Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168137.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_38, whole genome shotgun sequence
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: 382840
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.40
Warning! 2000 characters in sequence are not A, C, G, or T
File 7 of 8
Found at i:339869 original size:4 final size:4
Alignment explanation
Indices: 339860--339965 Score: 50
Period size: 4 Copynumber: 27.5 Consensus size: 4
339850 ATTTGTTATT
* * *
339860 ATTA ATTA A-TA AATA ATT- ATTA ATT- ATTA GTTA TAGTA TATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA -ATTA -ATTA ATTA
* * *
339907 TACT- ATTA A-TA ATTA ATTA ATT- ATGT- ATT- ATTA ATTA TATAA ACTA
1 -ATTA ATTA ATTA ATTA ATTA ATTA AT-TA ATTA ATTA ATTA -ATTA ATTA
339953 ATTA ATT- ATTA AT
1 ATTA ATTA ATTA AT
339966 ATATTTAAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
3 23 0.29
4 46 0.57
5 11 0.14
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (4 bp):
ATTA
Found at i:339958 original size:17 final size:16
Alignment explanation
Indices: 339936--339989 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 16
339926 ATTATGTATT
339936 ATTAATTATATAAACTA
1 ATTAATTAT-TAAACTA
339953 ATTAATTATTAATA-TA
1 ATTAATTATTAA-ACTA
*
339969 TTTAAATTATTAAACTA
1 ATT-AATTATTAAACTA
339986 ATTA
1 ATTA
339990 TACAATATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
16 9 0.28
17 23 0.72
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTAATTATTAAACTA
Found at i:339980 original size:24 final size:23
Alignment explanation
Indices: 339857--340020 Score: 81
Period size: 25 Copynumber: 6.9 Consensus size: 23
339847 TATATTTGTT
*
339857 ATTATTAATTAATAAATAATTATTA
1 ATTATTAATT-ATATA-AATTATTA
* *
339882 ATTATTAGTTATAGTATATTAATTA
1 ATTATTAATTATA-TAAATT-ATTA
* * *
339907 TACTATTAATAATTAATTAATTATGT-
1 -ATTATTAATTA-T-ATAAATTAT-TA
*
339933 ATTATTAATTATATAAACTAATTA
1 ATTATTAATTATATAAA-TTATTA
*
339957 ATTATTAATATATTTAAATTATTA
1 ATTATTAAT-TATATAAATTATTA
* *
339981 A--ACTAATTATA-CAA-TA-TA
1 ATTATTAATTATATAAATTATTA
339999 ATTA-TAATTTATATAATATTAT
1 ATTATTAA-TTATATAA-ATTAT
340021 AATACATATA
Statistics
Matches: 105, Mismatches: 18, Indels: 33
0.67 0.12 0.21
Matches are distributed among these distances:
18 3 0.03
19 5 0.05
20 8 0.08
21 4 0.04
22 6 0.06
23 7 0.07
24 25 0.24
25 30 0.29
26 10 0.10
27 6 0.06
28 1 0.01
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
ATTATTAATTATATAAATTATTA
Found at i:340021 original size:17 final size:17
Alignment explanation
Indices: 339999--340034 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
339989 ATACAATATA
**
339999 ATTATAATTTATATAAT
1 ATTATAATACATATAAT
340016 ATTATAATACATATAAT
1 ATTATAATACATATAAT
340033 AT
1 AT
340035 CTGAATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTATAATACATATAAT
Found at i:340347 original size:145 final size:145
Alignment explanation
Indices: 340187--340563 Score: 499
Period size: 145 Copynumber: 2.6 Consensus size: 145
340177 ATCTATTACG
* * * * **
340187 AATCGTTAT-AACTTTTATTTTATCATCAAACAATTGGTTCTGTTTATACTATTTTA-TT-AAAA
1 AATCGTTATGACCTTTTCTTTTATCATAAAACAATT-GTTCTGTTTATACAAGCTTATTTGAAAA
340249 AAAAGTAAAACTAATTTAATAATATTCTAAAATTTAATAACCAAGAAAATTAAAAAATAAATCTA
65 AAAA-TAAAACTAATTTAATAATATTCTAAAATTTAATAACCAAGAAAATTAAAAAATAAATCTA
340314 ATTGTCGAACCAGTTGA
129 ATTGTCGAACCAGTTGA
* * * * * **
340331 AATCGTTATGACCTTTTCTTTTTTCGTAAAACAATTGTTTTGTTTGTACAAGCTTATTTGGATTA
1 AATCGTTATGACCTTTTCTTTTATCATAAAACAATTGTTCTGTTTATACAAGCTTATTTGAAAAA
*
340396 AAATAATACTAATTTAATAATATTCTAAAATTTAATAACCAAGAAAATTAAAAAATAAATCTAAT
66 AAATAAAACTAATTTAATAATATTCTAAAATTTAATAACCAAGAAAATTAAAAAATAAATCTAAT
340461 TGTCGAACCAGTTGA
131 TGTCGAACCAGTTGA
* * * * ** * **
340476 AATCGTTATGACCTTTTCTTTTGTCGTACAACAATTGTTTTGTTCGTACAAGCTTATTTGGATTA
1 AATCGTTATGACCTTTTCTTTTATCATAAAACAATTGTTCTGTTTATACAAGCTTATTTGAAAAA
*
340541 AAATAATACTAATTTAATAATAT
66 AAATAAAACTAATTTAATAATAT
340564 ATTATATTAT
Statistics
Matches: 213, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
144 24 0.11
145 184 0.86
146 5 0.02
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (145 bp):
AATCGTTATGACCTTTTCTTTTATCATAAAACAATTGTTCTGTTTATACAAGCTTATTTGAAAAA
AAATAAAACTAATTTAATAATATTCTAAAATTTAATAACCAAGAAAATTAAAAAATAAATCTAAT
TGTCGAACCAGTTGA
Found at i:341013 original size:23 final size:24
Alignment explanation
Indices: 340987--341060 Score: 64
Period size: 23 Copynumber: 3.1 Consensus size: 24
340977 TAATCAAATA
*
340987 AATATTAATTAT-TTAAATATTTT
1 AATATTAATTATATTAAATATTAT
* * *
341010 AATAATAA-AATATTAATTATTAT
1 AATATTAATTATATTAAATATTAT
*
341033 AATATTTAATTATAATTATA-ATTAT
1 AATA-TTAATTAT-ATTAAATATTAT
341058 AAT
1 AAT
341061 TAATAAATGT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
22 2 0.05
23 20 0.51
24 3 0.08
25 10 0.26
26 4 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
AATATTAATTATATTAAATATTAT
Found at i:341024 original size:31 final size:30
Alignment explanation
Indices: 340986--341047 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 30
340976 TTAATCAAAT
340986 AAATATTAATTATT-TAAATATTTTAATAATA
1 AAATATTAATTATTAT-AATA-TTTAATAATA
*
341017 AAATATTAATTATTATAATATTTAATTATA
1 AAATATTAATTATTATAATATTTAATAATA
341047 A
1 A
341048 TTATAATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 10 0.34
31 18 0.62
32 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
AAATATTAATTATTATAATATTTAATAATA
Found at i:341050 original size:6 final size:6
Alignment explanation
Indices: 341028--341062 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
341018 AATATTAATT
*
341028 ATTATA ATATTTA ATTATA ATTATA ATTATA ATTA
1 ATTATA AT-TATA ATTATA ATTATA ATTATA ATTA
341063 ATAAATGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
ATTATA
Found at i:341063 original size:22 final size:22
Alignment explanation
Indices: 341009--341064 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
340999 TTAAATATTT
* * *
341009 TAATAATAAAATATTAATTATTA
1 TAATAATTAATTA-TAATTATAA
*
341032 TAATATTTAATTATAATTATAA
1 TAATAATTAATTATAATTATAA
*
341054 TTATAATTAAT
1 TAATAATTAAT
341065 AAATGTTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATAATTAATTATAATTATAA
Found at i:341113 original size:20 final size:20
Alignment explanation
Indices: 341090--341133 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
341080 TTATTCTTAA
*
341090 AATTAAACTAATTTAA-AAAT
1 AATTAAA-TAAGTTAACAAAT
*
341110 AATTATATAAGTTAACAAAT
1 AATTAAATAAGTTAACAAAT
341130 AATT
1 AATT
341134 TATTGGTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (20 bp):
AATTAAATAAGTTAACAAAT
Found at i:341218 original size:22 final size:23
Alignment explanation
Indices: 341160--341218 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
341150 ATTAGTTATT
*
341160 TATAAT-ATTATAAACATTAATA
1 TATAATAATTATAAATATTAATA
*
341182 -AT-ATAACTGATAAATATTAATA
1 TATAATAA-TTATAAATATTAATA
341204 TATAATAATTA-AAAT
1 TATAATAATTATAAAT
341219 CGTTGTGAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
20 2 0.07
21 3 0.10
22 17 0.57
23 4 0.13
24 4 0.13
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (23 bp):
TATAATAATTATAAATATTAATA
Found at i:341818 original size:182 final size:180
Alignment explanation
Indices: 341494--341821 Score: 462
Period size: 182 Copynumber: 1.8 Consensus size: 180
341484 GTTAGGACTT
* *
341494 TTTGAACAATTATCTATTTCAAATAGTTATGACCTTTGTTTTGTCATAAACCAATTGTTTCTATT
1 TTTGAACAATTATCTATTTCAAATAGTTATGAACTTTGTTTTGTCATAAAACAATTGTTTCTATT
* ** *
341559 CATACAAATGTATTCGAAATAAAATAATACTAATTTCTTAATATTTCAAAAATTAATGAGTAAAA
66 CACACAAATGTATTCGAAATAAAATAATACTAATTGATTAATATCTCAAAAATTAATGAGTAAAA
*
341624 GATTTTAAAAATAAATATGTTTACCGAGTTAGTTTAAATCGTCATGATTG
131 GATTTAAAAAATAAATATGTTTACCGAGTTAGTTTAAATCGTCATGATTG
* *
341674 TTTGAACAATTATTTATTTCAAATTAGTTATGATACTTTGTTTTGTCCTAAAACAATTGTTTCTA
1 TTTGAACAATTATCTATTTCAAA-TAGTTATGA-ACTTTGTTTTGTCATAAAACAATTGTTTCTA
* * * * *
341739 TTCACACAAGTTTATTTGGAATAAAATAATACTAATTGATTAATA-CTCTAAAAATTAGT-AGGT
64 TTCACACAAATGTATTCGAAATAAAATAATACTAATTGATTAATATCTC-AAAAATTAATGA-GT
**
341802 AGGAGATTTAAAAAATAAAT
127 AAAAGATTTAAAAAATAAAT
341822 CTATTTGTCA
Statistics
Matches: 128, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
180 22 0.17
181 12 0.09
182 94 0.73
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (180 bp):
TTTGAACAATTATCTATTTCAAATAGTTATGAACTTTGTTTTGTCATAAAACAATTGTTTCTATT
CACACAAATGTATTCGAAATAAAATAATACTAATTGATTAATATCTCAAAAATTAATGAGTAAAA
GATTTAAAAAATAAATATGTTTACCGAGTTAGTTTAAATCGTCATGATTG
Found at i:341869 original size:182 final size:181
Alignment explanation
Indices: 341494--341965 Score: 460
Period size: 182 Copynumber: 2.6 Consensus size: 181
341484 GTTAGGACTT
* * *
341494 TTTGAACAATTATCTATTTCAAA-TAGTTATGACCTTTGTTTTGTCATAAACCAATTGTTTCTAT
1 TTTGAACAATTATTTATTTCAAATTAGTTATGAACTTTGTTTTGTCATAAAACAATTGTTTCTAT
* ** *
341558 TCATACAAATGTATTCGAAATAAAATAATACTAATTTCTTAATATTTCAAAAATTAATGAGTAAA
66 TCACACAAATGTATTCGAAATAAAATAATACTAATTGATTAATATCTCAAAAATTAATGAGTAAA
* * * *** * * **
341623 AGATTTTAAAAATAAATATGTTTACCGAGTTAGTTTAAATCGTCATGATTG
131 AGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTCATGATCA
*
341674 TTTGAACAATTATTTATTTCAAATTAGTTATGATACTTTGTTTTGTCCTAAAACAATTGTTTCTA
1 TTTGAACAATTATTTATTTCAAATTAGTTATGA-ACTTTGTTTTGTCATAAAACAATTGTTTCTA
* * * * *
341739 TTCACACAAGTTTATTTGGAATAAAATAATACTAATTGATTAATA-CTCTAAAAATTAGT-AGGT
65 TTCACACAAATGTATTCGAAATAAAATAATACTAATTGATTAATATCTC-AAAAATTAATGA-GT
** * **
341802 AGGAGATTTAAAAAATAAATCTATTTGTCAAACAAGTTCAAATAGTCATG-TCCA
128 AAAAGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTCATGAT-CA
* * * * *
341856 TTTGAATAATTATTTATTTTAAATCA-TTAT-AACATTTTATTTTGTCATAAAACAATTGCTTCT
1 TTTGAACAATTATTTATTTCAAATTAGTTATGAAC--TTTGTTTTGTCATAAAACAATTGTTTCT
* * *
341919 GTTCATGTA-AAAT-TATTC-AGAATAAAATAATACTGATCT-ATTAATAT
64 ATTCA--CACAAATGTATTCGA-AATAAAATAATACTAAT-TGATTAATAT
341966 TTTGAAAATT
Statistics
Matches: 240, Mismatches: 40, Indels: 22
0.79 0.13 0.07
Matches are distributed among these distances:
179 2 0.01
180 23 0.10
181 73 0.30
182 141 0.59
183 1 0.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (181 bp):
TTTGAACAATTATTTATTTCAAATTAGTTATGAACTTTGTTTTGTCATAAAACAATTGTTTCTAT
TCACACAAATGTATTCGAAATAAAATAATACTAATTGATTAATATCTCAAAAATTAATGAGTAAA
AGATTTAAAAAATAAATATATTTACCAAACAAGTTCAAATAGTCATGATCA
Found at i:342250 original size:138 final size:138
Alignment explanation
Indices: 342061--342320 Score: 316
Period size: 138 Copynumber: 1.9 Consensus size: 138
342051 TATGATTTTT
* *
342061 ATTTTGTCATAAAACAATTGTTTCTTTTCATACAAGCTTATTCATATTAAAATAATACTAAT-AT
