Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 92 of 410
Found at i:26885146 original size:2 final size:2
Alignment explanation
Indices: 26885139--26885179 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
26885129 GTATCTCATT
26885139 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26885180 TCCTCTCAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26886627 original size:14 final size:14
Alignment explanation
Indices: 26886610--26886639 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
26886600 TTAAGAAAAC
26886610 TTAATTCACATTTA
1 TTAATTCACATTTA
26886624 TTAATTCACATTTA
1 TTAATTCACATTTA
26886638 TT
1 TT
26886640 GATTGAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (14 bp):
TTAATTCACATTTA
Found at i:26893072 original size:26 final size:25
Alignment explanation
Indices: 26893032--26893096 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
26893022 AAAATGGTTT
* **
26893032 CATTACTTATTTTAAATTGTTCTACA
1 CATTA-TTATGTTAAATAATTCTACA
* *
26893058 CATTATTTATGTTAAATAATTTTATA
1 CATTA-TTATGTTAAATAATTCTACA
26893084 CATTATTATGTTA
1 CATTATTATGTTA
26893097 TACATTATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 8 0.24
26 25 0.76
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (25 bp):
CATTATTATGTTAAATAATTCTACA
Found at i:26907349 original size:7 final size:6
Alignment explanation
Indices: 26907319--26907352 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
26907309 ACCTTCAAAG
*
26907319 AAATGA AAATAA AAATAA AAATAA AAGATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AA-ATAA AAA
26907353 GGAGAGGCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:26910014 original size:29 final size:29
Alignment explanation
Indices: 26909972--26910055 Score: 141
Period size: 29 Copynumber: 2.9 Consensus size: 29
26909962 TGCCGTATTT
**
26909972 TTTCCAGCTTGCACACTTAGTGCCAAATA
1 TTTCCAGCACGCACACTTAGTGCCAAATA
*
26910001 TTTCCAGCACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCAAATA
26910030 TTTCCAGCACGCACACTTAGTGCCAA
1 TTTCCAGCACGCACACTTAGTGCCAA
26910056 TCTCATCACC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.27
Consensus pattern (29 bp):
TTTCCAGCACGCACACTTAGTGCCAAATA
Found at i:26917233 original size:29 final size:29
Alignment explanation
Indices: 26917200--26917302 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
26917190 CCTCCGAACT
** * * *
26917200 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
26917229 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
26917258 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
26917287 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
26917303 ATCTCATCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:26918422 original size:44 final size:44
Alignment explanation
Indices: 26918374--26918993 Score: 304
Period size: 44 Copynumber: 14.0 Consensus size: 44
26918364 ATCCACCAGC
**
26918374 CTTATC-TCTCTGAGGTAGCAAGGGAGCAGGTTGAAGATTGTAGT
1 CTTATCTTC-CTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
26918418 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGAT
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG-T
* * * ** *
26918463 CTTCTC-TCCTGAAGTTA-C-AGTGGAACAGA-TCGAAGACGGTGAAT
1 CTTATCTTCCTG-AGGTAGCAAG-GGAGCAGACT-GAAGATTGT-AGT
** * * * * * * *
26918507 CTTATCTTCCCAAGGTATCAAGGGAGTAGATTTTAACCA--CTAGC
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGA-CTGAA-GATTGTAGT
* *
26918551 CTTATC-TCTCTGAGATAG-TAGGAGAGC-GAGCTGAAGATTGTAGT
1 CTTATCTTC-CTGAGGTAGCAAGG-GAGCAGA-CTGAAGATTGTAGT
* * *
26918595 CTTATCTTCCTGAGGTAGCAAGGGAGTAGACTAAAAATTGTAGAT
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG-T
* * * ** *
26918640 ATTGTC-TCCTCGAGATAGC-AGTGGAGCAGA-TCGAAGACGGTGAAT
1 CTTATCTTCCT-GAGGTAGCAAG-GGAGCAGACT-GAAGATTGT-AGT
** * * ** *****
26918685 CTTATCTTCCCAAGGTAGCAGGGGAGCAGATTTTAGCCACCAGT
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
* * *
26918729 CTTATC-TCTCTGAGGTAGCAAGGGAGTAGGCTAAAGATTGTAGT
1 CTTATCTTC-CTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
*
26918773 CTTATCTTCCTGAGGTAGTAAGGGAGCAGACTGAAGATTGTATGT
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTA-GT
* * * * * *
26918818 CTTGTC-TCCTTGAGATAGC-AGTGGAACAGACCGAAGATAGTAAAT
1 CTTATCTTCC-TGAGGTAGCAAG-GGAGCAGACTGAAGATTGT-AGT
* * * * * ** ***** *
26918863 CTTATCTTCCCGAGGTAGTAGGGGAGTAGATTTTACCCACTAGC
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
* **
26918907 CTTATC-TCTCTGAGGTAG-AAGGAGAGCGGGTTGAAGATTGTAGT
1 CTTATCTTC-CTGAGGTAGCAAGG-GAGCAGACTGAAGATTGTAGT
* *
26918951 CTTATCTTCCTGAGGTAGCAACGGAGCAGACTGAAAATTGTAG
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG
26918994 ATATTGTCTT
Statistics
Matches: 420, Mismatches: 117, Indels: 78
0.68 0.19 0.13
Matches are distributed among these distances:
42 1 0.00
43 20 0.05
44 247 0.59
45 135 0.32
46 15 0.04
47 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (44 bp):
CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
Found at i:26918523 original size:89 final size:87
Alignment explanation
Indices: 26918417--26918714 Score: 235
Period size: 89 Copynumber: 3.4 Consensus size: 87
26918407 AAGATTGTAG
** * * *
26918417 TCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTCTCTCCTGAAGTTACA
1 TCTTATCTTCCCAAGGTAGCAAGGGAGCAGACTAAAAATTGTAGATCTTATCTCCTG-AG-TACA
26918482 GTGGAACAGATCGAAGACGGTGAA
64 GTGGAACAGATCGAAGACGGTGAA
* * * ** **** * *
26918506 TCTTATCTTCCCAAGGTATCAAGGGAGTAGATTTTAACCACTAG-CCTTATCTCTCTGAG-ATAG
1 TCTTATCTTCCCAAGGTAGCAAGGGAGCAGACTAAAAATTGTAGATCTTATCTC-CTGAGTACAG
* ** *
26918569 TAGGAGAGC-GAGCTGAAGATTGT-AG
65 T-GGA-A-CAGATC-GAAGACGGTGAA
** * * *
26918594 TCTTATCTTCCTGAGGTAGCAAGGGAGTAGACTAAAAATTGTAGATATTGTCTCCTCGAGATAGC
1 TCTTATCTTCCCAAGGTAGCAAGGGAGCAGACTAAAAATTGTAGATCTTATCTCCT-GAG-TA-C
*
26918659 AGTGGAGCAGATCGAAGACGGTGAA
63 AGTGGAACAGATCGAAGACGGTGAA
*
26918684 TCTTATCTTCCCAAGGTAGCAGGGGAGCAGA
1 TCTTATCTTCCCAAGGTAGCAAGGGAGCAGA
26918715 TTTTAGCCAC
Statistics
Matches: 155, Mismatches: 42, Indels: 23
0.70 0.19 0.10
Matches are distributed among these distances:
86 4 0.03
87 3 0.02
88 50 0.32
89 60 0.39
90 31 0.20
91 4 0.03
92 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (87 bp):
TCTTATCTTCCCAAGGTAGCAAGGGAGCAGACTAAAAATTGTAGATCTTATCTCCTGAGTACAGT
GGAACAGATCGAAGACGGTGAA
Found at i:26918741 original size:178 final size:179
Alignment explanation
Indices: 26918300--26919058 Score: 989
Period size: 178 Copynumber: 4.3 Consensus size: 179
26918290 TCTCCCTGAA
* * * * * * *
26918300 ATAGCAGTGGAGTAGATCAAAGATGGCGAATCTTATCTTCCCGAGGTAACA-AGGAGCAGATTTT
1 ATAGCAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGCAGGGGAGCAGATTTT
* *
26918364 ATCCACCAGCCTTATCTCTCTGAGGTAGCAAGGGAGC-AGGTTGAAGATTGTAGTCTTATCTTCC
66 AACCACCAGCCTTATCTCTCTGAGGTAGCAAGGGAGCGAGGCTGAAGATTGTAGTCTTATCTTCC
* * *
26918428 TGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTCTCTCCT-GAAG
131 TGAGGTAGCAAGGGAGCAGACTGAAAATTGTAGATATTGTCTCCTCG-AG
* * * * *
26918477 TTA-CAGTGGAACAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTATCAAGGGAGTAGATTTT
1 ATAGCAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGCAGGGGAGCAGATTTT
* * *
26918541 AACCACTAGCCTTATCTCTCTGAGATAG-TAGGAGAGCGA-GCTGAAGATTGTAGTCTTATCTTC
66 AACCACCAGCCTTATCTCTCTGAGGTAGCAAGG-GAGCGAGGCTGAAGATTGTAGTCTTATCTTC
* *
26918604 CTGAGGTAGCAAGGGAGTAGACTAAAAATTGTAGATATTGTCTCCTCGAG
130 CTGAGGTAGCAAGGGAGCAGACTGAAAATTGTAGATATTGTCTCCTCGAG
26918654 ATAGCAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGCAGGGGAGCAGATTTT
1 ATAGCAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGCAGGGGAGCAGATTTT
* * * *
26918719 AGCCACCAGTCTTATCTCTCTGAGGTAGCAAGGGAG-TAGGCTAAAGATTGTAGTCTTATCTTCC
66 AACCACCAGCCTTATCTCTCTGAGGTAGCAAGGGAGCGAGGCTGAAGATTGTAGTCTTATCTTCC
* * * *
26918783 TGAGGTAGTAAGGGAGCAGACTGAAGATTGTATG-TCTTGTCTCCTTGAG
131 TGAGGTAGCAAGGGAGCAGACTGAAAATTGTA-GATATTGTCTCCTCGAG
* * ** * * * *
26918832 ATAGCAGTGGAACAGACCGAAGATAGTAAATCTTATCTTCCCGAGGTAGTAGGGGAGTAGATTTT
1 ATAGCAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGCAGGGGAGCAGATTTT
* * *
26918897 ACCCACTAGCCTTATCTCTCTGAGGTAG-AAGGAGAGCG-GGTTGAAGATTGTAGTCTTATCTTC
66 AACCACCAGCCTTATCTCTCTGAGGTAGCAAGG-GAGCGAGGCTGAAGATTGTAGTCTTATCTTC
* * *
26918960 CTGAGGTAGCAACGGAGCAGACTGAAAATTGTAGATATTGTCTTCTCAAG
130 CTGAGGTAGCAAGGGAGCAGACTGAAAATTGTAGATATTGTCTCCTCGAG
* * *
26919010 ATAACAGTGGAGCAGATCGAATACGATGAATCTTATCTTCCCAAGGTAG
1 ATAGCAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAG
26919059 TCGGGGTTTA
Statistics
Matches: 503, Mismatches: 68, Indels: 21
0.85 0.11 0.04
Matches are distributed among these distances:
176 43 0.09
177 116 0.23
178 340 0.68
179 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (179 bp):
ATAGCAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGCAGGGGAGCAGATTTT
AACCACCAGCCTTATCTCTCTGAGGTAGCAAGGGAGCGAGGCTGAAGATTGTAGTCTTATCTTCC
TGAGGTAGCAAGGGAGCAGACTGAAAATTGTAGATATTGTCTCCTCGAG
Found at i:26919020 original size:356 final size:354
Alignment explanation
Indices: 26918304--26919058 Score: 1138
Period size: 356 Copynumber: 2.1 Consensus size: 354
26918294 CCTGAAATAG
* * * * * * *
26918304 CAGTGGAGTAGATCAAAGATGGCGAATCTTATCTTCCCGAGGTAACAAGGAGCAGATTTTATCCA
1 CAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGCAAGGAGCAGATTTTAGCCA
* *
26918369 CCAGCCTTATCTCTCTGAGGTAGCAAGGGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGT
66 CCAGCCTTATCTCTCTGAGGTAGCAAGGGAGCAGGCTAAAGATTGTAGTCTTATCTTCCTGAGGT
* *
26918434 AGCAAGGGAGCAGACTGAAGATTGTAGATCTTCTCTCCTGAAGTTACAGTGGAACAGATCGAAGA
131 AGCAAGGGAGCAGACTGAAGATTGTAGATCTTCTCTCCTGAAGATACAGTGGAACAGACCGAAGA
* *
26918499 CGGTGAATCTTATCTTCCCAAGGTATCAAGGGAGTAGATTTTAACCACTAGCCTTATCTCTCTGA
196 CAGTAAATCTTATCTTCCCAAGGTATCAAGGGAGTAGATTTTAACCACTAGCCTTATCTCTCTGA
* * *
26918564 GATAGTAGGAGAGCGAGCTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGGAGTAGACTAA
261 GATAGAAGGAGAGCGAGCTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAACGGAGCAGACTAA
* *
26918629 AAATTGTAGATATTGTCTCCTCGAGATAG
326 AAATTGTAGATATTGTCTCCTCAAGATAA
*
26918658 CAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGCAGGGGAGCAGATTTTAGCC
1 CAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGCA-AGGAGCAGATTTTAGCC
* *
26918723 ACCAGTCTTATCTCTCTGAGGTAGCAAGGGAGTAGGCTAAAGATTGTAGTCTTATCTTCCTGAGG
65 ACCAGCCTTATCTCTCTGAGGTAGCAAGGGAGCAGGCTAAAGATTGTAGTCTTATCTTCCTGAGG
* *
26918788 TAGTAAGGGAGCAGACTGAAGATTGTATG-TCTTGTCTCCTTG-AGATAGCAGTGGAACAGACCG
130 TAGCAAGGGAGCAGACTGAAGATTGTA-GATCTTCTCTCC-TGAAGATA-CAGTGGAACAGACCG
* * * *
26918851 AAGATAGTAAATCTTATCTTCCCGAGGTAGT-AGGGGAGTAGATTTTACCCACTAGCCTTATCTC
192 AAGACAGTAAATCTTATCTTCCCAAGGTA-TCAAGGGAGTAGATTTTAACCACTAGCCTTATCTC
* * *
26918915 TCTGAGGTAGAAGGAGAGCGGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAACGGAGCAG
256 TCTGAGATAGAAGGAGAGCGAGCTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAACGGAGCAG
* *
26918980 ACTGAAAATTGTAGATATTGTCTTCTCAAGATAA
321 ACTAAAAATTGTAGATATTGTCTCCTCAAGATAA
* *
26919014 CAGTGGAGCAGATCGAATACGATGAATCTTATCTTCCCAAGGTAG
1 CAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAG
26919059 TCGGGGTTTA
Statistics
Matches: 362, Mismatches: 34, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
354 41 0.11
355 115 0.32
356 205 0.57
357 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (354 bp):
CAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGCAAGGAGCAGATTTTAGCCA
CCAGCCTTATCTCTCTGAGGTAGCAAGGGAGCAGGCTAAAGATTGTAGTCTTATCTTCCTGAGGT
AGCAAGGGAGCAGACTGAAGATTGTAGATCTTCTCTCCTGAAGATACAGTGGAACAGACCGAAGA
CAGTAAATCTTATCTTCCCAAGGTATCAAGGGAGTAGATTTTAACCACTAGCCTTATCTCTCTGA
GATAGAAGGAGAGCGAGCTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAACGGAGCAGACTAA
AAATTGTAGATATTGTCTCCTCAAGATAA
Found at i:26939170 original size:4 final size:4
Alignment explanation
Indices: 26939161--26939188 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
26939151 TTTAGGGATG
26939161 GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT
26939189 ATGAATAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:26939709 original size:2 final size:2
Alignment explanation
Indices: 26939702--26939737 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
26939692 GTCCTAAAGA
26939702 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26939738 GAGAAATACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26943166 original size:35 final size:34
Alignment explanation
Indices: 26943100--26943172 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 34
26943090 TTACTTTTTT
* *
26943100 TTTTCTTTTTGGTTCAACGCTATTTATTTTACTA
1 TTTTCTTTTTGCTTCAACGCTATTGATTTTACTA
*
26943134 TTTTCTTTTATGCTTCAACGCTACTTGA-TTTACTG
1 TTTTCTTTT-TGCTTCAACGCTA-TTGATTTTACTA
26943169 TTTT
1 TTTT
26943173 GCCCTTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 9 0.26
