 TA-ATGACTTACATAA
1 TACATAACTTACATAA
29214421 TACATAA--T---T--
1 TACATAACTTACATAA
29214430 TACATAACTTACATAA
1 TACATAACTTACATAA
*
29214446 GACATAACTTACATAA
1 TACATAACTTACATAA
* *
29214462 GTTTCATAA--TACACAA
1 --TACATAACTTACATAA
* *
29214478 CTTACACAACTTACACAA
1 --TACATAACTTACATAA
29214496 CTTACATAACTTACATAA
1 --TACATAACTTACATAA
29214514 TACATAACTTA
1 TACATAACTTA
29214525 TTCCTAAATC
Statistics
Matches: 170, Mismatches: 20, Indels: 58
0.69 0.08 0.23
Matches are distributed among these distances:
9 7 0.04
11 2 0.01
12 8 0.05
13 2 0.01
14 6 0.04
15 8 0.05
16 75 0.44
17 11 0.06
18 33 0.19
19 6 0.04
20 3 0.02
21 8 0.05
22 1 0.01
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:29221669 original size:43 final size:43
Alignment explanation
Indices: 29221621--29221785 Score: 248
Period size: 43 Copynumber: 3.9 Consensus size: 43
29221611 GTTTGTGAAA
29221621 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTCTTCC
* * *
29221664 CAAGCGCCACTAAAGAACATGATCTTTAGCGGCGTTTTCCTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTTCC
29221707 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTT-TTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTTCC
*
29221748 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCTTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT
29221786 TTTTGTAAGC
Statistics
Matches: 112, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
41 36 0.32
42 7 0.06
43 68 0.61
44 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (43 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCTTCC
Found at i:29221798 original size:84 final size:86
Alignment explanation
Indices: 29221621--29221785 Score: 257
Period size: 84 Copynumber: 1.9 Consensus size: 86
29221611 GTTTGTGAAA
29221621 TAAGCGCCGCTAAAGAACACTACTTTTAGCGGCGTTTTCTTCCCAAGCGCCACTAAAGAACATGA
1 TAAGCGCCGCTAAAGAACACTACTTTTAGCGGCGTTTTCTTCCCAAGCGCCACTAAAGAACATGA
29221686 TCTTTAGCGGCGTTTTCCTCC
66 TCTTTAGCGGCGTTTTCCTCC
* *
29221707 TAAGCGCCGCTAAAGAACA-TGA-TCTTTAGCGGCG-TTT-TTCCTAAGCGCCGCTAAAGAACAT
1 TAAGCGCCGCTAAAGAACACT-ACT-TTTAGCGGCGTTTTCTTCCCAAGCGCCACTAAAGAACAT
*
29221768 GATCTTTAGCGGCTTTTT
64 GATCTTTAGCGGCGTTTT
29221786 TTTTGTAAGC
Statistics
Matches: 74, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
84 39 0.53
85 5 0.07
86 30 0.41
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (86 bp):
TAAGCGCCGCTAAAGAACACTACTTTTAGCGGCGTTTTCTTCCCAAGCGCCACTAAAGAACATGA
TCTTTAGCGGCGTTTTCCTCC
Found at i:29223984 original size:43 final size:43
Alignment explanation
Indices: 29223906--29224013 Score: 162
Period size: 43 Copynumber: 2.5 Consensus size: 43
29223896 ACATCCAGAC
**
29223906 ATGGTCTTACATGGAAATCTCGTATAGATGCCAATAGCCCAGCT
1 ATGGTCTTACAT-GAAATCTCAAATAGATGCCAATAGCCCAGCT
* *
29223950 ATGGTCTTACATGAAATCTCAAATCGATGTCAATAGCCCAGCT
1 ATGGTCTTACATGAAATCTCAAATAGATGCCAATAGCCCAGCT
*
29223993 ATGGTCTTACACGAAATCTCA
1 ATGGTCTTACATGAAATCTCA
29224014 CCTCAGAAGT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
43 47 0.80
44 12 0.20
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACATGAAATCTCAAATAGATGCCAATAGCCCAGCT
Found at i:29224201 original size:30 final size:30
Alignment explanation
Indices: 29224128--29224210 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 30
29224118 ATCCAATGCT
* *
29224128 CAAATCAATCCGGCAATATATATCCATATA
1 CAAATCAATTCGGCAATATATATCCACATA
* *
29224158 CGAATCAAATTCGGCAATATATATCTACATA
1 CAAATC-AATTCGGCAATATATATCCACATA
* *
29224189 CAAATCAATTCGGTAATGTATA
1 CAAATCAATTCGGCAATATATA
29224211 AAACATATAC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 19 0.42
31 26 0.58
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (30 bp):
CAAATCAATTCGGCAATATATATCCACATA
Found at i:29229740 original size:63 final size:63
Alignment explanation
Indices: 29229673--29229951 Score: 474
Period size: 63 Copynumber: 4.4 Consensus size: 63
29229663 TTATTAATTA
29229673 TTATTTTTATTAATTCATATTTTAATAATAATTATATTACGAATGTAATTAAATTATATATTT
1 TTATTTTTATTAATTCATATTTTAATAATAATTATATTACGAATGTAATTAAATTATATATTT
*
29229736 TTATTTTTATTAATTCATATTTTAATAATAATTATATTACGAATGTAATTAAATTATATATTA