1 ATTTTGTCATAAAACAATTGTTTCTTTTCATACAAGCTTATTCATAATAAAATAATACCAATCA-
* * * *
342125 AATAATATT-TCAAAAATTAGTAAGTAAGATATTT-AAAAAATAAATGTGTTTACCAAACCAGTT
65 AATAATATTCT-AAAAATTAATAAGTAAGAGATTTAAAAAAAAAAAT-TGTATACCAAACCAGTT
342188 CAATTGGTTAG
128 CAATTGGTTAG
* * *
342199 ATTTTGTCATAAAAC-ATATGTTT-TTATTCATACAAGTTTATTTGA-AATAAAATAATGCCAAT
1 ATTTTGTCATAAAACAAT-TGTTTCTT-TTCATACAAGCTTA-TTCATAATAAAATAATACCAAT
* **
342261 CAATTAATATTCTAAAAATTAATAAGTTGGAGATTTAAAAAAAAAAATTGTATACCAAAC
63 CAAATAATATTCTAAAAATTAATAAGTAAGAGATTTAAAAAAAAAAATTGTATACCAAAC
342321 AAATTTAAAT
Statistics
Matches: 104, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
137 4 0.04
138 85 0.82
139 15 0.14
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (138 bp):
ATTTTGTCATAAAACAATTGTTTCTTTTCATACAAGCTTATTCATAATAAAATAATACCAATCAA
ATAATATTCTAAAAATTAATAAGTAAGAGATTTAAAAAAAAAAATTGTATACCAAACCAGTTCAA
TTGGTTAG
Found at i:342431 original size:486 final size:494
Alignment explanation
Indices: 341714--342674 Score: 1151
Period size: 486 Copynumber: 2.0 Consensus size: 494
341704 TGATACTTTG
* * * **
341714 TTTTGTCCTAAAACAATTGTTTCTATTCACACAAGTTTATTTGGAATAAAATAATACTAATTGAT
1 TTTTGTCATAAAACAATTGTTTCTATTCACACAAGTTTATTTGAAATAAAATAATACCAATCAAT
* * * * ** *
341779 TAATACTCTAAAAATTAGTAGGTAGGAGATTTAAAAAATAAATCTATTTGTCAAACAAGTTCAAA
66 TAATACTCTAAAAATTAATAAGTAGGAGATTTAAAAAAAAAATCTATATACCAAACAAATTCAAA
* *
341844 TAGTCATGTCCATTTGAATAATTATTTATTTTAAATCATTATAACATTTTATTTTGTCATAAAAC
131 TAGTCATGTCCATTTGAATAATTATCTATTTCAAATCATTATAACATTTTATTTTGTCATAAAAC
* *** * **
341909 AATTGCTTCTGTTCATGTAAAATTATTCAGAATAAAATAATACT-GATCTATTAATATTTTGAAA
196 AATTGCTTCTATTCAAACAAAATTATTCAGAATAAAATAATA-TAAATCTATTAATATTTCAAAA
*
341973 A-T-TAA-TAAAAA-CT-AAAAT-T-GGTCAT-TGAA-ATAGTTTAAATAGTTATGACTATTTGA
260 ATTATAAGTAAAAATCTAAAAATATAGGTCATCTGAACAT-GTTCAAATAGTTATGACTATTTGA
** * * ** *
342029 ATGATTATCTATATCAAATTGTTATGA-TTTTTATTTTGTCATAAAACAATTGTTTCTTTTCATA
324 ACAATTATCTATATCAAATAGTTATAACCCTTTATTTTGTCAT-AAACAATTGTTTCTGTTCATA
* * * * * *
342093 CAAGCTTATTCATATTAAAATAATACTAATATAATAATATTTCAAAAATTAGTAAGTAAGATATT
388 CAAGCATATTCAAAATAAAATAATACTAATATAATAATATTTCAAAAATTAATAAGTAAAAAATT
342158 TAAAAAATAAATGTGTTTACCAAACCAGTTCAATTGGTTAGA
453 TAAAAAATAAATGTGTTTACCAAACCAGTTCAATTGGTTAGA
* * *
342200 TTTTGTCATAAAAC-ATATGTTTTTATTCATACAAGTTTATTTGAAATAAAATAATGCCAATCAA
1 TTTTGTCATAAAACAAT-TGTTTCTATTCACACAAGTTTATTTGAAATAAAATAATACCAATCAA
* * * *
342264 TTAATATTCTAAAAATTAATAAGTTGGAGATTTAAAAAAAAAAAT-TGTATACCAAACAAATTTA
65 TTAATACTCTAAAAATTAATAAGTAGGAGATTT-AAAAAAAAAATCTATATACCAAACAAATTCA
** * *
342328 AATAGTCATGTCCATTTGAACT-ATTATCTATTTCAAATTGTTATGACATTTTGTTTTGTCATAA
129 AATAGTCATGTCCATTTGAA-TAATTATCTATTTCAAATCATTATAACATTTTATTTTGTCATAA
* ** *
342392 AACAATTGTTTCTATTCAAACAAGCTTATTCTA-AATAAAATAATATAAATTTATTAATATTTCA
193 AACAATTGCTTCTATTCAAACAAAATTATTC-AGAATAAAATAATATAAATCTATTAATATTTCA
* * ** *
342456 AAAATTAATAAGTAAAAATTTTAAAAAATATATGTTTTCTGAACATGTTCAAATAGTTATGACTC
257 AAAATT-ATAAGTAAAAA-TCT-AAAAATATAGGTCATCTGAACATGTTCAAATAGTTATGACTA
* * *
342521 TTTGAACAATTATCTATTTCAAATAGTTATAACCCTTTGTTTTGTCATAACCAATTGTTTCTGTT
319 TTTGAACAATTATCTATATCAAATAGTTATAACCCTTTATTTTGTCATAAACAATTGTTTCTGTT
* * * *
342586 CATACAAGCATATTTAAAATAAAATAATCCTAATTTATTAATATTTCAAAAATTAATAAGTAAAA
384 CATACAAGCATATTCAAAATAAAATAATACTAATATAATAATATTTCAAAAATTAATAAGTAAAA
* *
342651 AATTTTAAAAATAAATTTGTTTAC
449 AATTTAAAAAATAAATGTGTTTAC
342675 TAAGCTAATT
Statistics
Matches: 393, Mismatches: 64, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
485 3 0.01
486 204 0.52
487 13 0.03
489 3 0.01
490 6 0.02
492 1 0.00
494 5 0.01
495 1 0.00
496 3 0.01
497 140 0.36
498 14 0.04
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (494 bp):
TTTTGTCATAAAACAATTGTTTCTATTCACACAAGTTTATTTGAAATAAAATAATACCAATCAAT
TAATACTCTAAAAATTAATAAGTAGGAGATTTAAAAAAAAAATCTATATACCAAACAAATTCAAA
TAGTCATGTCCATTTGAATAATTATCTATTTCAAATCATTATAACATTTTATTTTGTCATAAAAC
AATTGCTTCTATTCAAACAAAATTATTCAGAATAAAATAATATAAATCTATTAATATTTCAAAAA
TTATAAGTAAAAATCTAAAAATATAGGTCATCTGAACATGTTCAAATAGTTATGACTATTTGAAC
AATTATCTATATCAAATAGTTATAACCCTTTATTTTGTCATAAACAATTGTTTCTGTTCATACAA
GCATATTCAAAATAAAATAATACTAATATAATAATATTTCAAAAATTAATAAGTAAAAAATTTAA
AAAATAAATGTGTTTACCAAACCAGTTCAATTGGTTAGA
Found at i:342849 original size:181 final size:179
Alignment explanation
Indices: 342200--344373 Score: 1476
Period size: 181 Copynumber: 12.1 Consensus size: 179
342190 ATTGGTTAGA
* * * * * **
342200 TTTTGTCATAAAAC-ATATGTTTTTATTCATACAAGTTTATTTGAAATAAAATAATGCCAATCAA
1 TTTTGTCATAAAACAAT-TGTTTCTATTCATACAAGCTTATTTAAAATAAAATAATACTAATTTA
** * * * *
342264 TTAATA-TTCTAAAAATTAATAAGTTGGAGATTTAAAAAAAAAAATTGTATACCAAACAAATTTA
65 TTAATATTTC-AAAAATTAATAAGTAAGAGATTTAAAAAATAAATTTGTTTA-CTAAC-AATTTA
* * * ** * *
342328 AATAGTCATGTCCATTTGAACTATTATCTATTTCAAATTGTTATGACATTTTG
127 AATAGTTATGACTATTTGAAAAATTATCTATTTCAAATAGTTATGACCTTTTG
*
342381 TTTTGTCATAAAACAATTGTTTCTATTCAAACAAGCTTATTCT-AAATAAAATAATA-TAAATTT
1 TTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATT-TAAAATAAAATAATACT-AATTT
* * *
342444 ATTAATATTTCAAAAATTAATAAGTAA-AAATTTTAAAAAAT--ATATGTTTTCTGAAC-ATGTT
64 ATTAATATTTCAAAAATTAATAAGTAAGAGA-TTTAAAAAATAAATTTGTTTACT-AACAAT-TT
* * * *
342505 CAAATAGTTATGACTCTTTGAACAATTATCTATTTCAAATAGTTATAACCCTTTG
126 -AAATAGTTATGACTATTTGAAAAATTATCTATTTCAAATAGTTATGACCTTTTG
* * * *
342560 TTTTGTCAT-AACCAATTGTTTCTGTTCATACAAGCATATTTAAAATAAAATAATCCTAATTTAT
1 TTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTAAAATAAAATAATACTAATTTAT
* * *
342624 TAATATTTCAAAAATTAATAAGTAAAAAATTTTAAAAATAAATTTGTTTACTAAGCTAATTTAAA
66 TAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATTTGTTTACTAA-C-AATTTAAA
* * * * *
342689 TCGTTATGACTGTTTGAAAAATTTTTTATTTCAAATAGTTATGATCTTTTG
129 TAGTTATGACTATTTGAAAAATTATCTATTTCAAATAGTTATGACCTTTTG
* * * ** *
342740 TTTTGTCCTAAAGCAATTGTTTCTATTCATACAAGTTTATTTGGAATAAAATAATACTAATTGAT
1 TTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTAAAATAAAATAATACTAATTTAT
** * * * * * **
342805 TAAT-TCTTTGAAAGTTAGTAGGTAAGAGATTTAAAAAATAAATTTATTTACTGAATAAGTCCAA
66 TAATAT-TTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATTTGTTTACT-AACAA-TTTAA
* * * *
342869 ATAATCATGTCCATTT-AAACAATTATCTATTTCAAATAGTTATGACCTTTT-
128 ATAGTTATGACTATTTGAAA-AATTATCTATTTCAAATAGTTATGACCTTTTG
* * ** * * * *
342920 TTTTGTCATAAAACAATTATTTCTGTTCATACAAAATTATTCAGAATAAAATAATACTGATCTAT
1 TTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTAAAATAAAATAATACTAATTTAT
*** * * * *
342985 TAATATTTTGCAAA-T--TAA-TAAGAGATTTAGAAACA-AAATTTATTTACTAGAACAGTTCAA
66 TAATATTTCAAAAATTAATAAGTAAGAGATTTA-AAAAATAAATTTGTTTACT--AACAATTTAA
* * * * ** * *
343045 ATAGTTATGACTATTTGAATAATTATTTATATCAATTTTTTATGATC-TTTA
128 ATAGTTATGACTATTTGAAAAATTATCTATTTCAAATAGTTATGACCTTTTG
* * * * * *
343096 TTTTGTCATAAAACAATTGTTTCTTTTCATATAAGCTTATTCATATTAAAAT-ATACTAATTTAA
1 TTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTAAAATAAAATAATACTAATTTAT
* * * * * *
343160 TAATATTCCAAAAATTAGTAAGTAAGAGATTTAAAAAA-AAAGTGTGTTTGCTGAACCAGTTCAA
66 TAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAA-TTTGTTTACT-AA-CAATTTAA
* * * * * * *
343224 ATAGTTAAGACTATTAGGATAATTATCTATTTCAGATCA-TTTTAACCTTTTG
128 ATAGTTATGACTATTTGAAAAATTATCTATTTCAAAT-AGTTATGACCTTTTG
* * * * * * *
343276 TTTAGTCACAAAACAATTATTTCAATTCATACAAGCTTATTTAGAATAAATTAATAGTAATTTAT
1 TTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTAAAATAAAATAATACTAATTTAT
* * * * * * * *
343341 TAACA-TTCAAAAAATTAATAAGCATGAGATTTTAAAAAATAAATCTATTTATCGAATAAATTAA
66 TAATATTTC-AAAAATTAATAAGTAAGAGA-TTTAAAAAATAAATTTGTTTA-CTAACAATTTAA
* * *
343405 AGTAGATT-TGATTATTT-AAACAATTATCTATTT-AAAGTCGTTATGACTTTTTG
128 A-TAG-TTATGACTATTTGAAA-AATTATCTATTTCAAA-TAGTTATGACCTTTTG
* * * * * *
343458 TTTTGTCATAAAACAATTGTTTC-AGTTTATAAAACCTTATCTAAAATAAAATAATACTACTTTG
1 TTTTGTCATAAAACAATTGTTTCTA-TTCATACAAGCTTATTTAAAATAAAATAATACTAATTTA
* ** * ** * * * * *
343522 TTTATATTTTGAAAATTAATAAGCAAGATTTTTAAAAATTGAAAATTT-TTTTCAAATCAGTTCA
65 TTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAAT--AAATTTGTTTACTAA-CAATTTA
* * * * * ** * *
343586 AATAATTATGGCTATTTGAATAAA-TATCAATCTCATATTTTTTTGATC-TTTG
127 AATAGTTATGACTATTTGAA-AAATTATCTATTTCAAATAGTTATGACCTTTTG
* * * * * *
343638 TTTTCTCATAAAATAATTATTTTTGA-TCATACAAGCTTATTT-AGATAAAAATATTACTAATTT
1 TTTTGTCATAAAACAATTGTTTCT-ATTCATACAAGCTTATTTAAAAT-AAAATAATACTAATTT
* * * * * * * *
343701 AATGATATTCCAAAAA-T--TAA-CAAGAGATTCAAAAAATAAATGTGTTTACTAAACCAGTTCA
64 ATTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATTTGTTTACT-AA-CAATTTA
* * * * * * *
343762 AATTGTTAAGACTATTAGAATAATTATCAATTTCAAATCA-TTCTGACCTTTTC
127 AATAGTTATGACTATTTGAAAAATTATCTATTTCAAAT-AGTTATGACCTTTTG
* ** * * ** *
343815 TTTAGTCATGTAATAATTGCTTC-AGTTCATACAAGCTTATTTGGAAGAAAATAATACTAATTTA
1 TTTTGTCATAAAACAATTGTTTCTA-TTCATACAAGCTTATTTAAAATAAAATAATACTAATTTA
* ** * * * * **
343879 TTAACATTAAAAAAATTAATAA-TCATGAGATTTAAAAAATAAATCTGTTTACCGAATAAGTTCG
65 TTAATATTTCAAAAATTAATAAGT-AAGAGATTTAAAAAATAAATTTGTTTA-CTAACAA-TTTA
* * * * * * *
343943 AATACTTATGGCTATTTGAACAATTATTTATTTAAAATAATTATGACCATTTG
127 AATAGTTATGACTATTTGAAAAATTATCTATTTCAAATAGTTATGACCTTTTG
* * ** *
343996 TTTTGTCATAAAACAATTGTTT-TAGTTCATAAAAGTTTATCCAAAATAAAATAATACTACTTTA
1 TTTTGTCATAAAACAATTGTTTCTA-TTCATACAAGCTTATTTAAAATAAAATAATACTAATTTA
* * ** * *
344060 GTAATATTTCAAAAATTAATAAGTAACTA-ATTTAAAAGAATAAATCAGTTTATCCAATCAATTC
65 TTAATATTTCAAAAATTAATAAGTAA-GAGATTTAAAA-AATAAATTTGTTTA-CTAA-CAATTT
* * * * * * *
344124 AAATAATTAT-AGCCATTT-AAACAACTATCTATTTCAAATTGTCATTATCTTTTG
126 AAATAGTTATGA-CTATTTGAAA-AATTATCTATTTCAAATAGTTATGACCTTTTG
* * * *
344178 TTTTGTCATAAAACAATT-TTTTTCA-ACATACAAGCTTATTTGAAATAAAA-AATACCAATTTA
1 TTTTGTCATAAAACAATTGTTTCT-ATTCATACAAGCTTATTTAAAATAAAATAATACTAATTTA
* * * ** * * *
344240 TTAATATTTTAAGAA-T--TAA-TAAGACATTTAAAAAATAAATCAGTTTATTGAACTAGTTCAA
65 TTAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATTTGTTTACT-AAC-AATTTAA
* * * **
344301 ATAGTTATGACTATTTGAACAATTTTCTATTTCAAATTGTTACAACCTTTTG
128 ATAGTTATGACTATTTGAAAAATTATCTATTTCAAATAGTTATGACCTTTTG
* *
344353 TTTTATCATAAAAAAATTGTT
1 TTTTGTCATAAAACAATTGTT
344374 AATTATATAT
Statistics
Matches: 1568, Mismatches: 339, Indels: 177
0.75 0.16 0.08
Matches are distributed among these distances:
174 6 0.00
175 106 0.07
176 178 0.11
177 82 0.05
178 98 0.06
179 135 0.09
180 271 0.17
181 455 0.29
182 220 0.14
183 17 0.01
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (179 bp):
TTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTAAAATAAAATAATACTAATTTAT
TAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATTTGTTTACTAACAATTTAAATA
GTTATGACTATTTGAAAAATTATCTATTTCAAATAGTTATGACCTTTTG
Found at i:343590 original size:718 final size:714
Alignment explanation
Indices: 342381--344262 Score: 1589
Period size: 718 Copynumber: 2.6 Consensus size: 714
342371 TGACATTTTG
*
342381 TTTTGTCATAAAACAATTGTTTCTATTCAAACAAGCTTATTCTAAATAAAATAATATAAATTTAT
1 TTTTGTCATAAAACAATTGTTTCTATTCAAACAAGCTTATTCTAAATAAAATAATATAAATTTAA
* * * *
342446 TAATATTTCAAAAATTAATAAGTAAAAATTTTAAAAAATATATGTTTTCTGAACATGTTCAAATA
66 TAATATTCCAAAAATTAATAAGTAAAAATTTAAAAAAAAATATGTTTGCTGAACATGTTCAAATA
* * * * * *
342511 GTTATGACTCTTTGAACAATTATCTATTTCAAATAGTTATAACCCTTTGTTTTGTCATAACCAAT
131 GTTAAGACTATTAGAACAATTATCTATTTCAAATAGTTATAACCCTTTGTTTAGTCAAAAACAAT
* ** * *
342576 TGTTTCTGTTCATACAAGCATATTTAAAATAAAATAATCCTAATTTATTAATATTTCAAAAATTA
196 TATTTCAATTCATACAAGCATATTTAAAATAAAATAATACTAATTTATTAACATTTCAAAAATTA
* * * * * * *
342641 ATAAGTAAAAAATTTTAAAAATAAATTTGTTTACTAAGCTAATTTAAATCGTTATGACTGTTTGA
261 ATAAGCAAAAAATTTTAAAAATAAATCTATTTACGAA-CTAAATTAAATAGTTATGACTATTTGA
* * * *
342706 AAAATTTTTTATTTCAAATAGTTATGATCTTTTGTTTTGTCCTAAAGCAATTGTTTCTATTCATA
325 AAAATTATCTATTTCAAATAGTTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATA
* ** * ** * * * *
342771 CAAGTTTATTTGGAATAAAATAATACTAATTGATTAATTCTTTGAAAGTTAGTAGGTAAGAGATT
390 AAACCTTATCTAAAATAAAATAATACTAATTGATTAATTCTTTGAAAATTAATAAGCAAGAGATT
* * * * *
342836 TAAAAAATAAATTTATTTACTGAATAAGTCCAAATAATCATGTCCATTTAAACAATTATCTATTT
455 TAAAAAATAAATTTATTTACTAAATAAGTCCAAATAATCATGGCCATTTAAACAAATATCAATCT
* * *
342901 CAAATAGTTATGACCTTTTTTTTGTCATAAAACAATTATTTCTGTTCATACAAAATTATTCAGA-
520 CAAATAGTTATGACCTTTGTTTTCTCATAAAACAATTATTTCTGATCATACAAAATTATTCAGAT
* * **** * * * *
342965 ATAAAATAATACTGATCTATTAATATTTTGCAAATTAATAAGAGATTTAGAAACA-AAATTTATT
585 A-AAAATAATACTAATCTAATAATATTCCAAAAATTAACAAGAGATTCA-AAAAATAAATGTATT
* *
343029 TACTAGAA-CAGTTCAAATAGTTATGACTATTTGAATAATTATTTATATCAATTTTTTATGATCT
648 TACTA-AACCAGTTCAAATAGTTAAGACTATTAGAATAATTATTTATATCAATTTTTTATGATCT
343093 TTA
712 TTA
* * * *
343096 TTTTGTCATAAAACAATTGTTTCTTTTCATATAAGCTTATTC-ATATTAAAAT-ATACT-AATTT
1 TTTTGTCATAAAACAATTGTTTCTATTCAAACAAGCTTATTCTA-AATAAAATAATA-TAAATTT
* * *
343158 AATAATATTCCAAAAATTAGTAAGTAAGAGATTTAAAAAAAAAGTGTGTTTGCTGAACCA-GTTC
64 AATAATATTCCAAAAATTAATAAGTAA-AAATTTAAAAAAAAA-TATGTTTGCTGAA-CATGTTC
* * * * *
343222 AAATAGTTAAGACTATTAGGATAATTATCTATTTCAGATCA-TTTTAACCTTTTGTTTAGTCACA
126 AAATAGTTAAGACTATTAGAACAATTATCTATTTCAAAT-AGTTATAACCCTTTGTTTAGTCA-A
* * * *
343286 AAACAATTATTTCAATTCATACAAGCTTATTTAGAATAAATTAATAGTAATTTATTAACA-TTCA
189 AAACAATTATTTCAATTCATACAAGCATATTTAAAATAAAATAATACTAATTTATTAACATTTC-
** *
343350 AAAAATTAATAAGCATGAGATTTTAAAAAATAAATCTATTTATCGAA-TAAATTAAAGTAGATT-
253 AAAAATTAATAAGCAAAAAATTTT-AAAAATAAATCTATTTA-CGAACTAAATTAAA-TAG-TTA
* *
343413 TGATTATTT-AAACAATTATCTATTT-AAAGTCGTTATGA-CTTTTTGTTTTGTCATAAAACAAT
314 TGACTATTTGAAA-AATTATCTATTTCAAA-TAGTTATGATC-TTTTGTTTTGTCATAAAACAAT
* * *
343475 TGTTTC-AGTTTATAAAACCTTATCTAAAATAAAATAATACTACTTTG-TTTATAT-TTTGAAAA
376 TGTTTCTA-TTCATAAAACCTTATCTAAAATAAAATAATACTA-ATTGATTAAT-TCTTTGAAAA
** * * * * * *
343537 TTAATAAGCAAGATTTTTAAAAATTGAAAATTT-TTTTC-AAATCAGTTCAAATAATTATGGCTA
438 TTAATAAGCAAGAGATTTAAAAAAT--AAATTTATTTACTAAATAAGTCCAAATAATCATGGCCA
* * * ** * * * *
343600 TTTGAATAAATATCAATCTCATATTTTTTTGATCTTTGTTTTCTCATAAAATAATTATTTTTGAT
501 TTTAAACAAATATCAATCTCAAATAGTTATGACCTTTGTTTTCTCATAAAACAATTATTTCTGAT
** * * * *
343665 CATACAAGCTTATTTAGATAAAAATATTACTAATTTAATGATATTCCAAAAATTAACAAGAGATT
566 CATACAAAATTATTCAGATAAAAATAATACTAATCTAATAATATTCCAAAAATTAACAAGAGATT
* * ** *
343730 CAAAAAATAAATGTGTTTACTAAACCAGTTCAAATTGTTAAGACTATTAGAATAATTATCAATTT
631 CAAAAAATAAATGTATTTACTAAACCAGTTCAAATAGTTAAGACTATTAGAATAATTATTTATAT
* ** * *
343795 CAAATCATTCTGACCTTT-
696 CAATTTTTTATGATCTTTA
** * * * * *
343813 TCTTTAGTCATGTAATAATTGCTTC-AGTTCATACAAGCTTATT-TGGAAGAAAATAATACT-AA
1 T-TTT-GTCATAAAACAATTGTTTCTA-TTCAAACAAGCTTATTCT-AAATAAAATAATA-TAAA
* * ** * * * * * * *
343875 TTTATTAACATTAAAAAAATTAATAA-TCATGAGATTTAAAAAATAAATCTGTTTACCGAATAAG
61 TTTAATAATATTCCAAAAATTAATAAGT-A-AAAATTTAAAAAA-AAATATGTTTGCTGAACATG
* * * * * * * * * * *
343939 TTCGAATACTTATGGCTATTTGAACAATTATTTATTTAAAATAATTATGACCATTTGTTTTGTCA
123 TTCAAATAGTTAAGACTATTAGAACAATTATCTATTTCAAATAGTTATAACCCTTTGTTTAGTCA
* * * * ** ** * * *
344004 TAAAACAATTGTTTTAGTTCATAAAAGTTTATCCAAAATAAAATAATACTACTTTAGTAATATTT
188 -AAAACAATTATTTCAATTCATACAAGCATATTTAAAATAAAATAATACTAATTTATTAACATTT
* ** * * * *
344069 CAAAAATTAATAAGTAACTAATTTAAAAGAATAAATC-AGTTTATCCAA-TCAATTCAAATAATT
252 CAAAAATTAATAAGCAAAAAATTTTAAA-AATAAATCTA-TTTA-CGAACTAAATT-AAATAGTT
* * * * *
344132 AT-AGCCATTT-AAACAACTATCTATTTCAAATTGTCATTATCTTTTGTTTTGTCATAAAACAAT
313 ATGA-CTATTTGAAA-AATTATCTATTTCAAATAGTTATGATCTTTTGTTTTGTCATAAAACAAT
* * * * * * * *
344195 T-TTTTTCA-ACATACAAGCTTATTTGAAATAAAA-AATACCAATTTATTAATAT-TTT-AAGAA
376 TGTTTCT-ATTCATAAAACCTTATCTAAAATAAAATAATACTAATTGATTAAT-TCTTTGAA-AA
344255 TTAATAAG
438 TTAATAAG
344263 ACATTTAAAA
Statistics
Matches: 934, Mismatches: 187, Indels: 89
0.77 0.15 0.07
Matches are distributed among these distances:
714 33 0.04
715 59 0.06
716 69 0.07
717 100 0.11
718 332 0.36
719 82 0.09
720 245 0.26
721 14 0.01
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (714 bp):
TTTTGTCATAAAACAATTGTTTCTATTCAAACAAGCTTATTCTAAATAAAATAATATAAATTTAA
TAATATTCCAAAAATTAATAAGTAAAAATTTAAAAAAAAATATGTTTGCTGAACATGTTCAAATA
GTTAAGACTATTAGAACAATTATCTATTTCAAATAGTTATAACCCTTTGTTTAGTCAAAAACAAT
TATTTCAATTCATACAAGCATATTTAAAATAAAATAATACTAATTTATTAACATTTCAAAAATTA
ATAAGCAAAAAATTTTAAAAATAAATCTATTTACGAACTAAATTAAATAGTTATGACTATTTGAA
AAATTATCTATTTCAAATAGTTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATAA
AACCTTATCTAAAATAAAATAATACTAATTGATTAATTCTTTGAAAATTAATAAGCAAGAGATTT
AAAAAATAAATTTATTTACTAAATAAGTCCAAATAATCATGGCCATTTAAACAAATATCAATCTC
AAATAGTTATGACCTTTGTTTTCTCATAAAACAATTATTTCTGATCATACAAAATTATTCAGATA
AAAATAATACTAATCTAATAATATTCCAAAAATTAACAAGAGATTCAAAAAATAAATGTATTTAC
TAAACCAGTTCAAATAGTTAAGACTATTAGAATAATTATTTATATCAATTTTTTATGATCTTTA
Found at i:344317 original size:357 final size:350
Alignment explanation
Indices: 342200--344370 Score: 1482
Period size: 357 Copynumber: 6.1 Consensus size: 350
342190 ATTGGTTAGA
* * * * * **
342200 TTTTGTCATAAAACATATGT-TTTTATTCATACAAGTTTATTTGAAATAAAATAATGCCAATCAA
1 TTTTGTCATAAAACA-AT-TATTTTGTTCATACAAGCTTATTTAAAATAAAATAATACTAATTTA
* * * * * * *
342264 TTAATA-TTCTAAAAATTAATAAGTTGGAGATTTAAAAAAAAAAAT-TGTATACCAAACAAATTT
64 TTAATATTTC-AAAAATTAATAA----GAAATTT-AAAAAATAAATCAGTTTACTAATC-AATTC
* * * * * *
342327 AAATAGTCATGTCCATTTGAACTATTATCTATTTCAAATTGTTATGA-CATTTTGTTTTGTCATA
122 AAATAGTTATGACTATTTAAACAATTATCTATTTCAAATTGTCATGATC-TTTTGTTTTGTCATA
*
342391 AAACAATTGTTTCTATTCAAACAAGCTTATTCT-AAATAAAATAATA-TAAATTTATTAATATTT
186 AAACAATTGTTTC-ATTCATACAAGCTTATT-TGAAATAAAATAATACT-AATTTATTAATATTT
* * * * *
342454 CAAAAATTAATAAGTAAAAATTTTAAAAAATATAT-GTTTTCTGAAC-ATGTTCAAATAGTTATG
248 TAAAAATTAATAAG---AGA-TTTAAAAAATAAATAGTTTACTGAACTAAGTTCAAATAGTTATG
*
342517 ACTCTTTGAACAATTATCTATTTCAAATAGTTATAACCCTTTG
309 ACTATTTGAACAATTATCTATTTCAAATAGTTATAA-CCTTTG
* * * *
342560 TTTTGTCAT-AACCAATTGTTTCTGTTCATACAAGCATATTTAAAATAAAATAATCCTAATTTAT
1 TTTTGTCATAAAACAATTATTT-TGTTCATACAAGCTTATTTAAAATAAAATAATACTAATTTAT
* ** * *
342624 TAATATTTCAAAAATTAATAAGTAAAAAATTTTAAAAATAAATTTGTTTACTAAGCTAATTTAAA
65 TAATATTTCAAAAATTAATAAG----AAATTTAAAAAATAAATCAGTTTACTAATC-AATTCAAA
* * * * * * * *
342689 TCGTTATGACTGTTTGAAA-AATTTTTTATTTCAAATAGTTATGATCTTTTGTTTTGTCCTAAAG
125 TAGTTATGACTATTT-AAACAATTATCTATTTCAAATTGTCATGATCTTTTGTTTTGTCATAAAA
* * * *
342753 CAATTGTTTCTATTCATACAAGTTTATTTGGAATAAAATAATACTAATTGATTAAT-TCTTTGAA
189 CAATTGTTTC-ATTCATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAATAT-TTTAAA
* * * * *
342817 AGTTAGTAGGTAAGAGATTTAAAAAATAAATTTA-TTTACTGAA-TAAGTCCAAATAATCATGTC
252 AATTA--A--TAAGAGATTTAAAAAATAAA--TAGTTTACTGAACTAAGTTCAAATAGTTATGAC
* * * *
342880 CATTTAAACAATTATCTATTTCAAATAGTTATGACCTTTT
311 TATTTGAACAATTATCTATTTCAAATAGTTATAACCTTTG
** * * * *
342920 TTTTGTCATAAAACAATTATTTCTGTTCATACAAAATTATTCAGAATAAAATAATACTGATCTAT
1 TTTTGTCATAAAACAATTATTT-TGTTCATACAAGCTTATTTAAAATAAAATAATACTAATTTAT
*** * * * * *
342985 TAATATTTTGCAAATTAATAAGAGATTTAGAAACAA-AATTTA-TTTACTAGAACAGTTCAAATA
65 TAATATTTCAAAAATTAATAAGAAATTTA-AAA-AATAAATCAGTTTACTA-ATCAATTCAAATA
* * * * * * * *
343048 GTTATGACTATTTGAATAATTATTTATATCAATTTTTTATGATC-TTTATTTTGTCATAAAACAA
127 GTTATGACTATTTAAACAATTATCTATTTCAAATTGTCATGATCTTTTGTTTTGTCATAAAACAA
* * * * * **
343112 TTGTTTCTTTTCATATAAGCTTA-TTCATATTAAAAT-ATACTAATTTAATAATATTCCAAAAAT
192 TTGTTTC-ATTCATACAAGCTTATTTGA-AATAAAATAATACTAATTTATTAATATTTTAAAAA-
* * * *
343175 TAGTAAGTAAGAGATTTAAAAAA-AAAGTGTGTTTGCTGAAC-CAGTTCAAATAGTTAAGACTAT
254 T--TAA-TAAGAGATTTAAAAAATAAA-T-AGTTTACTGAACTAAGTTCAAATAGTTATGACTAT
* * * * *
343238 TAGGATAATTATCTATTTCAGATCA-TTTTAACCTTTTG
314 TTGAACAATTATCTATTTCAAAT-AGTTATAACC-TTTG
* * ** * * *
343276 TTTAGTCACAAAACAATTATTTCAATTCATACAAGCTTATTTAGAATAAATTAATAGTAATTTAT
1 TTTTGTCATAAAACAATTATTT-TGTTCATACAAGCTTATTTAAAATAAAATAATACTAATTTAT
* * *
343341 TAACA-TTCAAAAAATTAATAAGCATGAGATTTTAAAAAATAAATCTA-TTTATCGAATAAATT-
65 TAATATTTC-AAAAATTAATAAG-A--A-A-TTTAAAAAATAAATC-AGTTTA-CTAATCAATTC
* * *
343403 AAAGTAGATT-TGATTATTTAAACAATTATCTATTT-AAAGTCGTTATGA-CTTTTTGTTTTGTC
122 AAA-TAG-TTATGACTATTTAAACAATTATCTATTTCAAA-TTGTCATGATC-TTTTGTTTTGTC
* * * * * * * *
343465 ATAAAACAATTGTTTCAGTTTATAAAACCTTATCTAAAATAAAATAATACTACTTTGTTTATATT
183 ATAAAACAATTGTTTCA-TTCATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATT
* * * ** * * * *
343530 TTGAAAATTAATAAGCAAGATTTTTAAAAATTGAAA-ATTTTTTTCAAATCAGTTCAAATAATTA
247 TTAAAAATTAATAAG--AGA--TTTAAAAAAT-AAATAGTTTACTGAACTAAGTTCAAATAGTTA
* * * * * * ** * * *
343594 TGGCTATTTGAATAAATATCAATCTCATATTTTTTTGATCTTTG
307 TGACTATTTGAACAATTATCTATTTCAAATAGTTATAACCTTTG
* * * * *
343638 TTTTCTCATAAAATAATTATTTTTGATCATACAAGCTTATTT-AGATAAAAATATTACTAATTTA
1 TTTTGTCATAAAACAATTA-TTTTGTTCATACAAGCTTATTTAAAAT-AAAATAATACTAATTTA
* * * * * * ** * * *
343702 ATGATATTCCAAAAATTAACAAGAGATTCAAAAAATAAATGTGTTTACTAAACCAGTTCAAATTG
64 TTAATATTTCAAAAATTAATAAGAAATTTAAAAAATAAATCAGTTTACT-AATCAATTCAAATAG
* * * * * * ** *
343767 TTAAGACTA-TTAGAATAATTATCAATTTCAAATCAT-TC-TGACCTTTTCTTTAGTCATGTAAT
128 TTATGACTATTTA-AACAATTATCTATTTCAAAT--TGTCATGATCTTTTGTTTTGTCATAAAAC
* * * * **
343829 AATTGCTTCAGTTCATACAAGCTTATTTGGAAGAAAATAATACTAATTTATTAACATTAAAAAAA
190 AATTGTTTCA-TTCATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTTAAAAA
* * * * *