35 22 0.65
36 3 0.09
ACGTcount: A:0.16, C:0.16, G:0.10, T:0.58
Consensus pattern (34 bp):
TTTTCTTTTTGCTTCAACGCTATTGATTTTACTA
Found at i:26944710 original size:2 final size:2
Alignment explanation
Indices: 26944705--26944730 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26944695 TTTAAAATAA
26944705 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
26944731 TTAGCTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26949967 original size:7 final size:8
Alignment explanation
Indices: 26949950--26949989 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
26949940 TCCACCCAAC
*
26949950 TCTCCTTT
1 TCTCTTTT
26949958 TCT-TTTT
1 TCTCTTTT
*
26949965 TCTTTTTT
1 TCTCTTTT
26949973 TCTCTTTT
1 TCTCTTTT
26949981 TCTCTTTT
1 TCTCTTTT
26949989 T
1 T
26949990 AATTATAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 6 0.21
8 23 0.79
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (8 bp):
TCTCTTTT
Found at i:26951632 original size:23 final size:25
Alignment explanation
Indices: 26951600--26951648 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
26951590 TTTTTTTCTT
*
26951600 ATTTATTAAAT-AAA-AAATTTAAA
1 ATTTAATAAATCAAATAAATTTAAA
*
26951623 ATTTAATAAATCAAATATATTTAAA
1 ATTTAATAAATCAAATAAATTTAAA
26951648 A
1 A
26951649 ACATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.45
24 3 0.14
25 9 0.41
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (25 bp):
ATTTAATAAATCAAATAAATTTAAA
Found at i:26951676 original size:22 final size:22
Alignment explanation
Indices: 26951635--26951693 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
26951625 TTAATAAATC
* *
26951635 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
26951655 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
26951677 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
26951694 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:26956952 original size:74 final size:73
Alignment explanation
Indices: 26956859--26957082 Score: 192
Period size: 74 Copynumber: 3.1 Consensus size: 73
26956849 ACAAATGTGT
* *
26956859 GCCCAACACTAGTCAGATAAACTAACGGAGGTTGCGCCCAGCGCTAATCGAATAAACTGACGAAT
1 GCCCAACACTAGTCAGATAAACTAACGGAAGTTGCGCCCAGCGCTAGTCGAATAAAC-GACGAAT
26956924 AATTAGTGA
65 AATTAGTGA
* ** * * * * **
26956933 GCCCAACTCTAGTTGGATAAACCAAC-GATATTTGTGCCTAATGCTAGTC-AGATAAAC--CG-A
1 GCCCAACACTAGTCAGATAAACTAACGGA-AGTTGCGCCCAGCGCTAGTCGA-ATAAACGACGAA
*
26956993 TGAA-T-GTGT
64 T-AATTAGTGA
* * * * * *
26957002 GCCCAGCACTAGTCAGACAAACTAACGAAAGTTGCACCCAGCGCTAGTCGGATCAACCGACGAAT
1 GCCCAACACTAGTCAGATAAACTAACGGAAGTTGCGCCCAGCGCTAGTCGAAT-AAACGACGAAT
26957067 AATTAGTGA
65 AATTAGTGA
26957076 GCCCAAC
1 GCCCAAC
26957083 TCAAGTTGGA
Statistics
Matches: 110, Mismatches: 29, Indels: 22
0.68 0.18 0.14
Matches are distributed among these distances:
69 39 0.35
70 7 0.06
71 4 0.04
72 4 0.04
73 6 0.05
74 50 0.45
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (73 bp):
GCCCAACACTAGTCAGATAAACTAACGGAAGTTGCGCCCAGCGCTAGTCGAATAAACGACGAATA
ATTAGTGA
Found at i:26957698 original size:37 final size:37
Alignment explanation
Indices: 26957656--26957731 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
26957646 TAAAATCAAG
26957656 AAAATTTTATTTCAACCAATTATTCCACAAGGTCCAA
1 AAAATTTTATTTCAACCAATTATTCCACAAGGTCCAA
26957693 AAAATTTTATTTCAACCAATTATTCCACAAGGTCCAA
1 AAAATTTTATTTCAACCAATTATTCCACAAGGTCCAA
26957730 AA
1 AA
26957732 CAACTCATAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (37 bp):
AAAATTTTATTTCAACCAATTATTCCACAAGGTCCAA
Found at i:26961704 original size:2 final size:2
Alignment explanation
Indices: 26961697--26961734 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
26961687 AGAACATGCT
26961697 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26961735 AAGAAGACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26973004 original size:18 final size:19
Alignment explanation
Indices: 26972970--26973005 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
26972960 GCTTGTTTGC
*
26972970 TTAAGTAGAAATGAATGAT
1 TTAAGTAGAAATCAATGAT
26972989 TTAAGT-GAAATCAATGA
1 TTAAGTAGAAATCAATGA
26973006 CCCTATACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (19 bp):
TTAAGTAGAAATCAATGAT
Found at i:26976658 original size:40 final size:39
Alignment explanation
Indices: 26976490--26976660 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
26976480 AGAAATTGAA
* *
26976490 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
26976530 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
26976570 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
26976610 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
26976650 TGATATCCGGG
1 TGATATCCGGG
26976661 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:26987896 original size:40 final size:39
Alignment explanation
Indices: 26987728--26987898 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
26987718 AGAAATTGAA
* *
26987728 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
26987768 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
26987808 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
26987848 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
26987888 TGATATCCGGG
1 TGATATCCGGG
26987899 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:26991850 original size:25 final size:24
Alignment explanation
Indices: 26991822--26991887 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
26991812 CAACTCTTTA
* *
26991822 TGAGCGTCCTGTTATATGCTCTTCT
1 TGAGCATCCTGTTATATGCTC-GCT
*
26991847 TGAGCTTCCTG--ATATGGCTCGCT
1 TGAGCATCCTGTTATAT-GCTCGCT
*
26991870 TGAACATCCTGTTATATG
1 TGAGCATCCTGTTATATG
26991888 GCTATCTAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
23 15 0.44
24 5 0.15
25 14 0.41
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (24 bp):
TGAGCATCCTGTTATATGCTCGCT
Found at i:26991871 original size:23 final size:23
Alignment explanation
Indices: 26991845--26991908 Score: 56
Period size: 25 Copynumber: 2.7 Consensus size: 23
26991835 ATATGCTCTT
*
26991845 CTTGAGCTTCCTGATATGGCTCG
1 CTTGAGCTTCCTGATATGGCTAG
* * *
26991868 CTTGAACATCCTGTTATATGGCTAT
1 CTTGAGCTTCCTG--ATATGGCTAG
* *
26991893 CTAGAGCTCCCTGATA
1 CTTGAGCTTCCTGATA
26991909 ATAGCTCTTG
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
23 14 0.45
25 17 0.55
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (23 bp):
CTTGAGCTTCCTGATATGGCTAG
Found at i:27009638 original size:3 final size:3
Alignment explanation
Indices: 27009627--27009668 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
27009617 TTTTATTTTT
* *
27009627 TTA TT- TTA TTA TTT TTA CTA TTA TT- TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
27009669 TATATTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:27009823 original size:3 final size:3
Alignment explanation
Indices: 27009751--27009806 Score: 53
Period size: 3 Copynumber: 18.0 Consensus size: 3
27009741 TTCTGACTAC
*
27009751 TAT TAT TAT TAT TA- TAT ATAT ATAT GTAT TAT TGT T-T GTAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT
27009798 TAT TAT TAT
1 TAT TAT TAT
27009807 CACCCCTATT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 3 0.06
3 33 0.70
4 11 0.23
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:27009975 original size:127 final size:123
Alignment explanation
Indices: 27009844--27010114 Score: 284
Period size: 124 Copynumber: 2.2 Consensus size: 123
27009834 GTATTCTAAT
* * *
27009844 ATATTATTAATATTACTCATATTTTCATTATTTTTGCTATT-ACTATTATTATTATATATTAGTG
1 ATATTATTAATATTA-TCAT-TTTT--GTATTTTT-ATATTAACTATTATTATTATATAGTAGTG
* * * *
27009908 TATATTT-TATGTGTATATATATATATATTTATATATAGTATTGT-TTTTTA-TTACTTTAATTT
61 TATATTTCTAT-TATATACATATATATATTT-TATATA-TATAGTATTATTATTTACTTTAATTT
27009970 A
123 A
* * *
27009971 ATATTTTTATTATATT-TGC-TTTTTGTATTTTTATATTAATTATTATTATTATATAGTAGTGTG
1 ATATTATTA--ATATTAT-CATTTTTGTATTTTTATATTAACTATTATTATTATATAGTAGTGTA
* *
27010034 TATTTCTATTATATACATATATATATTTTTTATATATAGTATTATTATTTACTTTACTTTA
63 TATTTCTATTATATACATATATATATTTTATATATATAGTATTATTATTTACTTTAATTTA
*
27010095 ATATTATTATTATTATCATT
1 ATATTATTAATATTATCATT
27010115 ATATCTAACC
Statistics
Matches: 121, Mismatches: 14, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
122 10 0.08
123 17 0.14
124 71 0.59
125 3 0.02
126 4 0.03
127 10 0.08
128 1 0.01
129 5 0.04
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.59
Consensus pattern (123 bp):
ATATTATTAATATTATCATTTTTGTATTTTTATATTAACTATTATTATTATATAGTAGTGTATAT
TTCTATTATATACATATATATATTTTATATATATAGTATTATTATTTACTTTAATTTA
Found at i:27015255 original size:6 final size:6
Alignment explanation
Indices: 27015244--27015279 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
27015234 GGTGCTATAT
27015244 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
1 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
27015280 AAAAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.17, G:0.33, T:0.00
Consensus pattern (6 bp):
GGCAAA
Found at i:27015860 original size:10 final size:10
Alignment explanation
Indices: 27015847--27015879 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
27015837 CTTTAAGACC
27015847 AAAAAAGAAA
1 AAAAAAGAAA
*
27015857 AAAAGAGAAA
1 AAAAAAGAAA
27015867 AAAAAAGAAA
1 AAAAAAGAAA
27015877 AAA
1 AAA
27015880 GGAGAGGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:27015872 original size:20 final size:20
Alignment explanation
Indices: 27015847--27015884 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
27015837 CTTTAAGACC
27015847 AAAAAAGAAAAAAAGAGAAA
1 AAAAAAGAAAAAAAGAGAAA
*
27015867 AAAAAAGAAAAAAGGAGA
1 AAAAAAGAAAAAAAGAGA
27015885 GGCCATGGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAAAAGAAAAAAAGAGAAA
Found at i:27017589 original size:205 final size:205
Alignment explanation
Indices: 27017225--27017713 Score: 807
Period size: 205 Copynumber: 2.4 Consensus size: 205
27017215 ATCAGGCGGA
* *
27017225 GAGCAGATCGAAGACATAGCTGATTTAGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* *
27017290 TTGGGATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCAACGGAAGGCAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTAGCATCTCCACTTCAACGGAAGGCAGA
* * *
27017355 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
131 CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGCAGATCCAAGATGGTTTGCCATCCTTG
27017420 TGCTTACAAG
196 TGCTTACAAG
* * *
27017430 GAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* * * * * *
27017495 TTGGCATCTCTGTATTGTCAGAGAACAAATTAAAGTCTGGCATCTCCACTTCGATGGAGGGTAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTAGCATCTCCACTTCAACGGAAGGCAGA
27017560 CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGCAGATCCAAGATGGTTTGCCATCCTTG
131 CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGCAGATCCAAGATGGTTTGCCATCCTTG
27017625 TGCTTACAAG
196 TGCTTACAAG
* *
27017635 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCCAAGATAAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
*
27017700 TTGGCGTCTCTGTA
66 TTGGCATCTCTGTA
27017714 GCGGCGGAGA
Statistics
Matches: 262, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
205 262 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (205 bp):
GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
TTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTAGCATCTCCACTTCAACGGAAGGCAGA
CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGCAGATCCAAGATGGTTTGCCATCCTTG
TGCTTACAAG
Found at i:27017919 original size:132 final size:132
Alignment explanation
Indices: 27017738--27018837 Score: 1409
Period size: 132 Copynumber: 8.3 Consensus size: 132
27017728 ATCGAAGATT
* * * * *
27017738 GCAGATTTGGCATCCCTGTGTTTATAGGGAACATATCGAAAATAGTAGATCTGACATTCATGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
*
27017803 TTACAGTGAAGCAAATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
27017868 CA
131 CA
* * ** *
27017870 GCAGATTTGGCATCCCTGTGCTTATAAGGAATAGATCGAAGATAATAGATCTGACATTCCTATGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
27017935 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
27018000 CA
131 CA
* * *
27018002 GCAGATTTGGCATCCCCGTGCTTATAGGGAACAGATCGAAGATAGCATATCTGACATTCCTATGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
*
27018067 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCATGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
*
27018132 TA
131 CA
* *
27018134 GCATATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTAC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
27018199 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
27018264 CA
131 CA
27018266 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
* *
27018331 TTACGGTGAAGCAGATCGAAGATTTCAGCGTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