1 TTATTTTTATTAATTCATATTTTAATAATAATTATATTACGAATGTAATTAAATTATATATTT
29229799 TTATTTTTATTAATTCATATTTTAATAATAATTATATTACGAATGTAATTAAATTATATATTT
1 TTATTTTTATTAATTCATATTTTAATAATAATTATATTACGAATGTAATTAAATTATATATTT
* ** *
29229862 TTATTTTTATTAATTCATATTTTAATAATAATCATATTAATAATGTTAA-TAAATTAAATATTT
1 TTATTTTTATTAATTCATATTTTAATAATAATTATATTACGAATG-TAATTAAATTATATATTT
29229925 TTATTTTTATTAAATT-ATA-TTTAATAA
1 TTATTTTTATT-AATTCATATTTTAATAA
29229952 AAATCCTATT
Statistics
Matches: 208, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
62 8 0.04
63 193 0.93
64 7 0.03
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (63 bp):
TTATTTTTATTAATTCATATTTTAATAATAATTATATTACGAATGTAATTAAATTATATATTT
Found at i:29232850 original size:2 final size:2
Alignment explanation
Indices: 29232845--29232869 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
29232835 TTAAAATTAA
29232845 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
29232870 AGACAAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:29233031 original size:3 final size:3
Alignment explanation
Indices: 29233023--29233064 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
29233013 TGACTACACC
29233023 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
29233065 ATTTTTGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:29233840 original size:21 final size:21
Alignment explanation
Indices: 29233814--29233869 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
29233804 AACAGTGGTG
* *
29233814 GCGGTGAGATTAGTTATTGTA
1 GCGGTGAGATTAGATACTGTA
*
29233835 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
29233856 ACGGTGAGATTAGA
1 GCGGTGAGATTAGA
29233870 AACAATTGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.36, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:29234771 original size:15 final size:16
Alignment explanation
Indices: 29234750--29234790 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
29234740 TTAATTTTTA
29234750 AAAATTATAAAGATA-T
1 AAAATTATAAA-ATAGT
29234766 -AAATTATTAAAATAGT
1 AAAATTA-TAAAATAGT
29234782 AAAATTATA
1 AAAATTATA
29234791 TTTTTACTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 9 0.41
16 7 0.32
17 6 0.27
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (16 bp):
AAAATTATAAAATAGT
Found at i:29236354 original size:9 final size:9
Alignment explanation
Indices: 29236337--29236373 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
29236327 TGAGTTTTCG
29236337 AATTCGAAT
1 AATTCGAAT
*
29236346 AACTCGAAT
1 AATTCGAAT
29236355 AATTCGAAT
1 AATTCGAAT
29236364 AATTCGAAT
1 AATTCGAAT
29236373 A
1 A
29236374 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:29237079 original size:53 final size:55
Alignment explanation
Indices: 29236952--29237087 Score: 174
Period size: 53 Copynumber: 2.5 Consensus size: 55
29236942 NNNGCCCCTA
* * * *
29236952 AAAAATTTTACTTCCCCCTAAACCCC--CAATTTTTTTCTTTTTTACTTTCTCCCC
1 AAAACTTTTACTTCCACC-AAACCCCAAAAATATTTTTCTTTTTTACTTTCTCCCC
*
29237006 AAAACTTTTACTT-CTCCAAACCCCAAAAATATTTTTC-TTTTTACTTT-TCCCC
1 AAAACTTTTACTTCCACCAAACCCCAAAAATATTTTTCTTTTTTACTTTCTCCCC
*
29237058 AAAACTTTTACTTCCACCAAACCTCAAAAA
1 AAAACTTTTACTTCCACCAAACCCCAAAAA
29237088 CTTTTTTTTG
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
52 25 0.34
53 27 0.37
54 21 0.29
ACGTcount: A:0.30, C:0.31, G:0.00, T:0.39
Consensus pattern (55 bp):
AAAACTTTTACTTCCACCAAACCCCAAAAATATTTTTCTTTTTTACTTTCTCCCC
Found at i:29240068 original size:17 final size:16
Alignment explanation
Indices: 29240042--29240073 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
29240032 ATATATAATT
29240042 AAAAAATAATTACATA
1 AAAAAATAATTACATA
29240058 AAAATAATAATTACAT
1 AAAA-AATAATTACAT
29240074 CCTAAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAAATAATTACATA
Found at i:29241826 original size:173 final size:173
Alignment explanation
Indices: 29241617--29242118 Score: 531
Period size: 173 Copynumber: 2.9 Consensus size: 173
29241607 ATCCACTCCA
* * * *
29241617 CTGCAACTTCAG-GAAGATAGGAT-TATCGGCTTTAATCTGCTCCACTGAAACTTCAG-GGAGAT
1 CTGCAACTTCAGAG-AGATAAGATCTA-AGGTTTTAATCTGC-CCACTGCAACTTCAGCGG-GAT
* * * *
29241679 AAGATTTGCCATCTTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAAACTTG-CTTACTT-A