343894 TTAATAATCATGAGATTTAAAAAATAAATCTGTTTACCGAA-TAAGTTCGAATACTTATGGCTAT
254 TTAAT-A--A-GAGATTTAAAAAATAAAT-AGTTTACTGAACTAAGTTCAAATAGTTATGACTAT
* * * *
343958 TTGAACAATTATTTATTTAAAATAATTATGACCATTTG
314 TTGAACAATTATCTATTTCAAATAGTTATAACC-TTTG
* * * ** * *
343996 TTTTGTCATAAAACAATTGTTTTAGTTCATAAAAGTTTATCCAAAATAAAATAATACTACTTTAG
1 TTTTGTCATAAAACAATTATTTT-GTTCATACAAGCTTATTTAAAATAAAATAATACTAATTTAT
*
344061 TAATATTTCAAAAATTAATAAGTAACTAATTTAAAAGAATAAATCAGTTTATCCAATCAATTCAA
65 TAATATTTCAAAAATTAATAAG--A--AATTTAAAA-AATAAATCAGTTTA-CTAATCAATTCAA
* * * *
344126 ATAATTAT-AGCCATTTAAACAACTATCTATTTCAAATTGTCATTATCTTTTGTTTTGTCATAAA
124 ATAGTTATGA-CTATTTAAACAATTATCTATTTCAAATTGTCATGATCTTTTGTTTTGTCATAAA
* * * *
344190 ACAATTTTTTTCA-ACATACAAGCTTATTTGAAATAAAA-AATACCAATTTATTAATATTTTAAG
188 ACAA-TTGTTTCATTCATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTTAAA
* *
344253 AATTAATAAGACATTTAAAAAATAAATCAGTTTATTGAACT-AGTTCAAATAGTTATGACTATTT
252 AATTAATAAGAGATTTAAAAAATAAAT-AGTTTACTGAACTAAGTTCAAATAGTTATGACTATTT
* * *
344317 GAACAATTTTCTATTTCAAATTGTTACAACCTTTTG
316 GAACAATTATCTATTTCAAATAGTTATAACC-TTTG
* *
344353 TTTTATCATAAAAAAATT
1 TTTTGTCATAAAACAATT
344371 GTTAATTATA
Statistics
Matches: 1408, Mismatches: 309, Indels: 191
0.74 0.16 0.10
Matches are distributed among these distances:
353 1 0.00
354 3 0.00
355 87 0.06
356 131 0.09
357 314 0.22
358 111 0.08
359 206 0.15
360 51 0.04
361 196 0.14
362 151 0.11
363 144 0.10
364 10 0.01
365 3 0.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (350 bp):
TTTTGTCATAAAACAATTATTTTGTTCATACAAGCTTATTTAAAATAAAATAATACTAATTTATT
AATATTTCAAAAATTAATAAGAAATTTAAAAAATAAATCAGTTTACTAATCAATTCAAATAGTTA
TGACTATTTAAACAATTATCTATTTCAAATTGTCATGATCTTTTGTTTTGTCATAAAACAATTGT
TTCATTCATACAAGCTTATTTGAAATAAAATAATACTAATTTATTAATATTTTAAAAATTAATAA
GAGATTTAAAAAATAAATAGTTTACTGAACTAAGTTCAAATAGTTATGACTATTTGAACAATTAT
CTATTTCAAATAGTTATAACCTTTG
Found at i:344351 original size:538 final size:532
Alignment explanation
Indices: 342224--344373 Score: 1747
Period size: 538 Copynumber: 4.0 Consensus size: 532
342214 ATATGTTTTT
* * * * ** * *
342224 ATTCATACAAGTTTATTTGAAATAAAATAATGCCAATCAATTAATATTCTAAAAATTAATAAGT-
1 ATTCATACAAGCTTATTTGGAATAAAATAATACTAATTTATTAACATT-AAAAAATTAATAA-TC
* * * * * * * * * * * * *
342288 -TGGAGATTTAAAAAAAAAAAT-TGTATACCAAACAAATTTAAATAGTCATGTCCATTTGAACTA
64 AT-GAGATTT-AAAAAATAAATCTATTTACCGAATAAGTTCAAATAATTATGACTATTTAAACAA
* *
342351 TTATCTATTTCAAATTGTTATGA-CATTTTGTTTTGTCATAAAACAATTGTTTCTA-TTCA-AAC
127 TTATCTATTTAAAATAGTTATGACCA-TTTGTTTTGTCATAAAACAATTGTTTCTAGTTCATAA-
* * * *
342413 AAGCTTATTCTAAATAAAATAATA-TAAATTTATTAATATTTCAAAAATTAATAAGTAAAAATTT
190 AAGCTTATCCAAAATAAAATAATACTAACTTTAGTAATATTTCAAAAATTAATAAGT-AAAA-TT
* * *
342477 TAAAAAATATAT-GTTT-TCTGAA-CATGTTCAAATAGTTATGACTC-TTTGAACAATTATCTAT
253 TAAAAAATAAATAGTTTATC-AAATCA-GTTCAAATAATTATGAC-CATTTGAACAATTATCTAT
* * * * * * *
342538 TTCAAATAGTTATAACCCTTTGTTTTGTCAT-AACCAATTGTTTCTGTTCATACAAGCATATTTA
315 TTCAAATTGTTATTA-TCTTTGTTTTGTCATAAAACAATTGTTTTTGATCATACAAGCTTATTT-
* * * *
342602 AAATAAAATAAT-CCTAATTTATTAATATTTCAAAAATTAATAAGTAAAAAATTTTAAAAATAAA
378 AAATAAAA-AATACC-AATTTAATAATATTCCAAAAATTAATAAG----AGATTTAAAAAATAAA
* * * * * * * * * * *
342666 TTTGTTTACT-AAGCTAATTTAAATCGTTATGACTGTTTGAAAAATTTTTTATTTCAAAT-AGTT
437 TGTGTTTACTGAA-CCAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTCAAATCA-TT
** * * *
342729 ATGATCTTTTGTTTTGTCCTAAAGCAATTGTTTC
500 ACAACCTTTTGTTTAGTCATAAA-CAATTGTTTC
* * ** * * *
342763 TATTCATACAAGTTTATTTGGAATAAAATAATACTAATTGATTAATTC-TTTGAAAGTTAGTAGG
1 -ATTCATACAAGCTTATTTGGAATAAAATAATACTAATTTATTAA--CATTAAAAAATTAATA-A
* * * * * * *
342827 T-AAGAGATTTAAAAAATAAATTTATTTACTGAATAAGTCCAAATAATCATGTCCATTTAAACAA
62 TCATGAGATTTAAAAAATAAATCTATTTACCGAATAAGTTCAAATAATTATGACTATTTAAACAA
* * *
342891 TTATCTATTTCAAATAGTTATGACC-TTTTTTTTGTCATAAAACAATTATTTCT-GTTCATACAA
127 TTATCTATTTAAAATAGTTATGACCATTTGTTTTGTCATAAAACAATTGTTTCTAGTTCATA-AA
* * * * * * *** *
342954 A-ATTATTCAGAATAAAATAATACTGA-TCTATTAATATTTTGCAAATTAATAAG--AGATTTAG
191 AGCTTATCCAAAATAAAATAATACTAACTTTAGTAATATTTCAAAAATTAATAAGTAAAATTTA-
* * * * * *
343015 AAACAA-AATTTA-TTTA-CTAGAA-CAGTTCAAATAGTTATGACTATTTGAATAATTATTTATA
255 AAA-AATAA-ATAGTTTATC-A-AATCAGTTCAAATAATTATGACCATTTGAACAATTATCTATT
* * * * * * *
343076 TCAATTTTTTATGATCTTTATTTTGTCATAAAACAATTGTTTCTT-TTCATATAAGCTTATTCAT
316 TCAAATTGTTATTATCTTTGTTTTGTCATAAAACAATTGTTT-TTGATCATACAAGCTTATTTA-
* * *
343140 ATTAAAATATACTAATTTAATAATATTCCAAAAATTAGTAAGTAAGAGATTTAAAAAA-AAAGTG
379 AATAAAAAATACCAATTTAATAATATTCCAAAAA-T--TAA-TAAGAGATTTAAAAAATAAA-TG
* * * **
343204 TGTTTGCTGAACCAGTTCAAATAGTTAAGACTATTAGGATAATTATCTATTTCAGATCATTTTAA
439 TGTTTACTGAACCAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTCAAATCATTACAA
* *
343269 CCTTTTGTTTAGTCACAAAACAATTATTTC
504 CCTTTTGTTTAGTCA-TAAACAATTGTTTC
* * * *
343299 AATTCATACAAGCTTATTTAGAATAAATTAATAGTAATTTATTAACATTCAAAAAATTAATAAGC
1 -ATTCATACAAGCTTATTTGGAATAAAATAATACTAATTTATTAACATT-AAAAAATTAATAATC
* * *
343364 ATGAGATTTTAAAAAATAAATCTATTTATCGAATAAATT-AAAGTAGATT-TGATTATTTAAACA
64 ATGAGA-TTTAAAAAATAAATCTATTTACCGAATAAGTTCAAA-TA-ATTATGACTATTTAAACA
* * ** *
343427 ATTATCTATTTAAAGTCGTTATGACTTTTTGTTTTGTCATAAAACAATTGTTTC-AGTTTATAAA
126 ATTATCTATTTAAAATAGTTATGACCATTTGTTTTGTCATAAAACAATTGTTTCTAGTTCATAAA
* * * ** * *
343491 ACCTTATCTAAAATAAAATAATACT-ACTTT-GTTTATATTTTGAAAATTAATAAGCAAGATTTT
191 AGCTTATCCAAAATAAAATAATACTAACTTTAG-TAATATTTCAAAAATTAATAAGTAA-A-ATT
* * * * * * * * *
343554 TAAAAATTGAAA-ATTTTTTTCAAATCAGTTCAAATAATTATGGCTATTTGAATAAATATCAATC
253 TAAAAAAT-AAATA-GTTTATCAAATCAGTTCAAATAATTATGACCATTTGAACAATTATCTATT
* * * * * *
343618 TCATATT-TTTTTGATCTTTGTTTTCTCATAAAATAATTATTTTTGATCATACAAGCTTATTTAG
316 TCAAATTGTTATT-ATCTTTGTTTTGTCATAAAACAATTGTTTTTGATCATACAAGCTTATTTAA
* * * *
343682 ATAAAAATATTACTAATTTAATGATATTCCAAAAATTAACAAGAGATTCAAAAAATAAATGTGTT
380 ATAAAAA-A-TACCAATTTAATAATATTCCAAAAATTAATAAGAGATTTAAAAAATAAATGTGTT
* * * *
343747 TACTAAACCAGTTCAAATTGTTAAGACTATTAGAATAATTATCAATTTCAAATCATT-CTGACCT
443 TACTGAACCAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTCAAATCATTAC-AACCT
* * * *
343811 TTTCTTTAGTCATGTAATAATTGCTTC
507 TTTGTTTAGTCAT-AAACAATTGTTTC
*
343838 AGTTCATACAAGCTTATTTGGAAGAAAATAATACTAATTTATTAACATTAAAAAAATTAATAATC
1 A-TTCATACAAGCTTATTTGGAATAAAATAATACTAATTTATTAACATT-AAAAAATTAATAATC
* * * * *
343903 ATGAGATTTAAAAAATAAATCTGTTTACCGAATAAGTTCGAATACTTATGGCTATTTGAACAATT
64 ATGAGATTTAAAAAATAAATCTATTTACCGAATAAGTTCAAATAATTATGACTATTTAAACAATT
* * *
343968 ATTTATTTAAAATAATTATGACCATTTGTTTTGTCATAAAACAATTGTTT-TAGTTCATAAAAGT
129 ATCTATTTAAAATAGTTATGACCATTTGTTTTGTCATAAAACAATTGTTTCTAGTTCATAAAAGC
344032 TTATCCAAAATAAAATAATACT-ACTTTAGTAATATTTCAAAAATTAATAAGTAACTAATTTAAA
194 TTATCCAAAATAAAATAATACTAACTTTAGTAATATTTCAAAAATTAATAAGTAA--AATTTAAA
* * * *
344096 AGAATAAATCAGTTTATCCAATCAATTCAAATAATTAT-AGCCATTTAAACAACTATCTATTTCA
257 A-AATAAAT-AGTTTATCAAATCAGTTCAAATAATTATGA-CCATTTGAACAATTATCTATTTCA
* * *
344160 AATTGTCATTATCTTTTGTTTTGTCATAAAACAATT-TTTTTCAACATACAAGCTTATTTGAAAT
319 AATTGTTATTATC-TTTGTTTTGTCATAAAACAATTGTTTTTGATCATACAAGCTTATTT-AAAT
* ** * * ** *
344224 AAAAAATACCAATTTATTAATATTTTAAGAATTAATAAGACATTTAAAAAATAAATCAGTTTATT
382 AAAAAATACCAATTTAATAATATTCCAAAAATTAATAAGAGATTTAAAAAATAAATGTGTTTACT
* * * * * **
344289 GAACTAGTTCAAATAGTTATGACTATTTGAACAATTTTCTATTTCAAATTGTTACAACCTTTTGT
447 GAACCAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTCAAATCATTACAACCTTTTG-
*
344354 TTTA-TCATAAAAAAATTGTT
511 TTTAGTCAT-AAACAATTGTT
344374 AATTATATAT
Statistics
Matches: 1300, Mismatches: 238, Indels: 146
0.77 0.14 0.09
Matches are distributed among these distances:
534 1 0.00
535 9 0.01
536 173 0.13
537 157 0.12
538 345 0.27
539 322 0.25
540 159 0.12
541 19 0.01
542 90 0.07
543 25 0.02
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (532 bp):
ATTCATACAAGCTTATTTGGAATAAAATAATACTAATTTATTAACATTAAAAAATTAATAATCAT
GAGATTTAAAAAATAAATCTATTTACCGAATAAGTTCAAATAATTATGACTATTTAAACAATTAT
CTATTTAAAATAGTTATGACCATTTGTTTTGTCATAAAACAATTGTTTCTAGTTCATAAAAGCTT
ATCCAAAATAAAATAATACTAACTTTAGTAATATTTCAAAAATTAATAAGTAAAATTTAAAAAAT
AAATAGTTTATCAAATCAGTTCAAATAATTATGACCATTTGAACAATTATCTATTTCAAATTGTT
ATTATCTTTGTTTTGTCATAAAACAATTGTTTTTGATCATACAAGCTTATTTAAATAAAAAATAC
CAATTTAATAATATTCCAAAAATTAATAAGAGATTTAAAAAATAAATGTGTTTACTGAACCAGTT
CAAATAGTTAAGACTATTAGAATAATTATCTATTTCAAATCATTACAACCTTTTGTTTAGTCATA
AACAATTGTTTC
Found at i:344396 original size:19 final size:22
Alignment explanation
Indices: 344372--344415 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 22
344362 AAAAAAATTG
344372 TTAATTAT-ATAT-AT-ATAAA
1 TTAATTATAATATAATAATAAA
344391 TTAATTATAATATAATAATAAA
1 TTAATTATAATATAATAATAAA
344413 TTA
1 TTA
344416 TAAAATAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.36
20 4 0.18
21 2 0.09
22 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAATTATAATATAATAATAAA
Found at i:344414 original size:18 final size:20
Alignment explanation
Indices: 344374--344418 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
344364 AAAAATTGTT
*
344374 AATTAT-ATATATATAAATT
1 AATTATAATATATATAAATA
344393 AATTATAATATA-AT-AATA
1 AATTATAATATATATAAATA
344411 AATTATAA
1 AATTATAA
344419 AATAGAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 11 0.46
19 8 0.33
20 5 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTATAATATATATAAATA
Found at i:344432 original size:18 final size:19
Alignment explanation
Indices: 344392--344437 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
344382 ATATATAAAT
* *
344392 TAATTATAATATAATAATA
1 TAATTATAAAATAAGAATA
344411 -AATTATAAAAT-AGAATA
1 TAATTATAAAATAAGAATA
*
344428 TAATTTTAAA
1 TAATTATAAA
344438 TGTTATATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
TAATTATAAAATAAGAATA
Found at i:344754 original size:17 final size:18
Alignment explanation
Indices: 344734--344783 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
344724 TTCAAATCTC
* *
344734 ATAACTATTTAATA-ATT
1 ATAAATATTAAATATATT
344751 ATAAATATTAAATATATT
1 ATAAATATTAAATATATT
344769 AATACAAT-TTAAATA
1 -ATA-AATATTAAATA
344784 AGATTATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 12 0.43
18 3 0.11
19 10 0.36
20 3 0.11
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAATATTAAATATATT
Found at i:345361 original size:4 final size:4
Alignment explanation
Indices: 345352--345441 Score: 53
Period size: 4 Copynumber: 21.2 Consensus size: 4
345342 AAAGCATATT
*
345352 ATTA ATTA ATTGT ATTA A-T- ATATA ATTA TATTA ATATA TATTTAA ATTA
1 ATTA ATTA ATT-A ATTA ATTA AT-TA ATTA -ATTA AT-TA -A-TT-A ATTA
*