27018396 CA
131 CA
*
27018398 GCAGATTTGGCATCCCTGTTCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
* * *
27018463 TTACGGTGAAGCAGATCGAAGATTTCAGCGTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
*
27018528 TA
131 CA
* * * ** * *
27018530 GCAGATTTGACATTCCTGTGCTTA-CGGTGAAGCAGATCGAAGATTTCAG--CATGGCATCCCTG
1 GCAGATTTGGCATCCCTGTGCTTATAGG-GAA-CAGATCGAAGATAGCAGATC-TGACATTCCTG
* * ** * ***
27018592 TGCTTATAG-GAAACA-AGTTAAAAACAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAAC-AGA
63 TGCTTACAGTGAAGCAGA-TCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAACAAG-
* *
27018653 TTGAAGATA
124 TTGAAAACA
* * * ** * *
27018662 GCAGATTTGACATTCCTGTGCTTA-CGGTGAAGCAGATCGAAGATTTCAG--CATGGCATCCCTG
1 GCAGATTTGGCATCCCTGTGCTTATAGG-GAA-CAGATCGAAGATAGCAGATC-TGACATTCCTG
* * * **
27018724 TGCTTATAG-GAAACA-AGTTGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAAC-AGA
63 TGCTTACAGTGAAGCAGA-TCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAACAAG-
* * *
27018785 TCGAAGATA
124 TTGAAAACA
* * * * *
27018794 GCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
27018838 TTCAGCGTGG
Statistics
Matches: 904, Mismatches: 56, Indels: 16
0.93 0.06 0.02
Matches are distributed among these distances:
130 1 0.00
131 17 0.02
132 870 0.96
133 16 0.02
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
CA
Found at i:27018631 original size:396 final size:396
Alignment explanation
Indices: 27017833--27019046 Score: 1446
Period size: 396 Copynumber: 3.1 Consensus size: 396
27017823 GATTTCAGCA
*
27017833 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAAG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
* * *
27017898 GAATAGATCGAAGATAATAGATCTGACATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTCAG
66 GAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
*
27017963 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCCGTGCTTATA
131 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATA
* * *
27018028 GGGAACAGATCGAAGATAGCATATCTGACATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTC
196 GGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGGTGAAGCAGATCGAAGATTTC
* * * * *
27018093 AGCATGGCATCCATGTGCTTATAGGGAACAAGTTGAAAATAGCATATTTGGCATCCCTGTGCTTA
261 AGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGACATTCCTGTGCTTA
* ** * * * * * *
27018158 TAGG-GAA-CAGATCGAAGATAGCAG-ATCTGACATTCCTGTACTTACAGTGAAGC-AGATCGAA
326 -CGGTGAAGCAGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAG-GAAACAAG-TTGAA
**
27018219 GATTTCAGCA--
386 GATAGCAG-ATT
27018229 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
* *
27018294 GAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGGTGAAGCAGATCGAAGATTTCAG
66 GAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
* *
27018359 CGTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTTCTTATA
131 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATA
27018424 GGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGGTGAAGCAGATCGAAGATTTC
196 GGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGGTGAAGCAGATCGAAGATTTC
*
27018489 AGCGTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGACATTCCTGTGCTTA
261 AGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGACATTCCTGTGCTTA
* * *
27018554 CGGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTAAAAACAG
326 CGGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAGATAG
27018619 CAGATT
391 CAGATT
* * * * *
27018625 TGGCATCCCTGTGCTTATAGGGAAC-AGATTGAAGATAGCAGATTTGACATTCCTGTGCTTA-CG
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAG
** * * * * *
27018688 GTGAAGCAGATCGAAGATTTCAG--CATGGCATCCCTGTGCTTATAG-GAAACA-AGTTGAAGAT
65 G-GAA-CAGATCGAAGATAACAGATC-TGACATTCCTGTGCTTACAGTGAAGCAGA-TCGAAGAT
** * * * * * *
27018749 AGCAG-ATTTGGCATCCCTGTGCTTATAGGGAAC-AGATCGAAGATAGCAGATCTGACATTCCTG
126 TTCAGCA--TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAACAGCAGATTTGGCATCCCTG
* * ** * *
27018812 TGCTTACAGTGAAGCAGATCGAAGATTTCAG--CGTGGA-ATCCCTGTGCTTATAGG-GAA-CA-
188 TGCTTATAGGGAA-CAGATCGAAGATAGCAGATC-T-GACATTCCTGTGCTTA-CGGTGAAGCAG
* * *** * *
27018871 AGTTGAAAACAACAG-ATTTGGCATCCCTGTGCTTATAGGGAAC-AGATCGAAGATAGCAGATCT
249 A-TCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAGATAGCAGATTT
* * *
27018934 GACATTCCTGTGCTTACGGTAAAGCAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTATAGGG
310 GACATTCCTGTGCTTACGGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGA
27018999 AACAAGTTGAAGATAGCAGATT
375 AACAAGTTGAAGATAGCAGATT
* *
27019021 TGGCATCCCTGTGTTTATGGGGAACA
1 TGGCATCCCTGTGCTTATAGGGAACA
27019047 GATCGAAGAA
Statistics
Matches: 718, Mismatches: 77, Indels: 45
0.85 0.09 0.05
Matches are distributed among these distances:
394 3 0.00
395 48 0.07
396 617 0.86
397 49 0.07
398 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (396 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
GAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATA
GGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGGTGAAGCAGATCGAAGATTTC
AGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGACATTCCTGTGCTTA
CGGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAGATAG
CAGATT
Found at i:27018653 original size:484 final size:484
Alignment explanation
Indices: 27018009--27019055 Score: 1801
Period size: 484 Copynumber: 2.2 Consensus size: 484
27017999 ACAGCAGATT
* * * * * *
27018009 TGGCATCCCCGTGCTTATAGGGAAC-AGATCGAAGATAGCATATCTGACATTCCTATGCTTACAG
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAGATAGCAGATTTGACATTCCTGTGCTTACGG
* * * *
27018073 TGAAGCAGATCGAAGATTTCAGCATGGCATCCATGTGCTTATAGGGAACAAGTTGAAAATAGCAT
65 TGAAGCAGATCGAAGATTTCAGCATGGCATCCATGTGCTTATAGGAAACAAGTTAAAAACAGCAG
27018138 ATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTACTTAC
130 ATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTACTTAC
*
27018203 AGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGC
195 AGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAAACAGC
27018268 AGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
260 AGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
* *
27018333 ACGGTGAAGCAGATCGAAGATTTCAGCGTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACA
325 ACAGTGAAGCAGATCGAAGATTTCAGCGTGGAATCCCTGTGCTTATAGGGAACAAGTTGAAAACA
* *
27018398 GCAGATTTGGCATCCCTGTTCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
390 ACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
* *
27018463 TTACGGTGAAGCAGATCGAAGATTTCAGCG
455 TTACGGTAAAGCAGATCGAAGATTTCAGCA
27018493 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGACATTCCTGTGCTTACGGT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGACATTCCTGTGCTTACGGT
*
27018558 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTAAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCATGTGCTTATAGGAAACAAGTTAAAAACAGCAGA
* * * *
27018623 TTTGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAGCAGATTTGACATTCCTGTGCTTACG
131 TTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTACTTACA
* *
27018688 GTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAGATAGCA
196 GTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAAACAGCA
27018753 GATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTA
261 GATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTA
27018818 CAGTGAAGCAGATCGAAGATTTCAGCGTGGAATCCCTGTGCTTATAGGGAACAAGTTGAAAACAA
326 CAGTGAAGCAGATCGAAGATTTCAGCGTGGAATCCCTGTGCTTATAGGGAACAAGTTGAAAACAA
27018883 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCT
391 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCT
27018948 TACGGTAAAGCAGATCGAAGATTTCAGCA
456 TACGGTAAAGCAGATCGAAGATTTCAGCA
* * * * * *
27018977 TGGAATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATGGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGACATTCCTGTGCTTACGGT
27019042 GAA-CAGATCGAAGA
66 GAAGCAGATCGAAGA
27019056 AGCAGATCAA
Statistics
Matches: 532, Mismatches: 30, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
483 11 0.02
484 519 0.98
485 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (484 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGACATTCCTGTGCTTACGGT
GAAGCAGATCGAAGATTTCAGCATGGCATCCATGTGCTTATAGGAAACAAGTTAAAAACAGCAGA
TTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTACTTACA
GTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAAACAGCA
GATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTA
CAGTGAAGCAGATCGAAGATTTCAGCGTGGAATCCCTGTGCTTATAGGGAACAAGTTGAAAACAA
CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCT
TACGGTAAAGCAGATCGAAGATTTCAGCA
Found at i:27018818 original size:352 final size:352
Alignment explanation
Indices: 27018141--27018924 Score: 1340
Period size: 352 Copynumber: 2.2 Consensus size: 352
27018131 ATAGCATATT
* * * *
27018141 TGGCATCCCTGTGCTTATAGGGAAC-AGATCGAAGATAGCAGATCTGACATTCCTGTACTTACAG
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAGATAGCAGATTTGACATTCCTGTGCTTACGG
* *
27018205 TGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAG
65 TGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTAAAAACAGCAG
27018270 ATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTAC
130 ATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTAC
* *
27018335 GGTGAAGCAGATCGAAGATTTCAGCGTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGC
195 GGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAAACAGC
*
27018400 AGATTTGGCATCCCTGTTCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
260 AGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
*
27018465 ACGGTGAAGCAGATCGAAGATTTCAGCG
325 ACAGTGAAGCAGATCGAAGATTTCAGCG
27018493 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGACATTCCTGTGCTTACGGT
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGACATTCCTGTGCTTACGGT
27018558 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTAAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTAAAAACAGCAGA
* *
27018623 TTTGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAGCAGATTTGACATTCCTGTGCTTACG
131 TTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACG
* *
27018688 GTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAGATAGCA
196 GTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAAACAGCA
27018753 GATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTA
261 GATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTA
27018818 CAGTGAAGCAGATCGAAGATTTCAGCG
326 CAGTGAAGCAGATCGAAGATTTCAGCG
* * * * * * *
27018845 TGGAATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGACATTCCTGTGCTTA-CGG
27018910 -GAA-CAGATCGAAGAT
65 TGAAGCAGATCGAAGAT
27018925 AGCAGATCTG
Statistics
Matches: 409, Mismatches: 21, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
351 12 0.03
352 393 0.96
353 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (352 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGACATTCCTGTGCTTACGGT
GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTAAAAACAGCAGA
TTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACG
GTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAAACAGCA
GATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTA
CAGTGAAGCAGATCGAAGATTTCAGCG
Found at i:27018838 original size:132 final size:132
Alignment explanation
Indices: 27018493--27019063 Score: 948
Period size: 132 Copynumber: 4.3 Consensus size: 132
27018483 GATTTCAGCG
* *
27018493 TGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAGATAGCAGATTTGACATTCCTGTGCTTACGG
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATTCCTGTGCTTACGG
* *
27018557 TGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTAAAAACAGCAG
65 TGAAGCAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTATAGGAAACAAGTTGAAAACAGCAG
27018622 ATT
130 ATT
* *
27018625 TGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAGCAGATTTGACATTCCTGTGCTTACGGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGGT
* * *
27018690 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTATAGGAAACAAGTTGAAAACAGCAGA
27018755 TT
131 TT
*
27018757 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGGT
* * *
27018822 GAAGCAGATCGAAGATTTCAGCGTGGAATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGA
66 GAAGCAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTATAGGAAACAAGTTGAAAACAGCAGA
27018887 TT
131 TT
27018889 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGGT
* * * *
27018954 AAAGCAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTATAGGAAACAAGTTGAAAACAGCAGA
27019019 TT
131 TT
* *
27019021 TGGCATCCCTGTGTTTATGGGGAACAGATCGAAGA-AGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
27019064 AAGAACTCAA
Statistics
Matches: 418, Mismatches: 20, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
131 8 0.02