62 AAGA-TTACCAGCTTCAATCTGCTC-CACTGCAACTTCAGGGA-GATAAAACTTGTCAT-CTTCA
* * * * *
29241740 GTCCG-TTCCACTGCAACTTCAG--GGAGATAAGATTAGATGCGATCTGCTTT
123 GTCCGCCT-CACTGCAACTTCAGAAGGATA-AAGACTAAATGCGATCTGCTCT
*
29241790 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTGCCCACTGCAACTTCAGCGGGATAGGA
1 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTGCCCACTGCAACTTCAGCGGGATAAGA
* * * * *
29241855 TTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCT
66 TTACCAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAACTTGTCATCTTCAGTCCGCCT
*
29241920 CACTGCAACTTCAGAAGGATAAAGACTAAATGGGATCTGCTCT
131 CACTGCAACTTCAGAAGGATAAAGACTAAATGCGATCTGCTCT
* * *
29241963 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCCCACTGCAACTTCAGCAGGATAGGA
1 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTGCCCACTGCAACTTCAGCGGGATAAGA
* * * * * * ** *
29242028 TTACCGGCTTTAATCTGCTCTACTGTAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTGCCT
66 TTACCAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAACTTGTCATCTTCAGTCCGCCT
* *
29242093 CACTGTAACTTCAGGAGGAT-AAGACT
131 CACTGCAACTTCAGAAGGATAAAGACT
29242119 TGCTTACTTA
Statistics
Matches: 291, Mismatches: 28, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
171 38 0.13
172 51 0.18
173 195 0.67
174 7 0.02
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (173 bp):
CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTGCCCACTGCAACTTCAGCGGGATAAGA
TTACCAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAACTTGTCATCTTCAGTCCGCCT
CACTGCAACTTCAGAAGGATAAAGACTAAATGCGATCTGCTCT
Found at i:29241982 original size:86 final size:86
Alignment explanation
Indices: 29241781--29242118 Score: 258
Period size: 87 Copynumber: 3.9 Consensus size: 86
29241771 ATTAGATGCG
* * * ** * *
29241781 ATCTGCTTTCTGCAACTTCAGAGAGATAAGATCTAAGGT-TTTAATCTGCC-CACTGCAACTTCA
1 ATCTGCTCTCTGCAACTTCAGGGAGATAAGATTTAACATCTTCAGTCTGCCTCACTGCAACTTCA
** * * *
29241844 GCGGGATAGGA-TTACCGGCTTTA
66 GAAGGATAAGACTAAACGG---TA
* **
29241867 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTC
1 ATCTGCT-CTCTGCAACTTCAGGGAGATAAGATTTAACATCTTCAGTCTGCCTCACTGCAACTTC
* *
29241932 AGAAGGATAAAGACTAAATGG-G
65 AGAAGGAT-AAGACTAAACGGTA
* * ** * * *
29241954 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGT-TTTAATCCGCC-CACTGCAACTTCA
1 ATCTGCTCTCTGCAACTTCAGGGAGATAAGATTTAACATCTTCAGTCTGCCTCACTGCAACTTCA
* * * *
29242017 GCAGGATAGGA-TTACCGGCTTTA
66 GAAGGATAAGACTAAACGG---TA
* * *
29242040 ATCTGCTCTACTGTAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTGCCTCACTGTAACTTC
1 ATCTGCTCT-CTGCAACTTCAGGGAGATAAGATTTAACATCTTCAGTCTGCCTCACTGCAACTTC
*
29242105 AGGAGGATAAGACT
65 AGAAGGATAAGACT
29242119 TGCTTACTTA
Statistics
Matches: 194, Mismatches: 45, Indels: 22
0.74 0.17 0.08
Matches are distributed among these distances:
82 4 0.02
83 3 0.02
84 19 0.10
85 8 0.04
86 41 0.21
87 55 0.28
88 17 0.09
89 39 0.20
90 4 0.02
91 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (86 bp):
ATCTGCTCTCTGCAACTTCAGGGAGATAAGATTTAACATCTTCAGTCTGCCTCACTGCAACTTCA
GAAGGATAAGACTAAACGGTA
Found at i:29242012 original size:216 final size:214
Alignment explanation
Indices: 29241568--29242289 Score: 698
Period size: 216 Copynumber: 3.3 Consensus size: 214
29241558 AATACGATCT
* * * * * ** *
29241568 GCCCTCTGCAACTTTAAAGAGATAAGA-TCCAAGGTTTTAATCCACTCCACTGCAACTTCAGGAA
1 GCCCACTGCAACTTCAGAGAGATAAGATTAC-AGGCTTTAATCTGCTCCACTGCAACTTCAGG-G
*
29241632 GATAGGATTATCGGCTTTAATCTGCTCCACTGAAACTTCAGGGAGATAAGATTTGCCATCTTCAG
64 GATAGGATTACCGGCTTTAATCTGCTCCACTGAAACTTCAGGGAGATAAGATTTG-CATCTTCAG
* * * * * *
29241697 TCTGCCTCACTGCAACTTCAGGAGGATAAA-ACTTGCTTACTTAG-TCCGTTCCACTGCAACTTC
128 TCTGCCTCACTGCAACTTCA-GAGGATAAAGA----CTAAATGAGATCTGCT-CTCTGCAACTTC
* * *** *
29241760 AGGGAGATAAGAT-T-A-GATGCGATCT
187 AGAGAGATAAGATCTAAGGTTTTAATCC
*** *
29241785 GCTTTCTGCAACTTCAGAGAGATAAGATCTA-AGGTTTTAATCTGC-CCACTGCAACTTCAGCGG
1 GCCCACTGCAACTTCAGAGAGATAAGAT-TACAGGCTTTAATCTGCTCCACTGCAACTTCAG-GG
*
29241848 GATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAG
64 GATAGGATTACCGGCTTTAATCTGCTCCACTGAAACTTCAGGGAGATAAGATTTG-CATCTTCAG