345401 ATT- A-TA ATTA ATTA ATTA AATA TATTA ATATA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA -ATTA AT-TA ATTA ATTA A
345442 ATAGTTTTAT
Statistics
Matches: 69, Mismatches: 4, Indels: 26
0.70 0.04 0.26
Matches are distributed among these distances:
2 2 0.03
3 3 0.04
4 39 0.57
5 20 0.29
6 3 0.04
7 2 0.03
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (4 bp):
ATTA
Found at i:345377 original size:16 final size:16
Alignment explanation
Indices: 345358--345432 Score: 88
Period size: 16 Copynumber: 5.0 Consensus size: 16
345348 TATTATTAAT
*
345358 TAATTGTATTAATATA
1 TAATTATATTAATATA
345374 TAATTATATTAATATA
1 TAATTATATTAATATA
* *
345390 TATTTAAATTAAT-TA
1 TAATTATATTAATATA
345405 TAATTA-ATTAAT-TA
1 TAATTATATTAATATA
345419 -AA-TATATTAATATA
1 TAATTATATTAATATA
345433 ATTAATTAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
12 2 0.04
13 8 0.15
14 10 0.19
15 7 0.13
16 26 0.49
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (16 bp):
TAATTATATTAATATA
Found at i:345391 original size:10 final size:10
Alignment explanation
Indices: 345369--345470 Score: 57
Period size: 10 Copynumber: 11.1 Consensus size: 10
345359 AATTGTATTA
345369 ATATA-TAAT
1 ATATATTAAT
345378 -TATATTAAT
1 ATATATTAAT
345387 ATATATT--T
1 ATATATTAAT
345395 A-A-ATTAAT
1 ATATATTAAT
345403 -TATAATTAAT
1 ATAT-ATTAAT
345413 -TA-ATTAA-
1 ATATATTAAT
345420 ATATATTAAT
1 ATATATTAAT
345430 ATA-ATTAATT
1 ATATATTAA-T
* *
345440 AAATAGTT-TT
1 ATATA-TTAAT
*
345450 ATTTATTAAT
1 ATATATTAAT
*
345460 ATTTATTAAT
1 ATATATTAAT
345470 A
1 A
345471 ATAATTTAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 27
0.70 0.05 0.25
Matches are distributed among these distances:
6 3 0.04
7 1 0.01
8 15 0.20
9 16 0.22
10 36 0.49
11 1 0.01
12 2 0.03
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (10 bp):
ATATATTAAT
Found at i:345437 original size:22 final size:22
Alignment explanation
Indices: 345378--345444 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
345368 AATATATAAT
345378 TATATTAATATATATTTAAATT-AA
1 TATATTAATATA-A-TT-AATTAAA
345402 T-TA-TAAT-TAATTAATTAAA
1 TATATTAATATAATTAATTAAA
345421 TATATTAATATAATTAATTAAA
1 TATATTAATATAATTAATTAAA
345443 TA
1 TA
345445 GTTTTATTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
18 4 0.10
19 5 0.13
20 3 0.08
21 6 0.15
22 18 0.46
23 2 0.05
24 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TATATTAATATAATTAATTAAA
Found at i:345850 original size:38 final size:39
Alignment explanation
Indices: 345760--345853 Score: 110
Period size: 35 Copynumber: 2.5 Consensus size: 39
345750 AAATTAGGGT
*
345760 TTATATTTATACATATTA-TAATATTATATTAATAATATA
1 TTATATTTATACAT-TTATTAATATTATATAAATAATATA
*
345799 TT-TAATTAT--ATTTATTAA-ATTATATAAAT-ATATA
1 TTATATTTATACATTTATTAATATTATATAAATAATATA
345833 TTATATTTATACAATTTATTA
1 TTATATTTATAC-ATTTATTA
345854 GTATAAGTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
34 7 0.15
35 19 0.40
36 5 0.11
38 14 0.30
39 2 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (39 bp):
TTATATTTATACATTTATTAATATTATATAAATAATATA
Found at i:346000 original size:12 final size:12
Alignment explanation
Indices: 345985--346026 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
345975 ACTTATTTAG
345985 ATTATATAATTA
1 ATTATATAATTA
*
345997 ATTATATAATAA
1 ATTATATAATTA
346009 TATTATATTAATT-
1 -ATTATA-TAATTA
346022 ATTAT
1 ATTAT
346027 TACTTTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 16 0.62
13 6 0.23
14 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTATATAATTA
Found at i:346018 original size:22 final size:20
Alignment explanation
Indices: 345993--346040 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
345983 AGATTATATA
345993 ATTAATTATATAATAATATTAT
1 ATTAATTAT-TAATAAT-TTAT
* *
346015 ATTAATTATTATTACTTTAT
1 ATTAATTATTAATAATTTAT
346035 ATTAAT
1 ATTAAT
346041 ATAAACAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.42
21 5 0.21
22 9 0.38
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTAATTATTAATAATTTAT
Found at i:346205 original size:17 final size:16
Alignment explanation
Indices: 346177--346214 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
346167 TTATATATAT
346177 ATATTATATTAAATTA
1 ATATTATATTAAATTA
*
346193 ATATTATTATTAATTTA
1 ATATTA-TATTAAATTA
346210 ATATT
1 ATATT
346215 TAATAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATTATATTAAATTA
Found at i:346241 original size:22 final size:22
Alignment explanation
Indices: 346198--346244 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
346188 AATTAATATT
* * *
346198 ATTATTAATTTAATATTTAATA
1 ATTATTAAATTAATAATCAATA
*
346220 ATTATTAAATTATTAATCAATA
1 ATTATTAAATTAATAATCAATA
346242 ATT
1 ATT
346245 TATAAATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTATTAAATTAATAATCAATA
Found at i:346265 original size:19 final size:19
Alignment explanation
Indices: 346241--346284 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
346231 ATTAATCAAT
*
346241 AATTTATA-AATATTATTTA
1 AATTTATATAATATT-TATA
346260 AATTTATATAATATTTATA
1 AATTTATATAATATTTATA
346279 AATTTA
1 AATTTA
346285 ATTGTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
AATTTATATAATATTTATA
Found at i:346552 original size:18 final size:18
Alignment explanation
Indices: 346527--346561 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
346517 TAGTAATAAA
346527 TAAATTAACAA-TAATTT
1 TAAATTAACAATTAATTT
346544 TAAATTTAACAATTAATT
1 TAAA-TTAACAATTAATT
346562 AAAATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 7 0.44
19 5 0.31
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAATTAACAATTAATTT
Found at i:346566 original size:18 final size:18
Alignment explanation
Indices: 346531--346568 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
346521 AATAAATAAA
*
346531 TTAACAATAATTTTAAAT
1 TTAACAATAATTTAAAAT
346549 TTAACAATTAA-TTAAAAT
1 TTAACAA-TAATTTAAAAT
346567 TT
1 TT
346569 TAATAAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
TTAACAATAATTTAAAAT
Found at i:346752 original size:9 final size:8
Alignment explanation
Indices: 346740--346804 Score: 50
Period size: 9 Copynumber: 8.2 Consensus size: 8
346730 TATTGATTAC
346740 TATATAACT
1 TATATAA-T
346749 TATATAAT
1 TATATAAT
346757 TATATAAAT
1 TATAT-AAT
346766 TATA-AAT
1 TATATAAT
346773 TAT-TATAT
1 TATATA-AT
*
346781 T-TATTAT
1 TATATAAT
346788 TAT-T-AT
1 TATATAAT
346794 TATTATAAT
1 TA-TATAAT
346803 TA
1 TA
346805 ATTGTAATAT
Statistics
Matches: 47, Mismatches: 1, Indels: 16
0.73 0.02 0.25
Matches are distributed among these distances:
6 4 0.09
7 13 0.28
8 12 0.26
9 18 0.38
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (8 bp):
TATATAAT
Found at i:346779 original size:17 final size:17
Alignment explanation
Indices: 346740--346775 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
346730 TATTGATTAC
*
346740 TATATAACTTATATAAT
1 TATATAAATTATATAAT
346757 TATATAAATTATA-AAT
1 TATATAAATTATATAAT
346773 TAT
1 TAT
346776 TATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TATATAAATTATATAAT
Found at i:346804 original size:18 final size:17
Alignment explanation
Indices: 346751--346823 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 17
346741 ATATAACTTA
*
346751 TATAATTA-TA-TAAAT
1 TATAATTATTATTATAT
346766 TATAA--ATTATTATAT
1 TATAATTATTATTATAT
346781 T-T-ATTATTATTATTAT
1 TATAATTATTATTA-TAT
* *
346797 TATAATTAATTGTAATAT
1 TATAATT-ATTATTATAT
346815 TATAATTAT
1 TATAATTAT
346824 AATTTTTTGC
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
13 2 0.04
14 3 0.06
15 17 0.36
16 4 0.09
17 3 0.06
18 13 0.28
19 5 0.11
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (17 bp):
TATAATTATTATTATAT
Found at i:347095 original size:6 final size:6
Alignment explanation
Indices: 347077--347110 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
347067 ATTTGTAAGT
*
347077 ATTA-A ATTATA ATTGTA ATTATA ATTATA ATTAT
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTAT
347111 TTTGATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (6 bp):
ATTATA
Found at i:347675 original size:26 final size:23
Alignment explanation
Indices: 347646--347708 Score: 54
Period size: 26 Copynumber: 2.5 Consensus size: 23
347636 TATAATTAAT
347646 ATTAAACTAATATAAATATTCTATTA
1 ATTAAA-TAATATAAATA-T-TATTA
* *
347672 ATTATATAATAATAATTATTATTA
1 ATTAAATAAT-ATAAATATTATTA
347696 ATTATAATTAATA
1 ATTA-AA-TAATA
347709 AATTTAAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 9 0.29
25 7 0.23
26 15 0.48
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTAAATAATATAAATATTATTA
Found at i:348139 original size:163 final size:163
Alignment explanation
Indices: 347970--348273 Score: 414
Period size: 163 Copynumber: 1.9 Consensus size: 163
347960 TTGGTGAATA
** * * * * *
347970 GATTTATTTTTTAAATCTCTTAGTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATT
1 GATTTATTTTTTAAATCTCCAACTTATCAATTTTTGAAATAGTAATAAAGTAATATTATTTTATT
* *
348035 TTGAATAAGCTTGTA-TG-ATCAAAAACAATTGTTTTATAATAAAACAAAAGGTCATAATGATTT
66 TTGAATAAG-TTGTATTGAAT-AAAAACAATTATTTTATAATAAAACAAAAAGTCATAATGATTT
348098 GAAATAAATAATTATTTGAACTGATTTGATAAATT
129 GAAATAAATAATTATTTGAACTGATTTGATAAATT
* *
348133 GATTTATTTTTTAAATCTCCAACTTCTCATTTTTTGAAATAGTAATAAAGTAATATTATTTTATT
1 GATTTATTTTTTAAATCTCCAACTTATCAATTTTTGAAATAGTAATAAAGTAATATTATTTTATT
* * ** * *
348198 TTGGATAAGTTTTATTGAATTGAAACAATTATTTTATTATAAAACAAAAAGTCATAATGATTTTA
66 TTGAATAAGTTGTATTGAATAAAAACAATTATTTTATAATAAAACAAAAAGTCATAATGATTTGA
*
348263 AATAGATAATT
131 AATAAATAATT
348274 GTTCAAATAG
Statistics
Matches: 121, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
162 4 0.03
163 115 0.95
164 2 0.02
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (163 bp):
GATTTATTTTTTAAATCTCCAACTTATCAATTTTTGAAATAGTAATAAAGTAATATTATTTTATT
TTGAATAAGTTGTATTGAATAAAAACAATTATTTTATAATAAAACAAAAAGTCATAATGATTTGA
AATAAATAATTATTTGAACTGATTTGATAAATT
Found at i:348501 original size:23 final size:22
Alignment explanation
Indices: 348475--348518 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
348465 TTGAATAAAT
348475 TATTAATATTATTAATAATATTA
1 TATTAATATTATTAAT-ATATTA
348498 TATTAATATTATTAATATATT
1 TATTAATATTATTAATATATT
348519 TAATAATCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTAATATTATTAATATATTA
Found at i:348607 original size:16 final size:17
Alignment explanation
Indices: 348575--348614 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
348565 TATAGTAAAT
348575 ATTAATAATTAATTATA
1 ATTAATAATTAATTATA
*
348592 ATTAATAA-TGATTATA
1 ATTAATAATTAATTATA
348608 ATTAATA
1 ATTAATA
348615 CAAATAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