132 409 0.98
133 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (132 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGGT
GAAGCAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTATAGGAAACAAGTTGAAAACAGCAGA
TT
Found at i:27018838 original size:264 final size:264
Alignment explanation
Indices: 27018361--27019063 Score: 990
Period size: 264 Copynumber: 2.7 Consensus size: 264
27018351 GATTTCAGCG
* * * * * *
27018361 TGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAAACAGCAGATTTGGCATCCCTGTTCTTATAG
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TTGAAGATAGCAGATTTGACATTCCTGTGCTTA-CG
** * * ** * *
27018425 G-GAA-CAGATCGAAGATAGCAG-ATCTGACATTCCTGTGCTTACGGTGAAGC-AGATCGAAGAT
64 GTGAAGCAGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAG-GAAACAAG-TTGAAGAT
** ** * *
27018486 TTCAG-CGTGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAGATAGCAGATTTGACATTCCTGT
125 AGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATTCCTGT
* *
27018549 GCTTACGGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTAAA
189 GCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTATAGGAAACAAGTTAAA
*
27018614 AACAGCAGATT
254 AACAACAGATT
27018625 TGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAGCAGATTTGACATTCCTGTGCTTACGGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAGCAGATTTGACATTCCTGTGCTTACGGT
27018690 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAGATAGCAGA
27018755 TTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACA
131 TTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACA
* * *
27018820 GTGAAGCAGATCGAAGATTTCAGCGTGGAATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACA
196 GTGAAGCAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTATAGGAAACAAGTTAAAAACAACA
27018885 GATT
261 GATT
* *
27018889 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAGCAGATTTGACATTCCTGTGCTTACGGT
* * *
27018954 AAAGCAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAGATAGCAGA
* *
27019019 TTTGGCATCCCTGTGTTTATGGGGAACAGATCGAAGA-AGCAGATC
131 TTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
27019064 AAGAACTCAA
Statistics
Matches: 399, Mismatches: 33, Indels: 15
0.89 0.07 0.03
Matches are distributed among these distances:
263 24 0.06
264 357 0.89
265 17 0.04
266 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (264 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAGCAGATTTGACATTCCTGTGCTTACGGT
GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAGATAGCAGA
TTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACA
GTGAAGCAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTATAGGAAACAAGTTAAAAACAACA
GATT
Found at i:27018946 original size:352 final size:351
Alignment explanation
Indices: 27018145--27019055 Score: 1327
Period size: 352 Copynumber: 2.6 Consensus size: 351
27018135 CATATTTGGC
* * * *
27018145 ATCCCTGTGCTTATAGGGAAC-AGATCGAAGATAGCAGATCTGACATTCCTGTACTTACAGTGAA
1 ATCCCTGTGCTTATAGGGAACAAG-TTGAAGATAGCAGATTTGACATTCCTGTGCTTA-AGGGAA
*
27018209 GCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTT
64 GCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAAACAGCAGATTT
* *
27018274 GGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGGTG
129 GGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAGCAGATTTGACATTCCTGTGCTTACGGTG
* *
27018339 AAGCAGATCGAAGATTTCAGCGTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGAT
194 AAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAAACAGCAGAT
* *
27018404 TTGGCATCCCTGTTCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGG
259 TTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG
*
27018469 TGAAGCAGATCGAAGATTTCAGCGTGGC
324 TGAAGCAGATCGAAGATTTCAGCGTGGA
*
27018497 ATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGACATTCCTGTGCTTACGGTGAAG
1 ATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGACATTCCTGTGCTTAAGG-GAAG
*
27018562 CAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTAAAAACAGCAGATTTG
65 CAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAAACAGCAGATTTG
27018627 GCATCCCTGTGCTTATAGGGAACAGATTGAAGATAGCAGATTTGACATTCCTGTGCTTACGGTGA
130 GCATCCCTGTGCTTATAGGGAACAGATTGAAGATAGCAGATTTGACATTCCTGTGCTTACGGTGA
* *
27018692 AGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAGATAGCAGATT
195 AGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAAACAGCAGATT
27018757 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
260 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
27018822 GAAGCAGATCGAAGATTTCAGCGTGGA
325 GAAGCAGATCGAAGATTTCAGCGTGGA
* * * * *
27018849 ATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAA-
1 ATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGACATTCCTGTGCTTA-AGGGAAG
** * * * * * ***
27018913 CAGATCGAAGATAGCAG-ATCTGACATTCCTGTGCTTA-CGGTAAAGC-AGATCGAAGATTTCAG
65 CAGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGG-AAA-CAAG-TTGAAAACAGCAG
* * * *
27018975 CA--TGGAATCCCTGTGCTTATAGGGAACA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGTTT
125 -ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TTGAAGATAGCAGATTTGACATTCCTGTGCTT
* *
27019037 ATGGGGAA-CAGATCGAAGA
188 ACGGTGAAGCAGATCGAAGA
27019056 AGCAGATCAA
Statistics
Matches: 510, Mismatches: 39, Indels: 21
0.89 0.07 0.04
Matches are distributed among these distances:
350 1 0.00
351 30 0.06
352 466 0.91
353 12 0.02
354 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (351 bp):
ATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGACATTCCTGTGCTTAAGGGAAGC
AGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAAACAGCAGATTTGG
CATCCCTGTGCTTATAGGGAACAGATTGAAGATAGCAGATTTGACATTCCTGTGCTTACGGTGAA
GCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAAACAGCAGATTT
GGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTG
AAGCAGATCGAAGATTTCAGCGTGGA
Found at i:27019349 original size:9 final size:9
Alignment explanation
Indices: 27019325--27019383 Score: 55
Period size: 9 Copynumber: 6.1 Consensus size: 9
27019315 TACTCCACTA
27019325 AACCACTCC
1 AACCACTCC
* *
27019334 AAACACTTC
1 AACCACTCC
27019343 AACCACTCCAC
1 AACCACT-C-C
27019354 TAAACCACTCC
1 --AACCACTCC
*
27019365 AACCACTCT
1 AACCACTCC
27019374 AACCACTCC
1 AACCACTCC
27019383 A
1 A
27019384 CTAAACCACT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 30 0.75
11 2 0.05
12 1 0.03
13 7 0.17
ACGTcount: A:0.37, C:0.47, G:0.00, T:0.15
Consensus pattern (9 bp):
AACCACTCC
Found at i:27019352 original size:31 final size:31
Alignment explanation
Indices: 27019316--27019396 Score: 137
Period size: 31 Copynumber: 2.6 Consensus size: 31
27019306 AAATATCTTT
27019316 ACTCCACTAAACCACTCCAAACACT-TCAACC
1 ACTCCACTAAACCACTCCAAACACTCT-AACC
*
27019347 ACTCCACTAAACCACTCCAACCACTCTAACC
1 ACTCCACTAAACCACTCCAAACACTCTAACC
27019378 ACTCCACTAAACCACTCCA
1 ACTCCACTAAACCACTCCA
27019397 CTAAACCACT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
31 47 0.98
32 1 0.02
ACGTcount: A:0.37, C:0.47, G:0.00, T:0.16
Consensus pattern (31 bp):
ACTCCACTAAACCACTCCAAACACTCTAACC
Found at i:27019361 original size:13 final size:13
Alignment explanation
Indices: 27019343--27019446 Score: 117
Period size: 13 Copynumber: 7.9 Consensus size: 13
27019333 CAAACACTTC
27019343 AACCACTCCACTA
1 AACCACTCCACTA
*
27019356 AACCACTCCAACCACTCT
1 AACCACT----CCACT-A
27019374 AACCACTCCACTA
1 AACCACTCCACTA
27019387 AACCACTCCACTA
1 AACCACTCCACTA
27019400 AACCACTCCACTA
1 AACCACTCCACTA
*
27019413 AACGACTCCACTA
1 AACCACTCCACTA
27019426 AACCAC-CC-C--
1 AACCACTCCACTA
27019435 AACCACTCCACT
1 AACCACTCCACT
27019447 TGCCTACAAA
Statistics
Matches: 79, Mismatches: 4, Indels: 17
0.79 0.04 0.17
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
11 2 0.03
12 2 0.03
13 50 0.63
14 5 0.06
17 5 0.06
18 7 0.09
ACGTcount: A:0.37, C:0.48, G:0.01, T:0.14
Consensus pattern (13 bp):
AACCACTCCACTA
Found at i:27019411 original size:31 final size:29
Alignment explanation
Indices: 27019316--27019430 Score: 105
Period size: 31 Copynumber: 3.9 Consensus size: 29
27019306 AAATATCTTT
27019316 ACTCCACTAAACCACTCCA-AACACTTCAACC
1 ACTCCACTAAACCACTCCACAA-AC--CAACC
*
27019347 ACTCCACTAAACCACTCCA-ACCACTCTAACC
1 ACTCCACTAAACCACTCCACA-AAC-C-AACC
*
27019378 ACTCCACTAAACCACTCCAC-TA--AACC
1 ACTCCACTAAACCACTCCACAAACCAACC
*
27019404 ACTCCACTAAACGACTCCACTAAACCA
1 ACTCCACTAAACCACTCCAC-AAACCA
27019431 CCCCAACCAC
Statistics
Matches: 73, Mismatches: 4, Indels: 15
0.79 0.04 0.16
Matches are distributed among these distances:
26 23 0.32
28 1 0.01
30 4 0.05
31 45 0.62
ACGTcount: A:0.38, C:0.45, G:0.01, T:0.16
Consensus pattern (29 bp):
ACTCCACTAAACCACTCCACAAACCAACC
Found at i:27022192 original size:33 final size:38
Alignment explanation
Indices: 27022148--27022229 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 38
27022138 GTAAAAACAC
*
27022148 AATAGTTATAATAATGA-AA-A-GGTATTA-TAAT-AT
1 AATAGTAATAATAATGATAATAGGGTATTAGTAATAAT
*
27022181 AATAGTAATAATGATGATAATAGTGGTATTAGTAATAAT
1 AATAGTAATAATAATGATAATAG-GGTATTAGTAATAAT
*
27022220 AATAATAATA
1 AATAGTAATA
27022230 GAAAATAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 15 0.38
34 2 0.05
35 1 0.03
37 7 0.17
38 4 0.10
39 11 0.28
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.35
Consensus pattern (38 bp):
AATAGTAATAATAATGATAATAGGGTATTAGTAATAAT
Found at i:27022225 original size:9 final size:9
Alignment explanation
Indices: 27022214--27022255 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
27022204 TGGTATTAGT
*
27022214 AATAATAAT
1 AATAATAAA
27022223 AATAATAGAA
1 AATAATA-AA
27022233 AATAATAAA
1 AATAATAAA
*
27022242 AATATTAAA
1 AATAATAAA
27022251 AATAA
1 AATAA
27022256 CACTCTCCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (9 bp):
AATAATAAA
Found at i:27022656 original size:22 final size:22
Alignment explanation
Indices: 27022628--27022723 Score: 120
Period size: 22 Copynumber: 4.2 Consensus size: 22
27022618 TAGGCAAGTA
*
27022628 GAGTGGTTGGGGTGGTTTAGTG
1 GAGTGGTTGGAGTGGTTTAGTG
*
27022650 GAGTGGTTTAGTGTAGTGGTTTAATG
1 GAGTGG-TT-G-G-AGTGGTTTAGTG
*
27022676 GAGTGGTTTGAGTGGTTTAGTG
1 GAGTGGTTGGAGTGGTTTAGTG
*
27022698 GAGTGGTTGGAGTGGTTTAGTA
1 GAGTGGTTGGAGTGGTTTAGTG
27022720 GAGT
1 GAGT
27022724 AAAGATATTT
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
22 41 0.64
23 3 0.05
24 1 0.02
25 3 0.05
26 16 0.25
ACGTcount: A:0.16, C:0.00, G:0.46, T:0.39
Consensus pattern (22 bp):
GAGTGGTTGGAGTGGTTTAGTG
Found at i:27022657 original size:13 final size:13
Alignment explanation
Indices: 27022639--27022705 Score: 88
Period size: 13 Copynumber: 5.5 Consensus size: 13
27022629 AGTGGTTGGG
27022639 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
*
27022652 GTGGTTTAGTGTA
1 GTGGTTTAGTGGA
*
27022665 GTGGTTTAATGGA
1 GTGGTTTAGTGGA
27022678 GTGG-TT--T-GA
1 GTGGTTTAGTGGA
27022687 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
27022700 GTGGTT
1 GTGGTT
27022706 GGAGTGGTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
9 6 0.13
10 3 0.06
12 3 0.06
13 35 0.74
ACGTcount: A:0.15, C:0.00, G:0.43, T:0.42
Consensus pattern (13 bp):
GTGGTTTAGTGGA
Found at i:27022723 original size:13 final size:12
Alignment explanation
Indices: 27022639--27022723 Score: 74
Period size: 13 Copynumber: 7.2 Consensus size: 12
27022629 AGTGGTTGGG
27022639 GTGGTTTAGTGGA
1 GTGGTTTAGT-GA
27022652 GTGGTTTAGTGTA
1 GTGGTTTAGTG-A
*
27022665 GTGGTTTAATGGA
1 GTGGTTTAGT-GA
27022678 GTGG-TT--TGA
1 GTGGTTTAGTGA
27022687 GTGGTTTAGTGGA
1 GTGGTTTAGT-GA
27022700 GTGG-TT-G-GA
1 GTGGTTTAGTGA
27022709 GTGGTTTAGTAGA
1 GTGGTTTAGT-GA
27022722 GT
1 GT
27022724 AAAGATATTT
Statistics
Matches: 61, Mismatches: 1, Indels: 20
0.74 0.01 0.24
Matches are distributed among these distances:
9 12 0.20
10 5 0.08
11 2 0.03
12 6 0.10
13 35 0.57
14 1 0.02
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (12 bp):
GTGGTTTAGTGA
Found at i:27024242 original size:27 final size:27
Alignment explanation
Indices: 27024208--27024265 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
27024198 ACAAGTTAAA
27024208 TTGAAAAT-TAAAAGAATTAATAAAAAT
1 TTGAAAATATAAAA-AATTAATAAAAAT
* *
27024235 TTGAAAATATAAAAAATTAGTTAAAAT
1 TTGAAAATATAAAAAATTAATAAAAAT
27024262 TTGA
1 TTGA
27024266 TTTTTTAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (27 bp):
TTGAAAATATAAAAAATTAATAAAAAT
Found at i:27025264 original size:39 final size:38
Alignment explanation
Indices: 27025173--27025278 Score: 112
Period size: 39 Copynumber: 2.7 Consensus size: 38
27025163 ATATGATATT
*
27025173 GTCATATATAATTTTAATA-TTTATCTTTTTTTTTAAATA
1 GTCAT-TAT-ATTTTAATATTTTATCTTTTTTTTAAAATA
*
27025212 TTCATTATATTTTAGATATTTTATCTTTTTTTTCAAAATAA
1 GTCATTATATTTTA-ATATTTTATCTTTTTTTT-AAAAT-A
27025253 GT-ATTAT-TTTTAATATATTTAT-TTTT
1 GTCATTATATTTTAATAT-TTTATCTTTT
27025279 CTTAATTATT