*
29241913 TCTGCCTCACTGCAACTTCAGAAGGATAAAGACTAAATGGGATCTGCTCTCTGCAACTTCAGAGA
128 TCTGCCTCACTGCAACTTCAG-AGGATAAAGACTAAATGAGATCTGCTCTCTGCAACTTCAGAGA
29241978 GATAAGATCTAAGGTTTTAATCC
192 GATAAGATCTAAGGTTTTAATCC
* * * *
29242001 GCCCACTGCAACTTCAGCAG-GATAGGATTACCGGCTTTAATCTGCTCTACTGTAACTTCAGGGA
1 GCCCACTGCAACTTCAG-AGAGATAAGATTACAGGCTTTAATCTGCTCCACTGCAACTTCAGGG-
* ** * * * * *
29242065 GATAAGATTTACCATCTTCAGTCTGC-CTCACTGTAACTTCA-GGAGGATAAGACTTGCTTACTT
64 GATAGGA-TTACCGGCTTTAATCTGCTC-CACTGAAACTTCAGGGA-GATAAGATTTGCAT-CTT
* * * *
29242128 -AGTCTG-CTCCACTGCAACTTCAGAGAGAT-AAGACTAGATGCGATCTGCTTTCTACAACTTCA
125 CAGTCTGCCT-CACTGCAACTTCAGAG-GATAAAGACTAAATGAGATCTGCTCTCTGCAACTTCA
29242190 GAGAGATAAGATCTAAGGTTTTAATCC
188 GAGAGATAAGATCTAAGGTTTTAATCC
* * * * * *
29242217 GCCCACTGTAACTTTAGCGGGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
1 GCCCACTGCAACTTCAGAGAGATAAGATTACAGGCTTTAATCTGCTCCACTGCAACTTCAGGG-G
*
29242282 ATAAGATT
65 ATAGGATT
29242290 TGCCATCTTC
Statistics
Matches: 436, Mismatches: 49, Indels: 42
0.83 0.09 0.08
Matches are distributed among these distances:
213 28 0.06
214 5 0.01
215 7 0.02
216 269 0.62
217 87 0.20
218 39 0.09
219 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (214 bp):
GCCCACTGCAACTTCAGAGAGATAAGATTACAGGCTTTAATCTGCTCCACTGCAACTTCAGGGGA
TAGGATTACCGGCTTTAATCTGCTCCACTGAAACTTCAGGGAGATAAGATTTGCATCTTCAGTCT
GCCTCACTGCAACTTCAGAGGATAAAGACTAAATGAGATCTGCTCTCTGCAACTTCAGAGAGATA
AGATCTAAGGTTTTAATCC
Found at i:29242106 original size:89 final size:88
Alignment explanation
Indices: 29241781--29242160 Score: 328
Period size: 89 Copynumber: 4.4 Consensus size: 88
29241771 ATTAGATGCG
* * * ** * *
29241781 ATCTGCT-TTCTGCAACTTCAGAGAGATAAGATCTAAGGT-TTTAATCTGCCCACTGCAACTTCA
1 ATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTAACATCTTCAGTCTGCCCACTGCAACTTCA
*
29241844 GCGGGATAGGATTACCGGCTTTA
66 GCAGGATAGGATTACCGGCTTTA
* **
29241867 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTC
1 ATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTAACATCTTCAGTCTGCC-CACTGCAACTTC
* * * ** *
29241932 AGAAGGATAAAGACTAAATGG----G
65 AGCAGGAT-AGGA-TTACCGGCTTTA
* * ** * * *
29241954 ATCTGCTCT-CTGCAACTTCAGAGAGATAAGATCTAAGGT-TTTAATCCGCCCACTGCAACTTCA
1 ATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTAACATCTTCAGTCTGCCCACTGCAACTTCA
29242017 GCAGGATAGGATTACCGGCTTTA
66 GCAGGATAGGATTACCGGCTTTA
* * *
29242040 ATCTGCTCTACTGTAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTGCCTCACTGTAACTTC
1 ATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTAACATCTTCAGTCTGCC-CACTGCAACTTC
* * * ***
29242105 AGGAGGATAAGACTTGCTTAC-TTA
65 AGCAGGATAGGA-TTACCGGCTTTA
* * *
29242129 GTCTGCTCCACTGCAACTTCAGAGAGATAAGA
1 ATCTGCTCTACTGCAACTTCAGGGAGATAAGA
29242161 CTAGATGCGA
Statistics
Matches: 228, Mismatches: 53, Indels: 23
0.75 0.17 0.08
Matches are distributed among these distances:
82 4 0.02
83 3 0.01
84 19 0.08
85 8 0.04
86 40 0.18
87 56 0.25
88 17 0.07
89 70 0.31
90 7 0.03
91 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (88 bp):
ATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTAACATCTTCAGTCTGCCCACTGCAACTTCA
GCAGGATAGGATTACCGGCTTTA
Found at i:29242188 original size:173 final size:172
Alignment explanation
Indices: 29241790--29242505 Score: 526
Period size: 173 Copynumber: 4.1 Consensus size: 172
29241780 GATCTGCTTT
* *** * * *
29241790 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTGCCCACTGCAACTTCAGCGGGATAGGA
1 CTGCAACTTCAGAGAGATAAGA-CT-A-GATGCGATCTGCTCTCTGCAACTTCAGCAGGATAGGA
* **
29241855 TTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCT
63 TTACCGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTGCCT
* * ** *
29241920 CACTGCAACTTCAGAAGGATAA-A--GACTAAATGGGATCTGCT-CT
128 CACTGCAACTTCAGGAGGATAAGATTG-CTAACTTAG-TCTGCTCCA
* *** * * *
29241963 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCCCACTGCAACTTCAGCAGGATAGGA
1 CTGCAACTTCAGAGAGATAAGA-CT-A-GATGCGATCTGCTCTCTGCAACTTCAGCAGGATAGGA
*
29242028 TTACCGGCTTTAATCTGCTCTACTGTAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTGCCT
63 TTACCGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTGCCT
* *