ATTAATAATTAATTATA
Found at i:349667 original size:24 final size:25
Alignment explanation
Indices: 349638--349698 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
349628 TTAATTTATT
349638 ATATTAATAT-TTAT-ATATTACTA
1 ATATTAATATATTATAATATTACTA
*
349661 ATAATTAATATAATTATAATATTAGTA
1 AT-ATTAATAT-ATTATAATATTACTA
349688 AT-TTAATATAT
1 ATATTAATATAT
349699 AAATATAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 2 0.06
24 10 0.30
25 7 0.21
26 4 0.12
27 10 0.30
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
ATATTAATATATTATAATATTACTA
Found at i:350017 original size:25 final size:23
Alignment explanation
Indices: 349980--350025 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
349970 TTCAATATCA
349980 TAATAATAATATTATATAACAATAT
1 TAATAATAATATTA-A-AACAATAT
350005 TAAT-ATAACTATTAAAACAAT
1 TAATAATAA-TATTAAAACAAT
350026 TGATAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (23 bp):
TAATAATAATATTAAAACAATAT
Found at i:350054 original size:23 final size:24
Alignment explanation
Indices: 350028--350078 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
350018 AAAACAATTG
350028 ATAAAATTATAAAT-ATTATAAAT
1 ATAAAATTATAAATAATTATAAAT
* * *
350051 ATAATATTATAATTAATTATAATT
1 ATAAAATTATAAATAATTATAAAT
350075 ATAA
1 ATAA
350079 CTTATTTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATAAAATTATAAATAATTATAAAT
Found at i:350165 original size:14 final size:15
Alignment explanation
Indices: 350139--350171 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
350129 TAATTTATTA
350139 ATAATTATATATAAT
1 ATAATTATATATAAT
*
350154 ATAATT-TATATATT
1 ATAATTATATATAAT
350168 ATAA
1 ATAA
350172 AACAATTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATAATTATATATAAT
Found at i:350819 original size:180 final size:179
Alignment explanation
Indices: 350326--350820 Score: 450
Period size: 180 Copynumber: 2.7 Consensus size: 179
350316 GTTTATATTG
* * ** * * * * *
350326 TATTTGGAATAAACTTGTATGAGTAGAAATAATTTTTTTATGACAAAACAAAACGTCATAACGAT
1 TATTTCGAATAAGCTTGTATGAACAAAAACAATTATTTTATGAC-AAACAAAAAGTCATAATGAT
* * *
350391 TTGAAATAGAA-ATTTGTTCAAATAGTCATAACTATTTGAACTTTTTTGATAA-ATAGTTTCATT
65 TTGAAATA-AATAATTATTCAAATAGTCATAACTATTTGAACTTTTCTGA-AACATAG-TT-ATT
* ** *
350454 TTTT-AAATCTCTTACTCATTAATTTTTGAAATATTAATAAATTAGTATCATTT
126 TTTTAAAATCTCTTACTCATTAATTGTCAAAATATTAATAAATTAATATCATTT
* * * ** * * * **
350507 TATTTCAAATAAGCCTATATGAACTTATACAATTGTTTTATGATGAAACAATTAGTCATAATGAT
1 TATTTCGAATAAGCTTGTATGAACAAAAACAATTATTTTATGA-CAAACAAAAAGTCATAATGAT
* * * * * * *
350572 TTGAAATAGATAAATATTCAAAGAGTTAAAAGC-ATTTGAACTTTCTCGAGAAACATATTTA-TT
65 TTGAAATAAATAATTATTCAAATAGTCATAA-CTATTTGAACTTT-TC-TGAAACATAGTTATTT
* * * *
350635 TTTAAAATTTTTTA-TTATTAATTGTCAAAATATTAATAAATTAATATTATTT
127 TTTAAAATCTCTTACTCATTAATTGTCAAAATATTAATAAATTAATATCATTT
*
350687 TAATTT-GAATAAGCTTGTATGAACAAAAACAATTATTTTATGGA-AAAGCAAAAAGCCATAATG
1 T-ATTTCGAATAAGCTTGTATGAACAAAAACAATTATTTTAT-GACAAA-CAAAAAGTCATAATG
*
350750 ATTTGAAATAAATAATTATTCAAATAGTCATAACTA-TTGAACTTATTCTGTAAACAAAGTTATT
63 ATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACTT-TTCTG-AAACATAGTTATT
350814 TTTTAAA
126 TTTTAAA
350821 TCTTAAACTT
Statistics
Matches: 247, Mismatches: 53, Indels: 29
0.75 0.16 0.09
Matches are distributed among these distances:
178 1 0.00
179 23 0.09
180 117 0.47
181 95 0.38
182 6 0.02
183 5 0.02
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (179 bp):
TATTTCGAATAAGCTTGTATGAACAAAAACAATTATTTTATGACAAACAAAAAGTCATAATGATT
TGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACTTTTCTGAAACATAGTTATTTTTTA
AAATCTCTTACTCATTAATTGTCAAAATATTAATAAATTAATATCATTT
Found at i:351134 original size:18 final size:19
Alignment explanation
Indices: 351098--351144 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
351088 ATAGTTATTG
*
351098 TTTATCTTATATAACTATA
1 TTTATATTATATAACTATA
351117 TTTATATTATAT-ACTATA
1 TTTATATTATATAACTATA
* *
351135 ATAATATTAT
1 TTTATATTAT
351145 TAAATTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTATATTATATAACTATA
Found at i:351277 original size:12 final size:12
Alignment explanation
Indices: 351260--351284 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
351250 TTATGTAGTT
351260 TTTATAATATAA
1 TTTATAATATAA
351272 TTTATAATATAA
1 TTTATAATATAA
351284 T
1 T
351285 AATAAATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTATAATATAA
Found at i:351321 original size:20 final size:20
Alignment explanation
Indices: 351271--351322 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 20
351261 TTATAATATA
351271 ATTTATAATATAATAATAAATT
1 ATTTATAAT-TAAT-ATAAATT
*
351293 ATATA-AATTAAT-TAGAATT
1 ATTTATAATTAATATA-AATT
351312 ATTTATAATTA
1 ATTTATAATTA
351323 TTAAAAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 2 0.08
19 8 0.31
20 9 0.35
21 3 0.12
22 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
ATTTATAATTAATATAAATT
Found at i:351656 original size:13 final size:14
Alignment explanation
Indices: 351627--351658 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
351617 AATAATTTAA
351627 TAAATTATATAATT
1 TAAATTATATAATT
351641 TAAATTATAT-ATT
1 TAAATTATATAATT
351654 TAAAT
1 TAAAT
351659 CATAAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAATTATATAATT
Found at i:351920 original size:23 final size:22
Alignment explanation
Indices: 351885--351964 Score: 56
Period size: 23 Copynumber: 3.5 Consensus size: 22
351875 ATTTATTTAG
*
351885 TAATATATCATATTATT-ATATAT
1 TAAT-TATAATATTATTAAT-TAT
*
351908 TAAATTATAATATTGTTAATTAT
1 T-AATTATAATATTATTAATTAT
* *
351931 TAATTATATAGATTAATTAATAAGT
1 TAATTATA-ATATT-ATTAATTA-T
351956 TAA-TATAAT
1 TAATTATAAT
351965 TCATAATAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
22 7 0.15
23 20 0.43
24 15 0.33
25 4 0.09
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (22 bp):
TAATTATAATATTATTAATTAT
Found at i:352165 original size:27 final size:29
Alignment explanation
Indices: 352117--352173 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
352107 AACTAGTAAT
352117 TTTAATAATTATTTATAAATTAATTAAATA
1 TTTAATAATTATTTAT-AATTAATTAAATA
* *
352147 TTTAATTATTATTT-T-ATTAATTTAATA
1 TTTAATAATTATTTATAATTAATTAAATA
352174 ATTGTATAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 11 0.44
29 1 0.04
30 13 0.52
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTAATAATTATTTATAATTAATTAAATA
Found at i:353329 original size:25 final size:24
Alignment explanation
Indices: 353283--353331 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
353273 ATAATTTTAA
*
353283 ATTATAATAATTTAAGTCTTAATT
1 ATTATAATAATTTAAGTATTAATT
353307 ATTATAATTAATTTAA-TAATTAATT
1 ATTATAA-TAATTTAAGT-ATTAATT
353332 TAAATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
ATTATAATAATTTAAGTATTAATT
Found at i:353346 original size:12 final size:12
Alignment explanation
Indices: 353301--353341 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
353291 AATTTAAGTC
353301 TTAATTATTATAA
1 TTAATT-TTATAA
*
353314 TTAATTTAATAA
1 TTAATTTTATAA
353326 TTAA-TTTA-AA
1 TTAATTTTATAA
353336 TTAATT
1 TTAATT
353342 ATTAATAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 6 0.24
11 4 0.16
12 9 0.36
13 6 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TTAATTTTATAA
Found at i:353455 original size:19 final size:20
Alignment explanation
Indices: 353407--353468 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
353397 TTTGAAAGCC
*
353407 TATTTATTA-TATAAATTTAT
1 TATTTATTAGTATAAA-TAAT
*
353427 TAAATTATTAGTAT-AATAAT
1 T-ATTTATTAGTATAAATAAT
*
353447 TATTTATTATTATAAATAAT
1 TATTTATTAGTATAAATAAT
353467 TA
1 TA
353469 CTTTTATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 10 0.29
20 13 0.37
21 9 0.26
22 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TATTTATTAGTATAAATAAT
Found at i:353475 original size:19 final size:22
Alignment explanation
Indices: 353430--353477 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
353420 AATTTATTAA
*
353430 ATTATTAGTATAATAATTATTT
1 ATTATTAGTATAATAATTACTT
353452 ATTATTA-TA-AATAATTACTT
1 ATTATTAGTATAATAATTACTT
353472 -TTATTA
1 ATTATTA
353478 AATTAGTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 6 0.24
20 10 0.40
21 2 0.08
22 7 0.28
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
ATTATTAGTATAATAATTACTT
Found at i:353689 original size:19 final size:20
Alignment explanation
Indices: 353648--353687 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
353638 TTTTTTTATC
* *
353648 AATT-TTAGCCATGTTAATA
1 AATTATTAGCCAAGCTAATA
353667 AATTATTAGCCAAGCTAATA
1 AATTATTAGCCAAGCTAATA
353687 A
1 A
353688 TTAAATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (20 bp):
AATTATTAGCCAAGCTAATA
Found at i:353898 original size:20 final size:19
Alignment explanation
Indices: 353873--353915 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
353863 ATAATAGCTA
353873 AATATTAA-TTATTTAATATT
1 AATATTAATTTA-TT-ATATT
353893 AATATTAATTTATTATATT
1 AATATTAATTTATTATATT
353912 AATA
1 AATA
353916 AGTTTGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.41
20 10 0.45
21 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATATTAATTTATTATATT
Found at i:354377 original size:10 final size:10
Alignment explanation
Indices: 354362--354396 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
354352 TTATAAGCTT
354362 ATAAATTATA
1 ATAAATTATA
354372 ATAAATTCATA
1 ATAAATT-ATA
*
354383 ATATATTATA
1 ATAAATTATA
354393 ATAA
1 ATAA
354397 TAATTGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (10 bp):
ATAAATTATA
Found at i:354392 original size:28 final size:26
Alignment explanation
Indices: 354360--354428 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 26
354350 ATTTATAAGC
354360 TTATAAATTATAATAAATTCATAATATA
1 TTATAAATTATAATAAATT-ATAAT-TA
*
354388 TTAT-AATAATAATTGTAAATTATAATTA
1 TTATAAATTATAA---TAAATTATAATTA
354416 TTA-AAATTATAAT
1 TTATAAATTATAAT
354429 TATATTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
25 1 0.03
27 7 0.20
28 16 0.46
29 5 0.14
30 6 0.17
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (26 bp):
TTATAAATTATAATAAATTATAATTA
Found at i:354635 original size:34 final size:34
Alignment explanation
Indices: 354589--354654 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
354579 GTTTTATAAC
* *
354589 TAATATATAATTATATTATTAT-ATATCAAATTAT
1 TAATATAGAATTA-ATTAATATAATATCAAATTAT
*
354623 TAATATAGAATTAATTAATATAATATTAAATT
1 TAATATAGAATTAATTAATATAATATCAAATT
354655 CAAATATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 7 0.25
34 21 0.75
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (34 bp):
TAATATAGAATTAATTAATATAATATCAAATTAT