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
37 6 0.10
38 14 0.24
39 28 0.47
40 9 0.15
41 2 0.03
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (38 bp):
GTCATTATATTTTAATATTTTATCTTTTTTTTAAAATA
Found at i:27031506 original size:15 final size:16
Alignment explanation
Indices: 27031486--27031519 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
27031476 CTGTGTGTTC
*
27031486 TTTATTTT-TTTTATT
1 TTTATTTTATTTAATT
27031501 TTTATTTTATTTAATT
1 TTTATTTTATTTAATT
27031517 TTT
1 TTT
27031520 CACATCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTATTTTATTTAATT
Found at i:27034198 original size:46 final size:44
Alignment explanation
Indices: 27034131--27034307 Score: 203
Period size: 46 Copynumber: 3.9 Consensus size: 44
27034121 TGTAACCCGC
* *
27034131 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGAGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGA-TTCGCAT
* *
27034177 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATTCGC-A--T
* ***
27034223 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGG--ATTCGCAT
27034270 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
27034308 GCTCAACCAT
Statistics
Matches: 110, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
45 3 0.03
46 64 0.58
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATTCGCAT
Found at i:27034250 original size:93 final size:93
Alignment explanation
Indices: 27034138--27034309 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
27034128 CGCCCATAAG
*
27034138 CGAACTCGGACTCAACTCAACGAGCTCGGGA-GTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
27034202 AACAAGTTCGGATGCCTAGTTACATCTCT
65 AACAAGTTCGGATGCCTAGTTACATCTCT
*
27034231 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
27034296 ACGAGTTCGGATGC
66 ACAAGTTCGGATGC
27034310 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 3 0.04
93 72 0.96
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCT
Found at i:27035693 original size:55 final size:55
Alignment explanation
Indices: 27035609--27035741 Score: 167
Period size: 55 Copynumber: 2.4 Consensus size: 55
27035599 TGCCCTTAGT
* * * * * * *
27035609 CCGTGTGCAACACTGACTTTAGAACACGGCCATGACACACTCCTATGTGGCCTGC
1 CCGTGTACAACACTGACTTAAAAACACGGCCATGACACACGCCCATGTAGACTGC
* * *
27035664 CCGTGTACAATACTGACTTAAAAACACGGCCATGGCACACGCCCGTGTAGACTGC
1 CCGTGTACAACACTGACTTAAAAACACGGCCATGACACACGCCCATGTAGACTGC
*
27035719 CCGTGTACAACATTGACTTAAAA
1 CCGTGTACAACACTGACTTAAAA
27035742 TTTTAAGTGC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (55 bp):
CCGTGTACAACACTGACTTAAAAACACGGCCATGACACACGCCCATGTAGACTGC
Found at i:27038351 original size:15 final size:15
Alignment explanation
Indices: 27038331--27038360 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27038321 TTAAAATAGG
27038331 AAGTTTAGTTCTCAT
1 AAGTTTAGTTCTCAT
27038346 AAGTTTAGTTCTCAT
1 AAGTTTAGTTCTCAT
27038361 GTTAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (15 bp):
AAGTTTAGTTCTCAT
Found at i:27046507 original size:20 final size:21
Alignment explanation
Indices: 27046469--27046507 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
27046459 AGAGGTTCTC
*
27046469 GTAATTTTAGAGGTAAAGGTT
1 GTAAATTTAGAGGTAAAGGTT
*
27046490 GTAAATTTA-AGGTGAAGG
1 GTAAATTTAGAGGTAAAGG
27046508 CTTTAGGTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.00, G:0.31, T:0.33
Consensus pattern (21 bp):
GTAAATTTAGAGGTAAAGGTT
Found at i:27048642 original size:18 final size:18
Alignment explanation
Indices: 27048619--27048657 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27048609 AAGATAAACA
27048619 TAAAATTAAA-TTGAATAT
1 TAAAA-TAAACTTGAATAT
*
27048637 TAAAATAAACTTTAATAT
1 TAAAATAAACTTGAATAT
27048655 TAA
1 TAA
27048658 TTAATAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
TAAAATAAACTTGAATAT
Found at i:27048675 original size:15 final size:15
Alignment explanation
Indices: 27048657--27048685 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27048647 TTTAATATTA
27048657 ATTAATAAAATACTT
1 ATTAATAAAATACTT
27048672 ATTAATAAAATACT
1 ATTAATAAAATACT
27048686 ATTGAGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (15 bp):
ATTAATAAAATACTT
Found at i:27057879 original size:29 final size:30
Alignment explanation
Indices: 27057810--27057890 Score: 76
Period size: 32 Copynumber: 2.7 Consensus size: 30
27057800 CTTTTATACT
* *
27057810 TAATAAATAATAATAAAATAATAAAATATC
1 TAATTAATATTAATAAAATAATAAAATATC
* **
27057840 TTATTAAAATATTAATAAAATAAT-ATTTATC
1 TAATT--AATATTAATAAAATAATAAAATATC
27057871 TAATTAATAGTT-ATAAAATA
1 TAATTAATA-TTAATAAAATA
27057891 TCATCAACAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
29 12 0.29
30 5 0.12
31 9 0.21
32 16 0.38
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.38
Consensus pattern (30 bp):
TAATTAATATTAATAAAATAATAAAATATC
Found at i:27060667 original size:28 final size:28
Alignment explanation
Indices: 27060634--27060696 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
27060624 TTCGAATTTT
27060634 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGTCATTCTCAATATCTC
*
27060662 GCACACTAAGTGTCATTCTCAATATTTC
1 GCACACTAAGTGTCATTCTCAATATCTC
*
27060690 GTACACT
1 GCACACT
27060697 GAGTACCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (28 bp):
GCACACTAAGTGTCATTCTCAATATCTC
Found at i:27063526 original size:53 final size:52
Alignment explanation
Indices: 27063379--27063538 Score: 207
Period size: 52 Copynumber: 3.1 Consensus size: 52
27063369 TGACGGAAAA
* *
27063379 GATGTGATATATGATTCCGTATAAGACCATAGGC-GGGCTATGGCATCGGTAC
1 GATGTGATATGTGATTCCGTATAAGACCATA-GCTGGGCTATGGCATCGGTAT
* * *
27063431 AATGTGATTTGTG-TTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGT
1 GATGTGATATGTGATT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
* * *
27063483 GATGTGATAATGTGATTCCGTATAAGGCCATATCTGGGATATGGCATCGGTAT
1 GATGTGAT-ATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
27063536 GAT
1 GAT
27063539 ATGTGATCCG
Statistics
Matches: 93, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
51 4 0.04
52 48 0.52
53 39 0.42
54 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.31
Consensus pattern (52 bp):
GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
Found at i:27064353 original size:20 final size:19
Alignment explanation
Indices: 27064328--27064385 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
27064318 TACACATGGG
*
27064328 CAGGCCACACGAGCATGTTC
1 CAGGCCACACG-GCATGTCC
*
27064348 CAGGCCACACGGACGTGTCC
1 CAGGCCACACGG-CATGTCC
*
27064368 CAAGCCACACGGGCATGT
1 CAGGCCACAC-GGCATGT
27064386 ACCCCTATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 29 0.91
21 2 0.06
ACGTcount: A:0.24, C:0.36, G:0.28, T:0.12
Consensus pattern (19 bp):
CAGGCCACACGGCATGTCC
Found at i:27070905 original size:53 final size:52
Alignment explanation
Indices: 27070755--27070914 Score: 189
Period size: 52 Copynumber: 3.1 Consensus size: 52
27070745 TAACGGAAAA
* * * *
27070755 GATGAGATATATGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
1 GATGTGATATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGGTAT
* * *
27070807 AATGTGATTTGTG-TTCCCGTATAAGACCATAGT-TGGGCTATGGCATCGGTGT
1 GATGTGATATGTGATT-CCGTATAAGACCATA-TCTGGGCTATGGCATCGGTAT
* * *
27070859 GATGTGATAATGTGATTCTGTATAAGACAATATCTGGGATATGGCATCGGTAT
1 GATGTGAT-ATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGGTAT
27070912 GAT
1 GAT
27070915 ATGTGATCCG
Statistics
Matches: 90, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
51 2 0.02
52 49 0.54
53 37 0.41
54 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.32
Consensus pattern (52 bp):
GATGTGATATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGGTAT
Found at i:27071733 original size:20 final size:20
Alignment explanation
Indices: 27071705--27071762 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
27071695 TGCACTTGGG
*
27071705 CAAGCCACACGGGCATGTTC
1 CAAGCCACACGGGCATGTCC
* *
27071725 CAGGCCACACGGGCGTGTCC
1 CAAGCCACACGGGCATGTCC
* *
27071745 CAAGCCATACGAGCATGT
1 CAAGCCACACGGGCATGT
27071763 GCCCCTATCT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.24, C:0.34, G:0.28, T:0.14
Consensus pattern (20 bp):
CAAGCCACACGGGCATGTCC
Found at i:27072379 original size:21 final size:22
Alignment explanation
Indices: 27072338--27072379 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
27072328 ATAATTTAAT
27072338 TTTTCTTTTTTGGTCATCCAAA
1 TTTTCTTTTTTGGTCATCCAAA
27072360 TTTTCTTTTTTGGTCA-CCAA
1 TTTTCTTTTTTGGTCATCCAA
27072380 TCGTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.17, C:0.19, G:0.10, T:0.55
Consensus pattern (22 bp):
TTTTCTTTTTTGGTCATCCAAA
Found at i:27078498 original size:1 final size:1
Alignment explanation
Indices: 27078492--27078522 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
27078482 GAGAAATTGT
27078492 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
27078523 CCTTTGCAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:27086165 original size:13 final size:13
Alignment explanation
Indices: 27086147--27086171 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27086137 AATCACAAAT
27086147 AAATACACATATC
1 AAATACACATATC
27086160 AAATACACATAT
1 AAATACACATAT
27086172 TTTTTTTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATACACATATC
Found at i:27086443 original size:13 final size:13
Alignment explanation
Indices: 27086425--27086454 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
27086415 AGGGTCTTAC
27086425 TCGAAAACACATA
1 TCGAAAACACATA
*
27086438 TCGAAACCACATA
1 TCGAAAACACATA
27086451 TCGA
1 TCGA
27086455 TGCCATGGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.27, G:0.10, T:0.17
Consensus pattern (13 bp):
TCGAAAACACATA
Found at i:27087528 original size:10 final size:10
Alignment explanation
Indices: 27087513--27087537 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
27087503 ATGATATATA
27087513 TATTATATCT
1 TATTATATCT
27087523 TATTATATCT
1 TATTATATCT
27087533 TATTA
1 TATTA
27087538 CAAATTAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (10 bp):
TATTATATCT
Found at i:27098337 original size:45 final size:46
Alignment explanation
Indices: 27098120--27098531 Score: 411
Period size: 45 Copynumber: 8.7 Consensus size: 46
27098110 AAGGTAAGGT
* * **
27098120 GCCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCACCCATCAAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATATCAAA
* * * * *
27098168 GTCGATGCCATGTCTCAGACATGGTCTTACACTGACTTTCGTATATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--AC--ATATCAAA
* ***
27098218 GCC-ACTGCCATGTCCCAGACATGGTCTTACACT-AGCTTTCATCTATCGGT
1 GCCGA-TGCCATGTCCCAGACATGGTCTTACACTGA-C--ACA--TATCAAA
* * *
27098268 GCTGGTGCCATGTTCCAGACATGGTCTTACACTGACACATATC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAA
*
27098313 GCCGATGCCATATCCCAGACATGGTCTTACACTGACACATATCAAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAA
*
27098359 GCTGATGCCATGTCCCAGACATGGTCTTACACTGACACATATC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAA
* * * * **
27098404 GCTGATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATCTATCAGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACA--TATCAAA
27098454 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAA
* *
27098499 GCCGATGCCATATCCCAAACATGGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
27098532 AGCTCTCATA
Statistics
Matches: 310, Mismatches: 38, Indels: 35
0.81 0.10 0.09
Matches are distributed among these distances:
45 104 0.34
46 53 0.17
47 4 0.01
48 37 0.12
49 7 0.02
50 104 0.34
51 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAA
Found at i:27098465 original size:186 final size:191
Alignment explanation
Indices: 27098120--27098531 Score: 586
Period size: 186 Copynumber: 2.2 Consensus size: 191
27098110 AAGGTAAGGT
* * * * *
27098120 GCCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCACCCATCAAAGTCGATGCCATGTCTCA
1 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCACACACATCAAAGTCGATGCCATGTCCCA
* *
27098185 GACATGGTCTTACACTGACTTTCGTATATCGAGGCCACTGCCATGTCCCAGACATGGTCTTACAC
66 GACATGGTCTTACACTGAC-TACG-ATATCGAAGCCACTGCCATGTCCCAGACATGGTCTTACAC
* * * * *
27098250 TAGCTTTCATCTATCGGTGCTGGTGCCATGTTCCAGACATGGTCTTACACTGACACATATCAA
129 TAGCTCTCATCTATCAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAA
*
27098313 GCCGATGCCATATCCCAGACATGGTCTTACACT-G-ACACATATCAAAG-CTGATGCCATGTCCC
1 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCACACACATCAAAGTC-GATGCCATGTCCC
* *
27098375 AGACATGGTCTTACACTGAC-AC-ATATC-AAGCTGA-TGCCATGTCCCAGACATGGTCTTATAC
65 AGACATGGTCTTACACTGACTACGATATCGAAGC-CACTGCCATGTCCCAGACATGGTCTTACAC
*
27098436 TGGCTCTCATCTATCAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAA
129 TAGCTCTCATCTATCAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAA
*
27098499 GCCGATGCCATATCCCAAACATGGTCTTACACT
1 GCCGATGCCATATCCCAGACATGGTCTTACACT
27098532 AGCTCTCATA
Statistics
Matches: 200, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
186 118 0.59
187 6 0.03
189 1 0.00
190 1 0.00
191 42 0.21
192 1 0.00
193 31 0.16
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (191 bp):
GCCGATGCCATATCCCAGACATGGTCTTACACTGGCACACACATCAAAGTCGATGCCATGTCCCA
GACATGGTCTTACACTGACTACGATATCGAAGCCACTGCCATGTCCCAGACATGGTCTTACACTA
GCTCTCATCTATCAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAA
Found at i:27098496 original size:95 final size:95
Alignment explanation
Indices: 27098120--27098540 Score: 505
Period size: 95 Copynumber: 4.4 Consensus size: 95
27098110 AAGGTAAGGT
* * * * * *
27098120 GCCGATGCTATGTCCCAGACATGGTCTTACACT-G-GCTCACCCATCAAAGTCGATGCCATGTCT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTATCAAAGCCGATGCCATGTCC
* *
27098183 CAGACATGGTCTTACACTGACTTTCGTATATCGAG
66 CAGACATGGTCTTACACTGAC--AC--ATATC-AA
* *** * * *
27098218 GCC-ACTGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATCTATCGGTGCTGGTGCCATGTT
1 GCCGA-TGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTATCAAAGCCGATGCCATGTC
27098282 CCAGACATGGTCTTACACTGACACATATCAA
65 CCAGACATGGTCTTACACTGACACATATCAA
* * * *
27098313 GCCGATGCCATATCCCAGACATGGTCTTACACT-G-ACACA--TATCAAAGCTGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTATCAAAGCCGATGCCATGTCC
27098374 CAGACATGGTCTTACACTGACACATATCAA
66 CAGACATGGTCTTACACTGACACATATCAA
* * * **
27098404 GCTGATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATCTATCAGTGCCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTATCAAAGCCGATGCCATGTCC
27098469 CAGACATGGTCTTACACTGACACATATCAA
66 CAGACATGGTCTTACACTGACACATATCAA
* *
27098499 GCCGATGCCATATCCCAAACATGGTCTTACACTAGCTCTCAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT
27098541 ATCTCCTTAG
Statistics
Matches: 278, Mismatches: 37, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
91 77 0.28
92 1 0.00
93 5 0.02
94 1 0.00
95 117 0.42
96 6 0.02
97 1 0.00
98 31 0.11
99 1 0.00
100 38 0.14
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTATCAAAGCCGATGCCATGTCC
CAGACATGGTCTTACACTGACACATATCAA
Found at i:27100267 original size:24 final size:24
Alignment explanation
Indices: 27100240--27100374 Score: 207
Period size: 24 Copynumber: 5.6 Consensus size: 24
27100230 CTTATTATGT
* * **
27100240 TCGCACACATAGAGCTATAACAAA
1 TCGCACACATAGTGCCATAGTAAA
*
27100264 TCGCACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
27100288 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
27100312 TCACACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
27100336 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
27100360 TCGCACACATAGTGC
1 TCGCACACATAGTGC
27100375 ATTTGAGATA
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 104 1.00
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:27100274 original size:48 final size:48
Alignment explanation
Indices: 27100218--27100374 Score: 181
Period size: 48 Copynumber: 3.3 Consensus size: 48
27100208 ACCGAATGTG
* ** *
27100218 GCACACATAGTGCT-TATTATGTTCGCACACATAGAGCTATAACAAATC
1 GCACACATAGTGCTATAGTA-AATCGCACACATAGAGCCATAACAAATC
* **
27100266 GCACACATAGTGCTATAGTAAATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTATAGTAAATCGCACACATAGAGCCATAACAAATC
* * * ***
27100314 ACACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTGAATC
1 GCACACATAGTGCTATAGTAAATCGCACACATAGAGCCATAACAAATC
27100362 GCACACATAGTGC
1 GCACACATAGTGC
27100375 ATTTGAGATA
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
48 93 0.96
49 4 0.04
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (48 bp):
GCACACATAGTGCTATAGTAAATCGCACACATAGAGCCATAACAAATC
Found at i:27100914 original size:2 final size:2
Alignment explanation
Indices: 27100907--27100943 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
27100897 TGATGGCCGA
*
27100907 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27100944 GTGTCATCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27118385 original size:30 final size:30
Alignment explanation
Indices: 27118349--27118409 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
27118339 TCCTTAACTC
27118349 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
27118379 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
27118409 A
1 A
27118410 GGCTCGGGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:27119619 original size:9 final size:9
Alignment explanation
Indices: 27119601--27119630 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
27119591 ATATTCCAAC
*
27119601 TTAAAACCA
1 TTAAATCCA
27119610 TTAAATCCA
1 TTAAATCCA
27119619 TTAAATCCA
1 TTAAATCCA
27119628 TTA
1 TTA
27119631 CCTTTGAACA
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:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (9 bp):
TTAAATCCA
Found at i:27123365 original size:27 final size:26
Alignment explanation
Indices: 27123313--27123365 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
27123303 TATATGTATT
* *
27123313 AAAATATATACGTAATAATAAGAATA
1 AAAATATATACATAATAATAAAAATA
* *
27123339 AAAAGTATATACATAGTATTAAAAATA
1 AAAA-TATATACATAATAATAAAAATA
27123366 TGTACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (26 bp):
AAAATATATACATAATAATAAAAATA
Found at i:27123379 original size:25 final size:25
Alignment explanation
Indices: 27123292--27123782 Score: 155
Period size: 25 Copynumber: 19.7 Consensus size: 25
27123282 AACGATATAT
*
27123292 AAATATGTACAT-ATAT-GTATT-A
1 AAATATATACATAATATAGTATTAA
* *
27123314 AAATATATACGTAATAATAAG-AATAA
1 AAATATATACATAAT-AT-AGTATTAA
27123340 AAAGTATATAC-----ATAGTATTAA
1 AAA-TATATACATAATATAGTATTAA
* **
27123361 AAATATGTACATAATATAGCGTTAA
1 AAATATATACATAATATAGTATTAA
*
27123386 AAATACATACATAATATAGTTATTAAA
1 AAATATATACATAATATAG-TATT-AA
* **
27123413 AAATATATACATAAGATAATATGCAAGAAA
1 AAATATATACAT-A-AT-ATA-G-TATTAA
* *
27123443 AAAAATATAAATAATATAGTATTAA
1 AAATATATACATAATATAGTATTAA
* *
27123468 AGATATATACATAATATA-TATAAA
1 AAATATATACATAATATAGTATTAA
27123492 AATCATATATACATGATATATA-TATTAGCA
1 AA--ATATATACAT-A-ATATAGTATTA--A
* * * ** *
27123522 ACAATAATGATACAAAAAAAACAACT-A
1 A-AAT-AT-ATACATAATATAGTATTAA
* *
27123549 TAATACAATACATAA-ATACGTACATATATA
1 AAATA-TATACATAATATA-GT--AT-TA-A
* * * *
27123579 TATATTTATAAATAATAATGGTATTAA
1 -AAATATATACATAAT-ATAGTATTAA
* *
27123606 AAATATAGA-AT-ATATAGTATTAG
1 AAATATATACATAATATAGTATTAA
* *
27123629 AAATATATACATAAAATAATA-TAA
1 AAATATATACATAATATAGTATTAA
*
27123653 AAATATATA-ACTAAT-GA-TATT-A
1 AAATATATACA-TAATATAGTATTAA
27123675 AAATATATACAT-ATA-A-TATATAA
1 AAATATATACATAATATAGTAT-TAA
*
27123698 AAA-ATATA-AT-AT-TA--A-AAA
1 AAATATATACATAATATAGTATTAA
* * *
27123716 AATATATGTACATAACATA-TATAAA
1 AA-ATATATACATAATATAGTATTAA
*
27123741 AAATATATACATAATATAATATT-A
1 AAATATATACATAATATAGTATTAA
*
27123765 AAATATTTACATAATATA
1 AAATATATACATAATATA
27123783 TACATATTAG
Statistics
Matches: 351, Mismatches: 63, Indels: 108
0.67 0.12 0.21
Matches are distributed among these distances:
18 4 0.01
19 1 0.00
20 13 0.04
21 22 0.06
22 30 0.09
23 28 0.08
24 61 0.17
25 69 0.20
26 27 0.08
27 27 0.08
28 15 0.04
29 10 0.03
30 30 0.09
31 12 0.03
32 2 0.01
ACGTcount: A:0.57, C:0.06, G:0.05, T:0.32
Consensus pattern (25 bp):
AAATATATACATAATATAGTATTAA
Found at i:27123488 original size:13 final size:13
Alignment explanation
Indices: 27123470--27123515 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
27123460 AGTATTAAAG
27123470 ATATATACATAAT
1 ATATATACATAAT
*
27123483 ATATATA-AAAAT
1 ATATATACATAAT
*
27123495 CATATATACATGAT
1 -ATATATACATAAT
27123509 ATATATA
1 ATATATA
27123516 TTAGCAACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 4 0.14
13 21 0.75
14 3 0.11
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (13 bp):
ATATATACATAAT
Found at i:27123617 original size:22 final size:22
Alignment explanation
Indices: 27123590--27123780 Score: 101
Period size: 24 Copynumber: 8.4 Consensus size: 22
27123580 ATATTTATAA
**
27123590 ATAATAATGGTATTAAAAATAT
1 ATAATAATAATATTAAAAATAT
* * *
27123612 AGAATATATAGTATTAGAAATAT
1 ATAATA-ATAATATTAAAAATAT
27123635 ATACATAA-AATAATATAAAAATAT
1 ATA-ATAATAAT-AT-TAAAAATAT
*
27123659 ATAACTAATGATATT-AAAATAT
1 ATAA-TAATAATATTAAAAATAT
27123681 ATACAT-ATAATATATAAAAA-AT
1 ATA-ATAATAATAT-TAAAAATAT
*
27123703 ATAATATTAA-A--AAAATATAT
1 ATAATAATAATATTAAAA-ATAT
* * *
27123723 GTACATAACATATATAAAAAATAT
1 ATA-ATAATA-ATATTAAAAATAT
27123747 ATACATAATATAATATT-AAAATAT
1 ATA-AT-A-ATAATATTAAAAATAT
*
27123771 TTACATAATA
1 ATA-ATAATA
27123781 TATACATATT
Statistics
Matches: 134, Mismatches: 16, Indels: 38
0.71 0.09 0.20
Matches are distributed among these distances:
18 4 0.03
19 1 0.01
20 4 0.03
21 13 0.10
22 31 0.23
23 28 0.21
24 40 0.30
25 11 0.08
26 2 0.01
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (22 bp):
ATAATAATAATATTAAAAATAT
Found at i:27123661 original size:24 final size:24
Alignment explanation
Indices: 27123629--27123778 Score: 115
Period size: 24 Copynumber: 6.6 Consensus size: 24
27123619 ATAGTATTAG
27123629 AAATATATACATAAAATAATATAA
1 AAATATATACATAAAATAATATAA
* *
27123653 AAATATATA-ACT--AATGATATTA
1 AAATATATACA-TAAAATAATATAA
*
27123675 AAATATATACATATAAT-ATATAA
1 AAATATATACATAAAATAATATAA
*
27123698 AAA-ATATA-AT--ATTAA-A-AA
1 AAATATATACATAAAATAATATAA
* *
27123716 AATATATGTACATAACAT-ATATAAA
1 AA-ATATATACATAAAATAATAT-AA
* *
27123741 AAATATATACATAATATAATATTA
1 AAATATATACATAAAATAATATAA
*
27123765 AAATATTTACATAA
1 AAATATATACATAA
27123779 TATATACATA
Statistics
Matches: 101, Mismatches: 11, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
18 4 0.04
19 4 0.04
20 5 0.05
21 4 0.04
22 24 0.24
23 12 0.12
24 40 0.40
25 8 0.08
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (24 bp):
AAATATATACATAAAATAATATAA
Found at i:27123704 original size:16 final size:16
Alignment explanation
Indices: 27123685--27123721 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
27123675 AAATATATAC
27123685 ATATAATA-TATAAAAA
1 ATATAATATTA-AAAAA
27123701 ATATAATATTAAAAAA
1 ATATAATATTAAAAAA
27123717 ATATA
1 ATATA
27123722 TGTACATAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATATAATATTAAAAAA
Found at i:27123714 original size:70 final size:69
Alignment explanation
Indices: 27123590--27123721 Score: 153
Period size: 70 Copynumber: 1.9 Consensus size: 69
27123580 ATATTTATAA
* * * * *
27123590 ATAATAATGGTATTAAAAATATAGAATATATAGTATTAGAAATATATACATAAAATAATATAAAA
1 ATAATAATGATATTAAAAATATACAATATATAGTATAAAAAATATATACATAAAAAAATATAAAA
27123655 ATAT
66 ATAT
*
27123659 ATAACTAATGATATTAAAATATATAC-ATATAATA-TATAAAAAATATAATA-TTAAAAAAATAT
1 ATAA-TAATGATATTAAAA-ATATACAATAT-ATAGTATAAAAAATAT-ATACATAAAAAAATAT
27123721 A
62 A
27123722 TGTACATAAC
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
69 4 0.08
70 38 0.72
71 11 0.21
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (69 bp):
ATAATAATGATATTAAAAATATACAATATATAGTATAAAAAATATATACATAAAAAAATATAAAA
ATAT
Found at i:27123756 original size:11 final size:11
Alignment explanation
Indices: 27123732--27123788 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
27123722 TGTACATAAC
* *
27123732 ATATATAAAAA
1 ATATATACATA
27123743 ATATATACATA
1 ATATATACATA
* *
27123754 ATATAATATTAAA
1 ATAT-ATA-CATA
*
27123767 ATATTTACATA
1 ATATATACATA
27123778 ATATATACATA
1 ATATATACATA
27123789 TTAGAAATAA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
11 25 0.69
12 5 0.14
13 6 0.17
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (11 bp):
ATATATACATA
Found at i:27123762 original size:42 final size:41
Alignment explanation
Indices: 27123631--27123762 Score: 115
Period size: 42 Copynumber: 3.0 Consensus size: 41
27123621 AGTATTAGAA
* *
27123631 ATATATACATAAA-ATAATATAAAAATATATAACTAATGATATTAAA
1 ATATATACATAAATAT-ATA-AAAAATATAT-AC--ATAATA-TAAT
* * *
27123677 ATATATACATATAATATATAAAAAATATAATA-TTAAAAAAAT
1 ATATATACATA-AATATATAAAAAATAT-ATACATAATATAAT
*
27123719 ATATGTACATAACATATATAAAAAATATATACATAATATAAT
1 ATATATACATAA-ATATATAAAAAATATATACATAATATAAT
27123761 AT
1 AT
27123763 TAAAATATTT
Statistics
Matches: 72, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
41 4 0.06
42 36 0.50
43 3 0.04
46 20 0.28
47 7 0.10
48 2 0.03
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.33
Consensus pattern (41 bp):
ATATATACATAAATATATAAAAAATATATACATAATATAAT
Found at i:27123783 original size:13 final size:13
Alignment explanation
Indices: 27123631--27123784 Score: 62
Period size: 13 Copynumber: 12.4 Consensus size: 13
27123621 AGTATTAGAA
*
27123631 ATATATACATAAA
1 ATATATACATAAT
*
27123644 ATAATATA-AAAAT
1 AT-ATATACATAAT
27123657 ATATA-AC-TAAT
1 ATATATACATAAT
27123668 GATAT-TA-A-AAT
1 -ATATATACATAAT
* *