29242093 CACTGTAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCA
128 CACTGCAACTTCAGGAGGATAAGA-TTGCTAACTTAGTCTGCTCCA
* * *
29242139 CTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTTTCTACAACTTCAG-AGAGATAAGATC
1 CTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGCAG-GATAGGAT-
* * * * * ** * *
29242203 TA-AGGTTTTAATCCGC-CCACTGTAACTTTAGCGG-GATAGGA-TTACCGGCTTTAATCTG-CT
64 TACCGGCTTTAATCTGCTCCACTGTAACTTCAG-GGAGATAAGATTTACCATCTTCAGTCTGCCT
* * *
29242263 CCACTGCAACTTCAGG-GAGATAAGATTTGCCATCTTCAGTCTAC-CTCA
128 -CACTGCAACTTCAGGAG-GATAAGA-TTGCTAACTT-AGTCTGCTC-CA
* * * *
29242311 CTGCAACTTCAGA-AGGATAAGACTAAATGGGATCTGCTCTCTGTAACTTCAG-AGAGATAAGAT
1 CTGCAACTTCAGAGA-GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGCAG-GATAGGAT
* * * * * * *
29242374 CTA-AGGTTTTAATC--ATCCACTGCAACTTCAGCGG-GATAGGA-TTACCGA-CTTTAATCTG-
64 -TACCGGCTTTAATCTGCTCCACTGTAACTTCAG-GGAGATAAGATTTACC-ATCTTCAGTCTGC
* * *
29242432 CTCCACTGCAACTTCAGG-GAGCTAAGATTTGCCATCTTCAGTCTGC-CTCA
126 CT-CACTGCAACTTCAGGAG-GATAAGA-TTGCTAACTT-AGTCTGCTC-CA
29242482 CTGCAACTTCAG-GAGGATAAGACT
1 CTGCAACTTCAGAGA-GATAAGACT
29242506 TGCTTACTTA
Statistics
Matches: 477, Mismatches: 50, Indels: 34
0.85 0.09 0.06
Matches are distributed among these distances:
170 3 0.01
171 152 0.32
172 99 0.21
173 182 0.38
174 4 0.01
175 8 0.02
176 28 0.06
177 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (172 bp):
CTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGCAGGATAGGATTA
CCGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTGCCTCAC
TGCAACTTCAGGAGGATAAGATTGCTAACTTAGTCTGCTCCA
Found at i:29242251 original size:389 final size:389
Alignment explanation
Indices: 29241534--29242549 Score: 1673
Period size: 389 Copynumber: 2.6 Consensus size: 389
29241524 CCACTCATGG
* ** * * *
29241534 TGCAACTTCAG--GGAGATAAGACTAAATACGATCTGCCCTCTGCAACTTTAAAGAGATAAGATC
1 TGCAACTTCAGAAGGATA-AAGACTAAATGGGATCTGCTCTCTGCAACTTCAGAGAGATAAGATC
* * * *
29241597 CAAGGTTTTAATCCACTCCACTGCAACTTCAGGAAGATAGGATTATCGGCTTTAATCTGCTCCAC
65 TAAGGTTTTAATCCAC-CCACTGCAACTTCAGCAGGATAGGATTACCGGCTTTAATCTGCTCCAC
*
29241662 TGAAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAA
129 TGAAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAG
* * *
29241727 ACTTGCTTACTTAGTCCGTTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTTTCT
194 ACTTGCTTACTTAGTCCGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTTTCT
* *
29241792 GCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTGCCCACTGCAACTTCAGCGGGATAGGATT
259 ACAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCCCACTGCAACTTCAGCGGGATAGGATT
* *
29241857 ACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTCA
324 ACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCA
29241922 C
389 C
29241923 TGCAACTTCAGAAGGATAAAGACTAAATGGGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
1 TGCAACTTCAGAAGGATAAAGACTAAATGGGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
* *
29241988 AAGGTTTTAATCCGCCCACTGCAACTTCAGCAGGATAGGATTACCGGCTTTAATCTGCTCTACTG
66 AAGGTTTTAATCCACCCACTGCAACTTCAGCAGGATAGGATTACCGGCTTTAATCTGCTCCACTG
* * *
29242053 TAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTGCCTCACTGTAACTTCAGGAGGATAAGAC
131 AAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGAC
*
29242118 TTGCTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTTTCTAC
196 TTGCTTACTTAGTCCGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTTTCTAC
* *
29242183 AACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCCCACTGTAACTTTAGCGGGATAGGATTAC
261 AACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCCCACTGCAACTTCAGCGGGATAGGATTAC
29242248 CGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCAC
326 CGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCAC
*
29242312 TGCAACTTCAGAAGGAT-AAGACTAAATGGGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCT
1 TGCAACTTCAGAAGGATAAAGACTAAATGGGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
* * *
29242376 AAGGTTTTAAT-CATCCACTGCAACTTCAGCGGGATAGGATTACCGACTTTAATCTGCTCCACTG
66 AAGGTTTTAATCCACCCACTGCAACTTCAGCAGGATAGGATTACCGGCTTTAATCTGCTCCACTG
* *
29242440 CAACTTCAGGGAGCTAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGAC
131 AAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGAC
*
29242505 TTGCTTACTTAGTCCGCTCTACTGCAACTTCA-AGGAGATAAGACT
196 TTGCTTACTTAGTCCGCTCCACTGCAACTTCAGA-GAGATAAGACT
29242550 CGATCTGTTA
Statistics
Matches: 586, Mismatches: 38, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
386 1 0.00
387 150 0.26
388 57 0.10
389 319 0.54
390 55 0.09
391 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (389 bp):
TGCAACTTCAGAAGGATAAAGACTAAATGGGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCT
AAGGTTTTAATCCACCCACTGCAACTTCAGCAGGATAGGATTACCGGCTTTAATCTGCTCCACTG
AAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGAC
TTGCTTACTTAGTCCGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATCTGCTTTCTAC
AACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCCCACTGCAACTTCAGCGGGATAGGATTAC
CGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCTCAC
Found at i:29242290 original size:216 final size:218
Alignment explanation
Indices: 29241790--29242334 Score: 727
Period size: 216 Copynumber: 2.5 Consensus size: 218
29241780 GATCTGCTTT
* * *
29241790 CTGCAACTTCAG-AGAGATAAGATCTA-AGGTTTTAATCTGC-CCACTGCAACTTCAGCGG-GAT
1 CTGCAACTTCAGCAG-GATAGGAT-TACCGGCTTTAATCTGCTCCACTGCAACTTCAG-GGAGAT
* ** * * *
29241851 AGGA-TTACCGGCTTTAATCTG-CTCCACTGCAACTTCAGG-GAGATAAGATTTGTCATCTTCAG
63 AAGATTTACCATCTTCAGTCTGCCT-CACTGCAACTTCAGGAG-GATAAGACTTGTCATCTTCAG
* *
29241913 TCTGCCTCACTGCAACTTCAGAAGGATAAAGACTAAATGGGATCTGCTCTCTGCAACTTCAGAGA
126 TCTGCCTCACTGCAACTTCAGAAGGATAAAGACTAAATGCGATCTGCTCTCTACAACTTCAGAGA
29241978 GATAAGATCTAAGGTTTTAATCCGCCCA
191 GATAAGATCTAAGGTTTTAATCCGCCCA
* *
29242006 CTGCAACTTCAGCAGGATAGGATTACCGGCTTTAATCTGCTCTACTGTAACTTCAGGGAGATAAG
1 CTGCAACTTCAGCAGGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* *
29242071 ATTTACCATCTTCAGTCTGCCTCACTGTAACTTCAGGAGGATAAGACTTG-CTTACTT-AGTCTG
66 ATTTACCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTCAT-CTTCAGTCTG
* *
29242134 -CTCCACTGCAACTTCAG-AGAGAT-AAGACTAGATGCGATCTGCTTTCTACAACTTCAGAGAGA
130 CCT-CACTGCAACTTCAGAAG-GATAAAGACTAAATGCGATCTGCTCTCTACAACTTCAGAGAGA
29242196 TAAGATCTAAGGTTTTAATCCGCCCA
193 TAAGATCTAAGGTTTTAATCCGCCCA
* * *
29242222 CTGTAACTTTAGCGGGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGCAGGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * *
29242287 ATTTGCCATCTTCAGTCTACCTCACTGCAACTTCAGAAGGATAAGACT
66 ATTTACCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACT
29242335 AAATGGGATC
Statistics
Matches: 293, Mismatches: 26, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
215 2 0.01
216 202 0.69
217 46 0.16
218 40 0.14
219 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (218 bp):
CTGCAACTTCAGCAGGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
ATTTACCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTCATCTTCAGTCTGC
CTCACTGCAACTTCAGAAGGATAAAGACTAAATGCGATCTGCTCTCTACAACTTCAGAGAGATAA
GATCTAAGGTTTTAATCCGCCCA
Found at i:29242320 original size:172 final size:172
Alignment explanation
Indices: 29242137--29242505 Score: 600
Period size: 171 Copynumber: 2.2 Consensus size: 172
29242127 TAGTCTGCTC
* *
29242137 CACTGCAACTTCAGAGA-GATAAGACTAGATGCGATCTGCTTTCTACAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGAGAGGATAAGACTAAATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGA
* * * *
29242201 TCTAAGGTTTTAATCCGCCCACTGTAACTTTAGCGGGATAGGATTACCGGCTTTAATCTGCTCCA
66 TCTAAGGTTTTAAT-CACCCACTGCAACTTCAGCGGGATAGGATTACCGACTTTAATCTGCTCCA
29242266 CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCT
130 CTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCT
* **
29242309 CACTGCAACTTCAGA-AGGATAAGACTAAATGGGATCTGCTCTCTGTAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGAGAGGATAAGACTAAATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGA
*
29242373 TCTAAGGTTTTAATCATCCACTGCAACTTCAGCGGGATAGGATTACCGACTTTAATCTGCTCCAC
66 TCTAAGGTTTTAATCACCCACTGCAACTTCAGCGGGATAGGATTACCGACTTTAATCTGCTCCAC
* *
29242438 TGCAACTTCAGGGAGCTAAGATTTGCCATCTTCAGTCTGCCT
131 TGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCT
29242480 CACTGCAACTTCAG-GAGGATAAGACT