Found at i:354651 original size:15 final size:13
Alignment explanation
Indices: 354603--354650 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 13
354593 ATATAATTAT
354603 ATTATTATATATCAA
1 ATTATTA-ATAT-AA
354618 ATTATTAATATAGA
1 ATTATTAATATA-A
354632 ATTAATTAATATAA
1 ATT-ATTAATATAA
354646 TATTA
1 -ATTA
354651 AATTCAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.03
14 10 0.33
15 19 0.63
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (13 bp):
ATTATTAATATAA
Found at i:354774 original size:18 final size:18
Alignment explanation
Indices: 354748--354782 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
354738 AATATATTAT
*
354748 AAATTATTATAATTATAA
1 AAATAATTATAATTATAA
*
354766 AAATAATTATTATTATA
1 AAATAATTATAATTATA
354783 TATTATTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATAATTATAATTATAA
Found at i:354814 original size:34 final size:33
Alignment explanation
Indices: 354740--354817 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 33
354730 ATATAATGAA
354740 TATATTATAAATTATTATAATTATAAAAATAAT
1 TATATTATAAATTATTATAATTATAAAAATAAT
* *
354773 TATTATTATATATTATT-T-ATTATATAAATTACAT
1 TA-TATTATAAATTATTATAATTATA-AAAATA-AT
354807 TCATATTATAA
1 T-ATATTATAA
354818 GCTATAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
32 6 0.16
33 8 0.21
34 23 0.61
35 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (33 bp):
TATATTATAAATTATTATAATTATAAAAATAAT
Found at i:354889 original size:16 final size:16
Alignment explanation
Indices: 354843--354890 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
354833 AATAAACAAG
*
354843 TTAAAAAATTATATTAT
1 TTAATAAATTATATT-T
354860 TTAAT-AA-T-TA-TT
1 TTAATAAATTATATTT
354872 TTAATAAATTATATTT
1 TTAATAAATTATATTT
354888 TTA
1 TTA
354891 TATTTTAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 9
0.72 0.03 0.25
Matches are distributed among these distances:
12 6 0.23
13 3 0.12
14 3 0.12
15 3 0.12
16 7 0.27
17 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTAATAAATTATATTT
Found at i:354949 original size:25 final size:25
Alignment explanation
Indices: 354905--354994 Score: 85
Period size: 29 Copynumber: 3.3 Consensus size: 25
354895 TTAGAAATTA
354905 ATATATTATTAAATAATAATTATTTAC
1 ATATATTA-TAAAT-ATAATTATTTAC
354932 A-ATATTATAAATATTAATTATATATA-
1 ATATATTATAAATA-TAATTAT-T-TAC
354958 ATATAGTTTATAAATATAATATATTTAC
1 ATATA--TTATAAATATAAT-TATTTAC
354986 ATTATATTA
1 A-TATATTA
354995 CAAGATAATA
Statistics
Matches: 54, Mismatches: 0, Indels: 18
0.75 0.00 0.25
Matches are distributed among these distances:
24 1 0.02
25 12 0.22
26 8 0.15
27 11 0.20
28 6 0.11
29 16 0.30
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (25 bp):
ATATATTATAAATATAATTATTTAC
Found at i:354992 original size:18 final size:18
Alignment explanation
Indices: 354951--354991 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
354941 AATATTAATT
*
354951 ATATATAATATAGTTTAT
1 ATATATAATATAGTTTAC
*
354969 AAATATAATATA-TTTAC
1 ATATATAATATAGTTTAC
354986 AT-TATA
1 ATATATA
354992 TTACAAGATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 4 0.20
17 5 0.25
18 11 0.55
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (18 bp):
ATATATAATATAGTTTAC
Found at i:355158 original size:45 final size:47
Alignment explanation
Indices: 355102--355191 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 47
355092 AAATTAAATT
355102 AAATTTATAATT-ATAAAAATTATAATTTAAA-C-TATTAATTCAAAA
1 AAATTTATAATTAATAAAAATTA-AATTTAAATCTTATTAATTCAAAA
* * * *
355147 AAATTTCTAATTAATTAATATTAATTTTAAATCTTATTAATTCAA
1 AAATTTATAATTAATAAAAATTAAATTTAAATCTTATTAATTCAA
355192 TTATTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
45 18 0.47
46 9 0.24
47 11 0.29
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (47 bp):
AAATTTATAATTAATAAAAATTAAATTTAAATCTTATTAATTCAAAA
Found at i:355325 original size:23 final size:23
Alignment explanation
Indices: 355294--355349 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
355284 TTTAAATATA
*
355294 AATTCTTAATAATAACCATATTAT
1 AATT-TTAATAATAACAATATTAT
* * *
355318 TATTTTAATTATAATAATATTAT
1 AATTTTAATAATAACAATATTAT
355341 AATTTTAAT
1 AATTTTAAT
355350 TGTAATATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 24 0.89
24 3 0.11
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (23 bp):
AATTTTAATAATAACAATATTAT
Found at i:355350 original size:23 final size:23
Alignment explanation
Indices: 355311--355356 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
355301 AATAATAACC
*
355311 ATATTATTATTTTAATTATAATA
1 ATATTATAATTTTAATTATAATA
*
355334 ATATTATAATTTTAATTGTAATA
1 ATATTATAATTTTAATTATAATA
355357 TAATTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
ATATTATAATTTTAATTATAATA
Found at i:355422 original size:20 final size:20
Alignment explanation
Indices: 355383--355422 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
355373 AAAATTAGAT
*
355383 ATTAATTTTAATAAACAATA
1 ATTAATTTTAACAAACAATA
* *
355403 ATTAATTTTCACAAATAATA
1 ATTAATTTTAACAAACAATA
355423 TATCAAATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTAATTTTAACAAACAATA
Found at i:355602 original size:25 final size:24
Alignment explanation
Indices: 355557--355611 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 24
355547 TTTAATTTAT
355557 TTAATAATATTATTTAAATTATTAA
1 TTAAT-ATATTATTTAAATTATTAA
355582 TTAATATATTGA-TTAATATTATTAA
1 TTAATATATT-ATTTAA-ATTATTAA
355607 -TAATA
1 TTAATA
355612 AATATTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
24 14 0.50
25 14 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TTAATATATTATTTAAATTATTAA
Found at i:355610 original size:12 final size:12
Alignment explanation
Indices: 355557--355622 Score: 59
Period size: 12 Copynumber: 5.6 Consensus size: 12
355547 TTTAATTTAT
355557 TTAATAATATTA
1 TTAATAATATTA
355569 TT--TAA-ATTA
1 TTAATAATATTA
355578 TTAATTAATA-TA
1 TTAA-TAATATTA
*
355590 TTGATTAATATTA
1 TT-AATAATATTA
*
355603 TTAATAATAAATA
1 TTAATAAT-ATTA
355616 TTAATAA
1 TTAATAA
355623 CGATTGATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
9 6 0.14
10 3 0.07
12 19 0.43
13 16 0.36
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (12 bp):
TTAATAATATTA
Found at i:355618 original size:22 final size:22
Alignment explanation
Indices: 355548--355621 Score: 73
Period size: 22 Copynumber: 3.3 Consensus size: 22
355538 ATAATCAGTT
355548 TTAAT-TTATTTAATAAT-ATTA
1 TTAATATTA-TTAATAATAATTA
355569 TTTAA-ATTATTAATTAATATATTGA
1 -TTAATATTATTAA-TAATA-ATT-A
*
355594 TTAATATTATTAATAATAAATA
1 TTAATATTATTAATAATAATTA
355616 TTAATA
1 TTAATA
355622 ACGATTGATA
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
21 4 0.09
22 18 0.40
23 2 0.04
24 12 0.27
25 9 0.20
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (22 bp):
TTAATATTATTAATAATAATTA
Found at i:357125 original size:20 final size:19
Alignment explanation
Indices: 357093--357133 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
357083 TTAAATATTT
*
357093 TTTAATAAATTAATACTAA
1 TTTAATAAATTAATAATAA
*
357112 TTTACATAATTTAATAATAA
1 TTTA-ATAAATTAATAATAA
357132 TT
1 TT
357134 ATATATTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTAATAAATTAATAATAA
Found at i:357147 original size:17 final size:17
Alignment explanation
Indices: 357127--357178 Score: 50
Period size: 21 Copynumber: 2.8 Consensus size: 17
357117 ATAATTTAAT
*
357127 AATAATTATATATTATG
1 AATAATTATATATTATA
*
357144 AATAGTTACTTTATAATTATA
1 AATAATTA---TAT-ATTATA
357165 AATAATTATATATT
1 AATAATTATATATT
357179 TTTATAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
17 10 0.36
18 3 0.11
20 3 0.11
21 12 0.43
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (17 bp):
AATAATTATATATTATA
Found at i:357185 original size:20 final size:19
Alignment explanation
Indices: 357160--357198 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
357150 TACTTTATAA
357160 TTATAAATAATTATATATTT
1 TTATAAATAATTA-ATATTT
* *
357180 TTATAATTTATTAATATTT
1 TTATAAATAATTAATATTT
357199 CTAAAGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTATAAATAATTAATATTT
Found at i:357444 original size:20 final size:21
Alignment explanation
Indices: 357410--357473 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 21
357400 ATTTAATTTG
* *
357410 TATAAAATTATAATTATATTAT
1 TATAATATTA-AATTAAATTAT
357432 TATAAT-TTAAATTAAATTA-
1 TATAATATTAAATTAAATTAT
* *
357451 TATAGTATTAATTTAAATTAT
1 TATAATATTAAATTAAATTAT
357472 TA
1 TA
357474 ATATGATTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 5 0.14
20 21 0.58
21 5 0.14
22 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TATAATATTAAATTAAATTAT
Found at i:357462 original size:25 final size:26
Alignment explanation
Indices: 357414--357494 Score: 89
Period size: 25 Copynumber: 3.2 Consensus size: 26
357404 AATTTGTATA
*
357414 AAATTATAATTATATTATTATAATTT
1 AAATTATAATTATATTAGTATAATTT
357440 AAATTA-AATTATA-TAGTATTAATTT
1 AAATTATAATTATATTAGTA-TAATTT
*
357465 AAATTATTAA-TATGATTAGT-TAATAT
1 AAATTA-TAATTAT-ATTAGTATAATTT
357491 AAAT
1 AAAT
357495 ATTATATATT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
24 4 0.08
25 19 0.40
26 18 0.38
27 3 0.06
28 4 0.08
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (26 bp):
AAATTATAATTATATTAGTATAATTT
Found at i:358038 original size:145 final size:145
Alignment explanation
Indices: 357769--358041 Score: 354
Period size: 145 Copynumber: 1.9 Consensus size: 145
357759 ACCTTTTGTT
** *
357769 TTGTCATAAAACAATTATTTCTGTTCATACAAGATTATTCAAAATAAAACAATATGAATCTAATA
1 TTGTCATAAAACAATTATTTCAATTCATACAAGATTATTCAAAATAAAACAAAATGAATCTAATA
* * *
357834 ATATTCAAAAAATTAATAACTAAGGGATTTAAAAAATAAATTTGTTTGCTGAACCAATTCAAATC
66 ATATTCAAAAAATTAATAAATAAGAGATTTAAAAAATAAATTTGTTTCCTGAACCAATTCAAATC
357899 GTTATGACCTCTGTC
131 GTTATGACCTCTGTC
* * ** * * **
357914 TTGTCATAAAACAATT-TTCTCAATTCATACTAGCTTATTTGAAATAAAATAAAATGAATTTGTT
1 TTGTCATAAAACAATTATT-TCAATTCATACAAGATTATTCAAAATAAAACAAAATGAATCTAAT
* *
357978 AATATTTC-AAAAATTAATAAATAAGAGATTTAAAAAATAATTTTGTTTACCT-AACGAATTCAA
65 AATA-TTCAAAAAATTAATAAATAAGAGATTTAAAAAATAAATTTGTTT-CCTGAACCAATTCAA
358041 A
128 A
358042 AAATTATACT
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
144 2 0.02
145 102 0.94
146 5 0.05
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (145 bp):
TTGTCATAAAACAATTATTTCAATTCATACAAGATTATTCAAAATAAAACAAAATGAATCTAATA
ATATTCAAAAAATTAATAAATAAGAGATTTAAAAAATAAATTTGTTTCCTGAACCAATTCAAATC
GTTATGACCTCTGTC
Found at i:358821 original size:13 final size:13
Alignment explanation
Indices: 358803--358837 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
358793 TATCAAGACT
358803 TAATATTAATTAG