27123679 ATATACATATAAT
1 ATATATACATAAT
*
27123692 ATATA-A-AAAAT
1 ATATATACATAAT
* *
27123703 ATAATATTAAAAAAAT
1 AT-ATA-T-ACATAAT
* *
27123719 ATATGTACATAAC
1 ATATATACATAAT
*
27123732 ATATATA-A-AAA
1 ATATATACATAAT
27123743 ATATATACATAAT
1 ATATATACATAAT
* *
27123756 ATA-ATA-TTAAA
1 ATATATACATAAT
*
27123767 ATATTTACATAAT
1 ATATATACATAAT
27123780 ATATA
1 ATATA
27123785 CATATTAGAA
Statistics
Matches: 106, Mismatches: 18, Indels: 34
0.67 0.11 0.22
Matches are distributed among these distances:
10 4 0.04
11 29 0.27
12 20 0.19
13 37 0.35
14 6 0.06
15 3 0.03
16 7 0.07
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.34
Consensus pattern (13 bp):
ATATATACATAAT
Found at i:27123854 original size:47 final size:47
Alignment explanation
Indices: 27123753--27123855 Score: 122
Period size: 47 Copynumber: 2.2 Consensus size: 47
27123743 ATATATACAT
* *
27123753 AATATAATATTAAAATATTTACATAATATATACATATTAGAAATAAA
1 AATATACTATTAAAATATCTACATAATATATACATATTAGAAATAAA
* *
27123800 AAAATACTATTAATAATA-CTACATAAATATATACATA-TA-TAATAAA
1 AATATACTATTAA-AATATCTACAT-AATATATACATATTAGAAATAAA
27123846 ACATATACTA
1 A-ATATACTA
27123856 CTACTACTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
46 7 0.15
47 25 0.52
48 16 0.33
ACGTcount: A:0.57, C:0.08, G:0.01, T:0.34
Consensus pattern (47 bp):
AATATACTATTAAAATATCTACATAATATATACATATTAGAAATAAA
Found at i:27123867 original size:47 final size:48
Alignment explanation
Indices: 27123772--27123871 Score: 118
Period size: 47 Copynumber: 2.1 Consensus size: 48
27123762 TTAAAATATT
*
27123772 TACAT-AATATATACATATTAGAAATAAAAAAATACTATTAATAATAC
1 TACATAAATATATACATATTAGAAATAAAAAAATACTACTAATAATAC
* * * *
27123819 TACATAAATATATACATA-TA-TAATAAAACATATACTACTACTACTAC
1 TACATAAATATATACATATTAGAAATAAAA-AAATACTACTAATAATAC
27123866 TA-ATAA
1 TACATAA
27123872 CAATAATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
46 11 0.24
47 23 0.50
48 12 0.26
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.32
Consensus pattern (48 bp):
TACATAAATATATACATATTAGAAATAAAAAAATACTACTAATAATAC
Found at i:27124512 original size:22 final size:22
Alignment explanation
Indices: 27124470--27124512 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
27124460 CAAAAAAGGT
* *
27124470 ATTTTTTTACTTTATTTTTTTA
1 ATTTTTTTACTGTATTATTTTA
27124492 ATTTTTTTA-TGTATATATTTT
1 ATTTTTTTACTGTAT-TATTTT
27124513 GATATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (22 bp):
ATTTTTTTACTGTATTATTTTA
Found at i:27124573 original size:13 final size:13
Alignment explanation
Indices: 27124551--27124584 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
27124541 AATAGATTCG
27124551 AATAATAAAATAAA
1 AATAA-AAAATAAA
27124565 AATAAAAAATAAA
1 AATAAAAAATAAA
*
27124578 AAGAAAA
1 AATAAAA
27124585 GAAAAGAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (13 bp):
AATAAAAAATAAA
Found at i:27125813 original size:77 final size:76
Alignment explanation
Indices: 27125660--27125847 Score: 218
Period size: 77 Copynumber: 2.5 Consensus size: 76
27125650 GAATTGAAGT
* * * * ** * * * *
27125660 TCAACTCATCTCTCGGATTATGAGTT-AA-CTTTTGAAAAGGTAAAAATTGAAAATACCTTAGTG
1 TCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAA-ACAGAAATTAAAAATACCTCAGCG
*
27125723 TGTGACCTAAGGC
65 TGTGACC-GAGGC
27125736 TCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAAACAGAAATTAAAAATACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAAACAGAAATTAAAAATACCTCAGCGT
27125801 GTGACTCGAGGC
66 GTGAC-CGAGGC
* *
27125813 TCAACTCACCTCTCGCAATATGAATTGATTTTTTT
1 TCAACTCACCTCTCGCAATATGAGTTGAATTTTTT
27125848 TTTGAAACAT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
76 23 0.24
77 63 0.66
78 10 0.10
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (76 bp):
TCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAAACAGAAATTAAAAATACCTCAGCGT
GTGACCGAGGC
Found at i:27125931 original size:90 final size:87
Alignment explanation
Indices: 27125772--27126101 Score: 339
Period size: 90 Copynumber: 3.9 Consensus size: 87
27125762 GAATTTTTTG
* *
27125772 AAAAACAGAAATTAAAAATACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAA
1 AAAAACAGAAATT-AAAATACCTCAGCGTGT-CCT-GAGGCTCAACTCACCTCTCGCAATATGAG
** *
27125837 TTGATTTTTTTTTTGAAACATAAATT
63 TTGATTTTTTTGATG-AACAAAAATT
*
27125863 AAAGAACAGAAATTAAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAA-AACAGAAATTAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
27125928 TGA---TTTTGACGAACAAAAATT
64 TGATTTTTTTGATGAACAAAAATT
* * * * *
27125949 GAAAAACAGAAATTGAAATACCTCAGCATGTCAGCCGAGGCTTAACTCACTTCTCGCAATATGAG
1 -AAAAACAGAAATTAAAATACCTCAGCGTGTC--CTGAGGCTCAACTCACCTCTCGCAATATGAG
*
27126014 TTGATTTTTTTGATGAACAGAAATT
63 TTGATTTTTTTGATGAACAAAAATT
* *
27126039 ------A-AAA-T----TACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTG
1 AAAAACAGAAATTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
27126092 ATTTTTTTGA
66 ATTTTTTTGA
27126102 AAGATAGAAA
Statistics
Matches: 210, Mismatches: 21, Indels: 32
0.80 0.08 0.12
Matches are distributed among these distances:
75 39 0.19
77 13 0.06
81 1 0.00
82 3 0.01
83 1 0.00
85 12 0.06
86 22 0.10
87 40 0.19
90 48 0.23
91 9 0.04
92 22 0.10
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (87 bp):
AAAAACAGAAATTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTGATGAACAAAAATT
Found at i:27126015 original size:87 final size:87
Alignment explanation
Indices: 27125769--27126021 Score: 305
Period size: 87 Copynumber: 2.9 Consensus size: 87
27125759 GTTGAATTTT
*
27125769 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTGACTCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATT-AAAATACCTCAGCGTGTCAC-CGAGGCTCAACTCACCTCTCGCAATAT
* *** *
27125834 GAATTGATTTTTTTTTTGAAACATAAA
64 GAGTTGA---TTTTGACGAAACAAAAA
* *
27125861 TT-AAAGAACAGAAATTAAAATTACCTTAGCGTGTC-CTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAA-AACAGAAATTAAAA-TACCTCAGCGTGTCACCGAGGCTCAACTCACCTCTCGCAATAT
27125924 GAGTTGATTTTGACG-AACAAAAA
64 GAGTTGATTTTGACGAAACAAAAA
* * * *
27125947 TTGAAAAACAGAAATTGAAATACCTCAGCATGTCAGCCGAGGCTTAACTCACTTCTCGCAATATG
1 TTGAAAAACAGAAATTAAAATACCTCAGCGTGTCA-CCGAGGCTCAACTCACCTCTCGCAATATG
27126012 AGTTGATTTT
65 AGTTGATTTT
27126022 TTTGATGAAC
Statistics
Matches: 142, Mismatches: 14, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
85 12 0.08
86 22 0.15
87 44 0.31
90 32 0.23
91 8 0.06
92 24 0.17
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (87 bp):
TTGAAAAACAGAAATTAAAATACCTCAGCGTGTCACCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTGACGAAACAAAAA
Found at i:27126084 original size:75 final size:74
Alignment explanation
Indices: 27125953--27126250 Score: 350
Period size: 75 Copynumber: 3.9 Consensus size: 74
27125943 AAAATTGAAA
* * * * *
27125953 AACAGAAATTGAAATACCTCAGCATGTCAGCCGAGGCTTAACTCACTTCTCGCAATATGAGTTGA
1 AACAGAAATTAAAATACCTCAGCGTGTC--TCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
27126018 TTTTTTTGATG
64 TTTTTTTGATG
* *
27126029 AACAGAAATTAAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGAT
1 AACAGAAATTAAAA-TACCTCAGCGTGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
27126094 TTTTTTGA-A
65 TTTTTTGATG
* * *
27126103 AGATAGAAATTGAAAATACCTCATCATGTGAGC-CGAGGCTCAACTCACCTCTCGCAATATGAGT
1 A-ACAGAAATT-AAAATACCTCAGC--GTG-TCTCGAGGCTCAACTCACCTCTCGCAATATGAGT
27126167 TGATTTTTTTTTGATG
61 TGA--TTTTTTTGATG
* * *
27126183 AA-AAAAATTAAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGAT
1 AACAGAAATT-AAAATACCTCAGCGTGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
27126247 TTTT
65 TTTT
27126251 GAAAACAGAA
Statistics
Matches: 192, Mismatches: 20, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
74 6 0.03
75 56 0.29
76 52 0.27
77 48 0.25
78 19 0.10
79 10 0.05
80 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (74 bp):
AACAGAAATTAAAATACCTCAGCGTGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTTGATG
Found at i:27126232 original size:76 final size:74
Alignment explanation
Indices: 27125985--27126250 Score: 354
Period size: 75 Copynumber: 3.5 Consensus size: 74
27125975 CATGTCAGCC
* * *
27125985 GAGGCTTAACTCACTTCTCGCAATATGAGTTGATTTTTTTGATGAACAGAAATTAAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAA-AGAAATTAAAAATACCTC
27126050 AGCGTGTCTT
65 AGCGTGTCTT
* * * *
27126060 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-ATGAAAGAAATTAAAAATACCTC
* * *
27126125 ATCATGTGAGC-C
65 AGC--GTG-TCTT
*
27126137 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGATGAAAAAAATTAAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGATGAAAGAAATTAAAAATACCT
27126202 CAGCGTGTCTT
64 CAGCGTGTCTT
*
27126213 GAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
27126251 GAAAACAGAA
Statistics
Matches: 165, Mismatches: 19, Indels: 15
0.83 0.10 0.08
Matches are distributed among these distances:
74 5 0.03
75 57 0.35
76 38 0.23
77 35 0.21
78 22 0.13
79 8 0.05
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (74 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAAAGAAATTAAAAATACCTCA
GCGTGTCTT
Found at i:27126239 original size:153 final size:151
Alignment explanation
Indices: 27125947--27126262 Score: 487
Period size: 153 Copynumber: 2.1 Consensus size: 151
27125937 CGAACAAAAA
* *
27125947 TTGAAAAACAGAAATTGAAATACCTCAGCATGTCAGCCGAGGCTTAACTCACTTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAATACCTCAGCATGTCAGCCGAGGCTCAACTCACCTCTCGCAATATG
* *
27126012 AGTTGATTTTTTTGATGAACAGAAATTAAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTC
66 AGTTGATTTTTTTGATGAACAAAAATTAAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTC
27126077 TCACAATATGAGTTGATTTTT
131 TCACAATATGAGTTGATTTTT
* * * *
27126098 TTGAAAGATAGAAATTGAAAATACCTCATCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTG-AAATACCTCAGCATGTCAGCCGAGGCTCAACTCACCTCTCGCAATAT
*
27126163 GAGTTGATTTTTTTTTGATGAA-AAAAATTAAAAATACCTCAGCGTGTCTTGAGGCTCAACTCAT
65 GAGTTGA--TTTTTTTGATGAACAAAAATTAAAAATACCTCAGCGTGTCTTGAGGCTCAACTCAC
*
27126227 CTCTCGCAATATGAGTTGA--TTT
128 CTCTCACAATATGAGTTGATTTTT
27126249 TTG-AAAACAGAAAT
1 TTGAAAAACAGAAAT
27126263 AAAAACATCA
Statistics
Matches: 150, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
150 9 0.06
151 21 0.14
152 50 0.33
153 57 0.38
154 13 0.09
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (151 bp):
TTGAAAAACAGAAATTGAAATACCTCAGCATGTCAGCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTTGATGAACAAAAATTAAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTC
TCACAATATGAGTTGATTTTT
Found at i:27138407 original size:27 final size:27
Alignment explanation
Indices: 27138355--27138407 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
27138345 TATATCTATT
* *
27138355 AAAATATATACGTAATAATAAGAATAA
1 AAAATATATACATAATAATAAAAATAA
* *
27138382 AAAATATATACATAGTATTAAAAATA
1 AAAATATATACATAATAATAAAAATA
27138408 TGTACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (27 bp):
AAAATATATACATAATAATAAAAATAA
Found at i:27138421 original size:25 final size:25
Alignment explanation
Indices: 27138393--27138836 Score: 183
Period size: 25 Copynumber: 18.1 Consensus size: 25
27138383 AAATATATAC
*
27138393 ATAGTATTAAAAATATGTACATAAT
1 ATAGTATTAAAAATATATACATAAT
** *
27138418 ATAGCGTTAAAAATACATACATAAT
1 ATAGTATTAAAAATATATACATAAT
27138443 ATAGTTATTAAAAAATATATACATAAGAT
1 ATAG-TATT-AAAAATATATACAT-A-AT
* ** * *
27138472 AATATGCAAGAAAAAAATATAAATAAT
1 -ATA-GTATTAAAAATATATACATAAT
*
27138499 ATAGTATTAAAGATATATACATAAT
1 ATAGTATTAAAAATATATACATAAT
* *
27138524 ATA-TA-T--ATATATATATAT-AT
1 ATAGTATTAAAAATATATACATAAT
27138544 ATA-TA-TAAAATCATATATACATGATAT
1 ATAGTATTAAAA--ATATATACAT-A-AT
*
27138571 ATA-TATTAGCAACAATAATGATACA-AAA
1 ATAGTATTA--AA-AAT-AT-ATACATAAT
* ** * * *
27138599 AAAAAACT-ACAATACAATACATAA-
1 ATAGTATTAAAAATA-TATACATAAT
* * * *
27138623 ATACGTA-CATATATATATAAATAAT
1 ATA-GTATTAAAAATATATACATAAT
* * *
27138648 AATGGTATTAGAAATATACA-AT-AT
1 -ATAGTATTAAAAATATATACATAAT
* *
27138672 ATAGTATTAGAAATATATACATAAA
1 ATAGTATTAAAAATATATACATAAT
*
27138697 ATAGTATAAAAAATATATA-ACTAAT
1 ATAGTATTAAAAATATATACA-TAAT
*
27138722 -GA-TATT-AAAATATATACATAAT
1 ATAGTATTAAAAATATATACATAAT
27138744 A-A-TATATAAAAA-ATATA-AT-AT
1 ATAGTAT-TAAAAATATATACATAAT
* * *
27138765 -TA--A-AAAAATATATGTACATAAC
1 ATAGTATTAAAA-ATATATACATAAT
27138787 ATA-TA-TAAAAATATATACATAAT
1 ATAGTATTAAAAATATATACATAAT
*
27138810 ATAGTATT-AAAATATTTACATAAT
1 ATAGTATTAAAAATATATACATAAT
27138834 ATA
1 ATA
27138837 TACATATTAG
Statistics
Matches: 319, Mismatches: 57, Indels: 87
0.69 0.12 0.19
Matches are distributed among these distances:
18 4 0.01
19 1 0.00
20 13 0.04
21 15 0.05
22 22 0.07
23 44 0.14
24 61 0.19
25 80 0.25
26 16 0.05
27 22 0.07
28 7 0.02
29 19 0.06
30 8 0.03
31 7 0.02
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.33