1 CACTGCAACTTCAGAGAGGATAAGACT
29242506 TGCTTACTTA
Statistics
Matches: 183, Mismatches: 12, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
171 112 0.61
172 71 0.39
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (172 bp):
CACTGCAACTTCAGAGAGGATAAGACTAAATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGA
TCTAAGGTTTTAATCACCCACTGCAACTTCAGCGGGATAGGATTACCGACTTTAATCTGCTCCAC
TGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACCT
Found at i:29242545 original size:44 final size:45
Alignment explanation
Indices: 29242431--29242549 Score: 129
Period size: 44 Copynumber: 2.7 Consensus size: 45
29242421 ACTTTAATCT
* * * * *
29242431 GCTCCACTGCAACTTCAGGGAGCTAAGATTTGCCATCTTCAGTCT
1 GCTCTACTGCAACTTCAAGGAGATAAGACTTGCCATCTTCAGTCC
*
29242476 GC-CTCACTGCAACTTC-AGGAGGATAAGACTTG-CTTACTT-AGTCC
1 GCTCT-ACTGCAACTTCAAGGA-GATAAGACTTGCCAT-CTTCAGTCC
29242520 GCTCTACTGCAACTTCAAGGAGATAAGACT
1 GCTCTACTGCAACTTCAAGGAGATAAGACT
29242550 CGATCTGTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
44 32 0.51
45 31 0.49
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (45 bp):
GCTCTACTGCAACTTCAAGGAGATAAGACTTGCCATCTTCAGTCC
Found at i:29256836 original size:17 final size:16
Alignment explanation
Indices: 29256810--29256841 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
29256800 ATATATAATT
29256810 AAAAAATAATTACATA
1 AAAAAATAATTACATA
29256826 AAAATAATAATTACAT
1 AAAA-AATAATTACAT
29256842 CCTAAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAAATAATTACATA
Found at i:29259324 original size:21 final size:21
Alignment explanation
Indices: 29259300--29259403 Score: 71
Period size: 21 Copynumber: 5.1 Consensus size: 21
29259290 AAATATATTT
29259300 TAATTAAAATATATAATTTAA
1 TAATTAAAATATATAATTTAA
* *
29259321 TAATTATAATATATAA--TAC
1 TAATTAAAATATATAATTTAA
29259340 T-A-T-AAA-ATATAATTTGAAA
1 TAATTAAAATATATAATTT--AA
* *
29259359 TAATTAATATTAAATATATTT--
1 TAATTAA-AATATATA-ATTTAA
*
29259380 TAATTAAAATATATGATTTAA
1 TAATTAAAATATATAATTTAA
29259401 TAA
1 TAA
29259404 AATTTAAAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 24
0.65 0.09 0.25
Matches are distributed among these distances:
15 6 0.10
16 2 0.03
17 2 0.03
18 1 0.02
19 9 0.15
20 6 0.10
21 26 0.42
22 1 0.02
23 1 0.02
24 4 0.06
25 4 0.06
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (21 bp):
TAATTAAAATATATAATTTAA
Found at i:29259518 original size:91 final size:90
Alignment explanation
Indices: 29259423--29259628 Score: 292
Period size: 91 Copynumber: 2.3 Consensus size: 90
29259413 TAATTATAAC
* *
29259423 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATACTA-ATTATTACATATAATTTAATAA
1 TAATAAATTAT-TTTTATGAATTTGTATAATTTAAAATAATATA-TATTAAATATAATTTAATAA
*
29259487 TAATATATAATTTCATAAAATTCTTGA
64 TAATATATAATTTCATAAAATTCTTAA
*
29259514 TAATAAATT-TTCTTATATGAATTTGTATAATTTAAAATAATTTATATTAAATATAATTTAATAA
1 TAATAAATTATT-TT-TATGAATTTGTATAATTTAAAATAATATATATTAAATATAATTTAATAA
*
29259578 TGATATATAATTTCATAAAATTCTTAA
64 TAATATATAATTTCATAAAATTCTTAA
29259605 TAATAAA-TATTCTTATATGAATTT
1 TAATAAATTATT-TT-TATGAATTT
29259629 ACTAAAATCA
Statistics
Matches: 106, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
89 1 0.01
90 4 0.04
91 100 0.94
92 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (90 bp):
TAATAAATTATTTTTATGAATTTGTATAATTTAAAATAATATATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:29259545 original size:47 final size:46
Alignment explanation
Indices: 29259490--29259629 Score: 130
Period size: 47 Copynumber: 3.0 Consensus size: 46
29259480 TTAATAATAA
29259490 TATATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATT
1 TATATAATTTCATAAAATTCTT-ATAATAAATTTTCTTATATGAATT
* * * * *
29259537 TGTATAATTT-A-AAATAAT-TTATATTAAATATAAT-TTA-AT-AATGA
1 TATATAATTTCATAAA-ATTCTTATAATAAAT-T-TTCTTATATGAAT-T
*
29259581 TATATAATTTCATAAAATTCTTAATAATAAATATTCTTATATGAATT
1 TATATAATTTCATAAAATTCTT-ATAATAAATTTTCTTATATGAATT
29259628 TA
1 TA
29259630 CTAAAATCAT
Statistics
Matches: 71, Mismatches: 11, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
43 3 0.04
44 19 0.27
45 13 0.18
46 12 0.17
47 21 0.30
48 3 0.04
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (46 bp):
TATATAATTTCATAAAATTCTTATAATAAATTTTCTTATATGAATT
Found at i:29269785 original size:24 final size:24
Alignment explanation
Indices: 29269728--29269778 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
29269718 TGCTTCCTGA
*
29269728 TTAAGTGCTCTTCGGAGCTACTCG
1 TTAAGTGCTCTTCGGAGCTACCCG
*
29269752 TTAAGTGCTCTTTGGAGCTACCCG
1 TTAAGTGCTCTTCGGAGCTACCCG
29269776 TTA
1 TTA
29269779 TATGCTCGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (24 bp):
TTAAGTGCTCTTCGGAGCTACCCG
Found at i:29272361 original size:31 final size:31
Alignment explanation
Indices: 29272325--29272390 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
29272315 TTACAATTTG
*
29272325 GTCACTAAACTATTTGAAA-GTTTTCATTTAA
1 GTCACTAAACTA-TTCAAATGTTTTCATTTAA
* *
29272356 GTCACTGAACTATTCAAATGTTTTTATTTAA
1 GTCACTAAACTATTCAAATGTTTTCATTTAA
29272387 GTCA
1 GTCA
29272391 TTGGACTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 5 0.16
31 26 0.84
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (31 bp):
GTCACTAAACTATTCAAATGTTTTCATTTAA
Found at i:29279404 original size:106 final size:107
Alignment explanation
Indices: 29279219--29279438 Score: 424
Period size: 106 Copynumber: 2.1 Consensus size: 107
29279209 TAAAAAAAAT
29279219 TTAAAACCCTAACAATAAAATTTTTTAACCTTATAAATACCCCATAAATTTTATTTTCTTCATTC
1 TTAAAACCCTAACAATAAAATTTTTTAACCTTATAAATACCCCATAAATTTTATTTTCTTCATTC
29279284 ATATCCTTCTCTCAAACGCTCTCAACTCTCTC-AGCATTTTA
66 ATATCCTTCTCTCAAACGCTCTCAACTCTCTCAAGCATTTTA
29279325 TTAAAACCCTAACAATAAAATTTTTTAACCTTATAAATACCCCATAAATTTTATTTTCTTCATTC
1 TTAAAACCCTAACAATAAAATTTTTTAACCTTATAAATACCCCATAAATTTTATTTTCTTCATTC
29279390 ATATCCTTCTCTCAAACGCTCTCAACTCTCTCAAGCATTTTA
66 ATATCCTTCTCTCAAACGCTCTCAACTCTCTCAAGCATTTTA
29279432 TTCAAAA
1 TT-AAAA
29279439 TTTTATTTAT
Statistics
Matches: 112, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
106 97 0.87
107 11 0.10
108 4 0.04
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (107 bp):
TTAAAACCCTAACAATAAAATTTTTTAACCTTATAAATACCCCATAAATTTTATTTTCTTCATTC
ATATCCTTCTCTCAAACGCTCTCAACTCTCTCAAGCATTTTA
Found at i:29282597 original size:9 final size:9
Alignment explanation
Indices: 29282580--29282615 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
29282570 TAAGTTTTCG
29282580 AATTCGAAT
1 AATTCGAAT
*
29282589 AACTCGAAT
1 AATTCGAAT
29282598 AATTCGAAT
1 AATTCGAAT
29282607 AATTCGAAT
1 AATTCGAAT
29282616 CTCAAGCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (9 bp):
AATTCGAAT
Found at i:29292291 original size:25 final size:25
Alignment explanation
Indices: 29292258--29292316 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
29292248 GAGCTGTAAA
*
29292258 CGGTAAGCTCATACGAGCTGAATAT
1 CGGTAAGCTCATACGAGATGAATAT
*
29292283 CGGTAAGCTCATGCGAGATGAATAT
1 CGGTAAGCTCATACGAGATGAATAT
**
29292308 TAGTAAGCT
1 CGGTAAGCT
29292317 ATTTCAAGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (25 bp):
CGGTAAGCTCATACGAGATGAATAT
Found at i:29293193 original size:21 final size:21
Alignment explanation
Indices: 29293169--29293214 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
29293159 AAGAAATAAA
*
29293169 TTAAAGTGTTTTAATTTCACT
1 TTAAAGTATTTTAATTTCACT
**
29293190 TTAATTTATTTTAATTTCACT
1 TTAAAGTATTTTAATTTCACT
29293211 TTAA
1 TTAA
29293215 TTACAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (21 bp):
TTAAAGTATTTTAATTTCACT
Found at i:29293194 original size:11 final size:11
Alignment explanation
Indices: 29293178--29293216 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
29293168 ATTAAAGTGT
29293178 TTTAATTTCAC
1 TTTAATTTCAC
*
29293189 TTTAATTT-AT
1 TTTAATTTCAC
29293199 TTTAATTTCAC
1 TTTAATTTCAC
29293210 TTTAATT
1 TTTAATT
29293217 ACAAAATTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTAATTTCAC
Found at i:29293215 original size:21 final size:21
Alignment explanation
Indices: 29293177--29293216 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
29293167 AATTAAAGTG
29293177 TTTTAATTTCACTTTAATTTA
1 TTTTAATTTCACTTTAATTTA
29293198 TTTTAATTTCACTTTAATT
1 TTTTAATTTCACTTTAATT
29293217 ACAAAATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTAATTTCACTTTAATTTA
Done.