Consensus pattern (25 bp):
ATAGTATTAAAAATATATACATAAT
Found at i:27138511 original size:29 final size:30
Alignment explanation
Indices: 27138452--27138511 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 30
27138442 TATAGTTATT
* *
27138452 AAAAAATATATACATAAGATAATATGCAAG
1 AAAAAATATATAAATAAGATAATATGAAAG
* * *
27138482 AAAAAA-ATATAAATAATATAGTATTAAAG
1 AAAAAATATATAAATAAGATAATATGAAAG
27138511 A
1 A
27138512 TATATACATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.25
Consensus pattern (30 bp):
AAAAAATATATAAATAAGATAATATGAAAG
Found at i:27138522 original size:29 final size:29
Alignment explanation
Indices: 27138430--27138532 Score: 65
Period size: 31 Copynumber: 3.6 Consensus size: 29
27138420 AGCGTTAAAA
*
27138430 ATACAT-ACATAATATAGTTATTAAAAAATAT
1 ATACATAAGATAATATAG-TATT--AAAATAT
* **
27138461 ATACATAAGATAATAT-GCAAGAAAA-A-
1 ATACATAAGATAATATAGTATTAAAATAT
*
27138487 A-ATATAA-ATAATATAGTATTAAAGATAT
1 ATACATAAGATAATATAGTATTAAA-ATAT
*
27138515 ATACATAATATATATATA
1 ATACATAAGATA-ATATA
27138533 TATATATATA
Statistics
Matches: 55, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
24 7 0.13
25 10 0.18
26 2 0.04
27 2 0.04
28 5 0.09
29 5 0.09
30 4 0.07
31 12 0.22
32 8 0.15
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (29 bp):
ATACATAAGATAATATAGTATTAAAATAT
Found at i:27138527 original size:2 final size:2
Alignment explanation
Indices: 27138511--27138576 Score: 73
Period size: 2 Copynumber: 33.0 Consensus size: 2
27138501 AGTATTAAAG
*
27138511 AT AT AT AC AT A- AT 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 AT AT AT AT AT AT AT AT
* *
27138551 AA AT CAT AT AT AC AT GAT AT AT AT AT
1 AT AT -AT AT AT AT AT -AT AT AT AT AT
27138577 TAGCAACAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
1 2 0.04
2 49 0.89
3 4 0.07
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:27138734 original size:22 final size:24
Alignment explanation
Indices: 27138635--27138838 Score: 86
Period size: 23 Copynumber: 8.8 Consensus size: 24
27138625 ACGTACATAT
*
27138635 ATATATAA-ATAATAATGGTATTAGAA
1 ATATATAACATAATAAT-ATA-TA-AA
* * *
27138661 ATATACAATAT-ATAGTAT-TAGAA
1 ATATATAACATAATAATATATA-AA
27138684 ATATAT-ACATAA-AATAGTATAAAAA
1 ATATATAACATAATAATA-TAT--AAA
*
27138709 ATATATAAC-TAATGATAT-TAAA
1 ATATATAACATAATAATATATAAA
27138731 ATATAT-ACATAATAATATATAAA
1 ATATATAACATAATAATATATAAA
* *
27138754 A-A-AT---ATAATATTA-AAAAA
1 ATATATAACATAATAATATATAAA
* *
27138772 ATATATGTACATAA-CATATATAAA
1 ATATAT-AACATAATAATATATAAA
27138796 A-ATATATACATAAT-ATAGTATTAAA
1 ATATATA-ACATAATAATA-TA-TAAA
*
27138821 ATAT-TTACATAAT-ATATA
1 ATATATAACATAATAATATA
27138839 CATATTAGAA
Statistics
Matches: 141, Mismatches: 15, Indels: 47
0.69 0.07 0.23
Matches are distributed among these distances:
18 5 0.04
19 9 0.06
20 2 0.01
21 4 0.03
22 24 0.17
23 34 0.24
24 23 0.16
25 19 0.13
26 19 0.13
27 2 0.01
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (24 bp):
ATATATAACATAATAATATATAAA
Found at i:27138761 original size:16 final size:16
Alignment explanation
Indices: 27138742--27138776 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
27138732 TATATACATA
27138742 ATAATA-TATAAAAAAT
1 ATAATATTA-AAAAAAT
27138758 ATAATATTAAAAAAAT
1 ATAATATTAAAAAAAT
27138774 ATA
1 ATA
27138777 TGTACATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAATATTAAAAAAAT
Found at i:27138912 original size:3 final size:3
Alignment explanation
Indices: 27138904--27138943 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
27138894 AACAAAACAT
27138904 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
27138944 AAGTAATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:27143240 original size:26 final size:26
Alignment explanation
Indices: 27143211--27143318 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
27143201 TGGTACAAAT
27143211 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
27143237 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
27143263 TGGTAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
27143289 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27143315 TGAT
1 TGAT
27143319 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:27144955 original size:27 final size:27
Alignment explanation
Indices: 27144915--27145055 Score: 164
Period size: 27 Copynumber: 5.2 Consensus size: 27
27144905 AGGAAGCATC
27144915 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
*
27144942 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTATGCCACAAT-TATCTGAT
27144968 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTATGCCACAATTATCTGAT
* * *
27144996 CTGGTGGCTCTGCAAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
* *
27145023 CTGGTGGCTTTGCCATAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
27145050 CTGGTG
1 CTGGTG
27145056 ACTTCATCAC
Statistics
Matches: 98, Mismatches: 9, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
26 11 0.11
27 83 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:27144995 original size:54 final size:54
Alignment explanation
Indices: 27144913--27145055 Score: 234
Period size: 54 Copynumber: 2.6 Consensus size: 54
27144903 GGAGGAAGCA
*
27144913 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCAACATATATCTG
27144967 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCAACATATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCAACATATATCTG
* * *
27145021 TTCTGGTGGCTTTGCCATAA-TATCTGTATCTGGTG
1 TCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
27145056 ACTTCATCAC
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 78 0.93
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (54 bp):
TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCAACATATATCTG
Found at i:27145067 original size:81 final size:79
Alignment explanation
Indices: 27144915--27145073 Score: 180
Period size: 81 Copynumber: 2.0 Consensus size: 79
27144905 AGGAAGCATC
* *
27144915 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCAACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
27144980 GCCACAATTATCTGAT
66 -CCACAA-TATCTGAT
* * * * *
27144996 CTGGTGGCTCTGCAAC-ATATATCTGTTCTGGTGGCTTTGCCATA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCAACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
27145059 -TCATCACAATATCTG
64 ATC--CACAATATCTG
27145074 GCAGCCTCGC
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
79 1 0.01
80 17 0.25
81 49 0.73
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.35
Consensus pattern (79 bp):
CTGGTGGCTATGCAACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
CCACAATATCTGAT
Found at i:27150186 original size:18 final size:17
Alignment explanation
Indices: 27150146--27150179 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
27150136 TATATGTAGC
27150146 TAATATGAATGGTTATA
1 TAATATGAATGGTTATA
*
27150163 TGATATAGAATGGTTAT
1 TAATAT-GAATGGTTAT
27150180 GAAATATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (17 bp):
TAATATGAATGGTTATA
Found at i:27152775 original size:2 final size:2
Alignment explanation
Indices: 27152768--27152793 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27152758 AAGGCATGCA
27152768 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
27152794 GTGTGTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27152798 original size:2 final size:2
Alignment explanation
Indices: 27152793--27152902 Score: 220
Period size: 2 Copynumber: 55.0 Consensus size: 2
27152783 TATATATATA
27152793 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
27152835 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
27152877 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
27152903 CATAAAATGA
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 108 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:27153013 original size:2 final size:2
Alignment explanation
Indices: 27153000--27153048 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
27152990 AGACATTCAG
*
27153000 AT AT AC AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27153040 AT AT AT AT A
1 AT AT AT AT A
27153049 GTTAAATTCG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27153029 original size:13 final size:13
Alignment explanation
Indices: 27153000--27153048 Score: 82
Period size: 13 Copynumber: 3.8 Consensus size: 13
27152990 AGACATTCAG
*
27153000 ATATACATATA-T
1 ATATATATATATT
27153012 ATATATATATATT
1 ATATATATATATT
27153025 ATATATATATATT
1 ATATATATATATT
27153038 ATATATATATA
1 ATATATATATA
27153049 GTTAAATTCG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
12 10 0.29
13 25 0.71
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (13 bp):
ATATATATATATT
Found at i:27154843 original size:46 final size:46
Alignment explanation
Indices: 27154788--27154968 Score: 204
Period size: 46 Copynumber: 3.9 Consensus size: 46
27154778 TAGGATGGTT
27154788 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* *** * *
27154834 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC
* * *
27154880 TAGGCATCC-AAGCTTGTTGAGTTGAGTTCGAGTTCACTTATGGATGC
1 GA-GCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
27154927 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27154969 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
46 74 0.69
47 34 0.31
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:27156475 original size:40 final size:40
Alignment explanation
Indices: 27156438--27156610 Score: 217
Period size: 40 Copynumber: 4.3 Consensus size: 40
27156428 TGAGGAATGT
27156438 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
* *
27156478 TATCCAGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAA-TG
1 TATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCTGGAATTG
* *
27156517 TTATCCGGGCTTAAAGACCCGTAGGCTTCGTGCTAGAATTG
1 -TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
* * * * *
27156558 TATCCGGGCTTAAAGACCTGCAGGCTACGAGCTGGTATTA
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
*
27156598 TA-CCGGGTTTAAA
1 TATCCGGGCTTAAA
27156611 TTCCCGTAGG
Statistics
Matches: 115, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
39 13 0.11
40 99 0.86
41 3 0.03
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
Found at i:27156568 original size:80 final size:80
Alignment explanation
Indices: 27156431--27156584 Score: 272
Period size: 80 Copynumber: 1.9 Consensus size: 80
27156421 TGATACTTGA
*
27156431 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCAGGCTTAAAGACC
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTAGAATTGTATCCAGGCTTAAAGACC
27156496 CGCAGGCTATATGCT
66 CGCAGGCTATATGCT
* *
27156511 GGAATGTTATCCGGGCTTAAAGACCCGTAGGCTTCGTGCTAGAATTGTATCCGGGCTTAAAGACC
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTAGAATTGTATCCAGGCTTAAAGACC
*
27156576 TGCAGGCTA
66 CGCAGGCTA
27156585 CGAGCTGGTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTAGAATTGTATCCAGGCTTAAAGACC
CGCAGGCTATATGCT
Found at i:27156592 original size:80 final size:80
Alignment explanation
Indices: 27156431--27156622 Score: 264
Period size: 80 Copynumber: 2.4 Consensus size: 80
27156421 TGATACTTGA
* *
27156431 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCAGGCTTAAAGACC
1 GGAATGTTATCCGGGCTTAAAGACCCGTAGGCTTCGTGCTAGAATTGTATCCAGGCTTAAAGACC
*
27156496 CGCAGGCTATATGCT
66 CGCAGGCTAGATGCT
*
27156511 GGAATGTTATCCGGGCTTAAAGACCCGTAGGCTTCGTGCTAGAATTGTATCCGGGCTTAAAGACC
1 GGAATGTTATCCGGGCTTAAAGACCCGTAGGCTTCGTGCTAGAATTGTATCCAGGCTTAAAGACC
*
27156576 TGCAGGCTACGA-GCT
66 CGCAGGCTA-GATGCT
* * **
27156591 GG--TATTATACCGGGTTTAAATTCCCGTAGGCT
1 GGAATGTTAT-CCGGGCTTAAAGACCCGTAGGCT
27156623 GGTGCTAAAA
Statistics
Matches: 101, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
78 5 0.05
79 20 0.20
80 75 0.74
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (80 bp):
GGAATGTTATCCGGGCTTAAAGACCCGTAGGCTTCGTGCTAGAATTGTATCCAGGCTTAAAGACC
CGCAGGCTAGATGCT
Found at i:27158125 original size:11 final size:11
Alignment explanation
Indices: 27158109--27158142 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
27158099 AATAAAATAT
27158109 TATTATATTAC
1 TATTATATTAC
*
27158120 TATTATATTAT
1 TATTATATTAC
*
27158131 TATTATAATAC
1 TATTATATTAC
27158142 T
1 T
27158143 TTAAATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTATATTAC
Found at i:27163770 original size:22 final size:21
Alignment explanation
Indices: 27163739--27163784 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
27163729 ATGTGTTTTA
*
27163739 TATGTTAATTTATTAAGGTTAAT
1 TATGTTAATTTACTAA--TTAAT
27163762 TATG-TAATTTACTAATTAAT
1 TATGTTAATTTACTAATTAAT
27163782 TAT
1 TAT
27163785 AAGATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
22 10 0.45
23 4 0.18
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (21 bp):
TATGTTAATTTACTAATTAAT
Done.