1 TAATATTAATTAG
358816 TAATATTAA-TAG
1 TAATATTAATTAG
358828 T-ATATTAATT
1 TAATATTAATT
358838 CAAATATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 7 0.33
12 5 0.24
13 9 0.43
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (13 bp):
TAATATTAATTAG
Found at i:359602 original size:179 final size:176
Alignment explanation
Indices: 359353--359972 Score: 664
Period size: 179 Copynumber: 3.4 Consensus size: 176
359343 TTAATTTAAA
* * * **
359353 TTATTTTCTAAATCTTTTACTTATTAATTGTTGGAATATTATTAAA-TTAGTATTATTTTATTTT
1 TTATTTTTTAAATCTTTTACTTATTAATT-TTGAAATATTAATAAATTTA--ATTATTTTATTCA
* *
359417 GAATAAGCTTATATAGACAAAAACAATTGGTTCATCGCAAAACAAAAGATCCTAACTATTTGAAA
63 GAATAAGCTTATAT-GACAAAAACAATTGGTTTATCGCAAAACAAAAGATCATAACTATTTGAAA
* *
359482 TAGATAATTATTCAAATAGTTAGATCTATTTAAACATGTTCAAAAAACTAAT
127 TAGATAATTGTTCAAATAGTCA-A-CTATTTAAACATGTTCAAAAAACTAAT
359534 TTATTTTTTAAAT-TTTTACTTATTAAATTTTGAAATATTAATAAATTTAATTATTTTATTCAGA
1 TTATTTTTTAAATCTTTTACTTATT-AATTTTGAAATATTAATAAATTTAATTATTTTATTCAGA
* * * *
359598 ATAAGCTTGTATGGACAGAAACAATTGGTTTATCACAAAACAAAAGGTCATAACTATTTGAAATA
65 ATAAGCTTATAT-GACAAAAACAATTGGTTTATCGCAAAACAAAAGATCATAACTATTTGAAATA
* * *
359663 AATAATTGTTCAAATAGTCAAACTATTCAAACATGTTCAATAAAACAAAT
129 GATAATTGTTCAAATAGTC-AACTATTTAAACATGTTCAA-AAAACTAAT
* * *
359713 TTATTTTTTAAAT-TTTTACTTATTAAATTTTGGAATATTAATTAATTTAATTATTTTATT-TGA
1 TTATTTTTTAAATCTTTTACTTATT-AATTTTGAAATATTAATAAATTTAATTATTTTATTCAG-
* ** * *
359776 AATAAGCTTTTATGA-ATAGAAACAATTATTTTAT-GACAAAACAAAAGTTCATAACGATTTGAA
64 AATAAGCTTATATGACA-A-AAACAATTGGTTTATCG-CAAAACAAAAGATCATAACTATTTGAA
* * ** *
359839 ATAGATAATTGTTCAAATAGTCATCACTAGTTAAACTTGTTCAGTAAA-TGGAT
126 ATAGATAATTGTTCAAATAGTCA--ACTATTTAAACATGTTCAAAAAACT-AAT
* * * *
359892 TCATTTTTTTAAATCTCTTACTCATTAATTTTTAGAATATTAATAAATTAGTAA-TATTTTATTT
1 TTA-TTTTTTAAATCTTTTACTTATTAATTTTGA-AATATTAATAAATT--TAATTATTTTA-TT
*
359956 CA-AATAAGCCTATATGA
61 CAGAATAAGCTTATATGA
359973 ATTGATACAA
Statistics
Matches: 377, Mismatches: 44, Indels: 35
0.83 0.10 0.08
Matches are distributed among these distances:
177 1 0.00
178 21 0.06
179 232 0.62
180 57 0.15
181 41 0.11
182 20 0.05
183 5 0.01
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.42
Consensus pattern (176 bp):
TTATTTTTTAAATCTTTTACTTATTAATTTTGAAATATTAATAAATTTAATTATTTTATTCAGAA
TAAGCTTATATGACAAAAACAATTGGTTTATCGCAAAACAAAAGATCATAACTATTTGAAATAGA
TAATTGTTCAAATAGTCAACTATTTAAACATGTTCAAAAAACTAAT
Found at i:360074 original size:29 final size:28
Alignment explanation
Indices: 360006--360074 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
359996 AAATAATTAA
* *
360006 ATATAATAATTTATATTTAAAATTTATG
1 ATATAATAATTCATAATTAAAATTTATG
* *
360034 ATATAACAAATTCATAATTAAGAATTATATT
1 ATATAA-TAATTCATAATTAA-AATT-TATG
360065 A-ATAATAATT
1 ATATAATAATT
360075 ATTAAATTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
28 6 0.18
29 15 0.45
30 8 0.24
31 4 0.12
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (28 bp):
ATATAATAATTCATAATTAAAATTTATG
Found at i:360390 original size:16 final size:16
Alignment explanation
Indices: 360369--360399 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
360359 ATTTAATGTT
*
360369 ATATTAATATTAATTA
1 ATATTAAGATTAATTA
360385 ATATTAAGATTAATT
1 ATATTAAGATTAATT
360400 CTGTATAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATATTAAGATTAATTA
Found at i:360895 original size:20 final size:20
Alignment explanation
Indices: 360853--360892 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
360843 ATCAAAATAG
* *
360853 ATTTAATATTAATTTAATTA
1 ATTTAATAATAAATTAATTA
360873 ATTTAATAATAAATT-ATTA
1 ATTTAATAATAAATTAATTA
360892 A
1 A
360893 ATTATAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTAATAATAAATTAATTA
Found at i:361216 original size:21 final size:20
Alignment explanation
Indices: 361181--361227 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
361171 ATATAATTTT
*
361181 TATAATTATATTATAATAAA
1 TATAATTATAATATAATAAA
*
361201 TATAATATATAATATAATAAT
1 TATAAT-TATAATATAATAAA
361222 TATAAT
1 TATAAT
361228 GGTTTAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TATAATTATAATATAATAAA
Found at i:361736 original size:25 final size:27
Alignment explanation
Indices: 361702--361751 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
361692 ATTAACTAAT
*
361702 AATAATTAATATATTAT-ACAATTAAA
1 AATAATTAATAAATTATGACAATTAAA
361728 AATAA-TAATAAATTATGACAATTA
1 AATAATTAATAAATTATGACAATTA
361752 TTATATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (27 bp):
AATAATTAATAAATTATGACAATTAAA
Found at i:362128 original size:17 final size:15
Alignment explanation
Indices: 362094--362136 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
362084 TAAACTTCTT
362094 TTAATTCTAATAAATA
1 TTAATT-TAATAAATA
362110 TTAATTTAATATTAATA
1 TTAATTTAATA--AATA
*
362127 TTATTTTAAT
1 TTAATTTAAT
362137 GTTATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 5 0.21
16 6 0.25
17 13 0.54
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAATTTAATAAATA
Found at i:363884 original size:21 final size:20
Alignment explanation
Indices: 363825--363885 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
363815 TATCTATATT
* *
363825 ATAATAAAATAATATTATAA
1 ATAATAATATAATATTACAA
* *
363845 CTAATTAATATACAGATTACAA
1 ATAA-TAATATA-ATATTACAA
363867 ATAATAATATCAATATTAC
1 ATAATAATAT-AATATTAC
363886 GTATAATTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (20 bp):
ATAATAATATAATATTACAA
Found at i:363963 original size:18 final size:18
Alignment explanation
Indices: 363940--363974 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
363930 AATTTAAATA
363940 ATAGCTTATTATTTTATT
1 ATAGCTTATTATTTTATT
363958 ATAGCTTATTATTTTAT
1 ATAGCTTATTATTTTAT
363975 CTATTATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (18 bp):
ATAGCTTATTATTTTATT
Found at i:364881 original size:18 final size:19
Alignment explanation
Indices: 364858--364894 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
364848 CCAAATAGGC
364858 TTGTTTGATGA-AAAACAA
1 TTGTTTGATGACAAAACAA
*
364876 TTGTTTTATGACAAAACAA
1 TTGTTTGATGACAAAACAA
364895 AAGTTCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (19 bp):
TTGTTTGATGACAAAACAA
Found at i:365651 original size:528 final size:535
Alignment explanation
Indices: 364609--365865 Score: 1160
Period size: 528 Copynumber: 2.4 Consensus size: 535
364599 TAATTATATG
* * * * * * * * *
364609 TTATTTTTTAAATCTCTTAGTTATTAATTTTTAG-AATATTATTATATTAGTATTATTTTATTTC
1 TTATTATTTAAATATTTTACTTATTAA-TTTTAGAAATATTAATAAATTAATATTACTATATTTC
* ** * * * * * * ** * * *
364673 GAATAAACTTGTGTGAATAGATATAAT-TGTTTTATGAGATAACAAAAGGTTATAACAATTTGAA
65 GAATAAGCACGTATGAATAGAAACAATAAG-TTTATGACAAAACAAAAAATCAGAATAATTTGAA
* * * *
364737 ATATATAATTGTTCAAATAGTCATAACTATTTGAA-GTGGTTCAGTAAAT--AGATTAACTTTTT
129 ATAGATAATTGTTCAAATAGTCATAACTA-TTAAATGT-GTTCA--AAATACACATT-ATTTTTT
* * * * *
364799 AAATCTTTTATTAATTTTTGAAATATTAGTAAATTAGTATTATTTTATTCCAAATAGGCTTGTTT
189 AAATCTCTTATTAATTTTTGAAATAGTAATAAATTAGTATTATTTTATTCCAAATAAGCTTGTAT
* * * *
364864 GATGAAAAACAATTGTTTTATGACAAAACAAAAGTTCATAACAATTTGAAATAGATAATTATTCA
254 GATGAAAAACAATTATTTTATAACAAAACAAAAGTTCATAACAATTTGAAATAAATAATCATTCA
* * * ** *
364929 AATGGCCATAATTATTTGAATAATTTGATAAACTTATTTTTTTTAAAAACTCCAACTTCTTAATT
319 AATGGACATAACTATTTAAATAATTTGATAAACAAATTTTTTTTAAAAACTCCAACTTATTAATT
* * *** * * * *
364994 TTTGAAATATTAATAAAGCAATATTATTTTATTTTGGAAAAAGTTTAATGTACTGAAATAGTTGT
384 TTTGAAATAATAACAAAGCAATATTATTTTATTTCCAAAAAACTTTAATGTAATGAAACAATTGT
* * * * * * *
365059 TTTATGATAAAATAAAAGGTCGTAACAATTTTAAATAGATAATTATTCAAATAGTCAGAACTATT
449 TTTATGACAAAACAAAAGATCATAACAATTTGAAATAGATAATTATTCAAAAAGTAAGAACTATT
* *
365124 TGAACTTATTCGG-TAA-ATAT
514 TGAACTTACTCGGTTAACAAAT
** * * *
365144 ATT-TT-TTTAAA-A-TTT-CTTATTAATTTTCTAAATTTTAATAAATTAGTATTACTATATTTT
1 -TTATTATTTAAATATTTTACTTATTAATTTTAGAAATATTAATAAATTAATATTACTATATTTC
* * * * *
365204 GAATAAGCACGTATGAATTGAAACAATAATTTTTTGACTAAACAAAAAATCAGAATAATTTGGAA
65 GAATAAGCACGTATGAATAGAAACAATAAGTTTATGACAAAACAAAAAATCAGAATAATTTGAAA
* *
365269 TAGATAATTG-TCTAATAGTCTTAACTATTTAAACTGT-TTCGAAAA-ACACATT-TTTTTTAAA
130 TAGATAATTGTTCAAATAGTCATAACTA-TTAAA-TGTGTTC-AAAATACACATTATTTTTTAAA
* * **
365330 TC-CTTATTAATTTTTGAAATAGTAATAAATTGGTATTATTTTATTCTAAATAATTTTGTATGAA
192 TCTCTTATTAATTTTTGAAATAGTAATAAATTAGTATTATTTTATTCCAAATAAGCTTGTATG-A
* * * **
365394 T-AGAAACAATTATTTTATAATAAAAC-AAATTTCATAATGATTTGAAATAAATAA-CAGTTCAA
256 TGAAAAACAATTATTTTATAACAAAACAAAAGTTCATAACAATTTGAAATAAATAATCA-TTCAA
* * * * * *
365456 ATGGACATGACTATTTAAACTTATTTGGTAAACAAATTTATTTTTTAAATCTCTAACTTATTAAT
320 ATGGACATAACTATTTAAA-TAATTTGATAAACAAATTT-TTTTTAAAAACTCCAACTTATTAAT
** * *
365521 TTTT-AGAATAATAACAAATTAGTATTATTTTA-TTCCAAATAAAC-TT-GTGTGAATAGAAACA
383 TTTTGA-AATAATAACAAAGCAATATTATTTTATTTCCAAA-AAACTTTAATGT-AAT-GAAACA
* * * *
365582 ATTGTTTTATGACAAAACAAAAGATCATAA-AGATTTGAAATATATATTTGTTCAAAAAGTAATA
444 ATTGTTTTATGACAAAACAAAAGATCATAACA-ATTTGAAATAGATAATTATTCAAAAAGTAAGA
*
365646 ACTATTTGAACTTGCTCGGTTAACAAAT
508 ACTATTTGAACTTACTCGGTTAACAAAT
* * *
365674 TTATTATTTAAATATTTTATTTATTAATTTTAGAAATATTAATAAATTAATATTATTTTATTTCG
1 TTATTATTTAAATATTTTACTTATTAATTTTAGAAATATTAATAAATTAATATTACTATATTTCG
** * ** *** * *
365739 AATAAGCTTGTATGAATAGAAATAATTGGTTTATGACAAAACAAATTGTCATAATGATTTGAAAT
66 AATAAGCACGTATGAATAGAAACAATAAGTTTATGACAAAACAAAAAATCAGAATAATTTGAAAT
* *
365804 AGATAATTGTTCAAATAGTCATAACTATTGAATGTGTTCAAAATACATATTATTTTTTAAAT
131 AGATAATTGTTCAAATAGTCATAACTATTAAATGTGTTCAAAATACACATTATTTTTTAAAT
365866 TTTTATTTAT
Statistics
Matches: 574, Mismatches: 120, Indels: 55
0.77 0.16 0.07
Matches are distributed among these distances:
525 1 0.00
526 47 0.08
527 97 0.17
528 133 0.23
529 8 0.01
530 36 0.06
531 92 0.16
532 5 0.01
533 10 0.02
534 116 0.20
535 27 0.05
536 2 0.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (535 bp):
TTATTATTTAAATATTTTACTTATTAATTTTAGAAATATTAATAAATTAATATTACTATATTTCG
AATAAGCACGTATGAATAGAAACAATAAGTTTATGACAAAACAAAAAATCAGAATAATTTGAAAT
AGATAATTGTTCAAATAGTCATAACTATTAAATGTGTTCAAAATACACATTATTTTTTAAATCTC
TTATTAATTTTTGAAATAGTAATAAATTAGTATTATTTTATTCCAAATAAGCTTGTATGATGAAA
AACAATTATTTTATAACAAAACAAAAGTTCATAACAATTTGAAATAAATAATCATTCAAATGGAC
ATAACTATTTAAATAATTTGATAAACAAATTTTTTTTAAAAACTCCAACTTATTAATTTTTGAAA
TAATAACAAAGCAATATTATTTTATTTCCAAAAAACTTTAATGTAATGAAACAATTGTTTTATGA
CAAAACAAAAGATCATAACAATTTGAAATAGATAATTATTCAAAAAGTAAGAACTATTTGAACTT
ACTCGGTTAACAAAT
Found at i:365700 original size:181 final size:181
Alignment explanation
Indices: 364609--365832 Score: 702
Period size: 181 Copynumber: 6.9 Consensus size: 181
364599 TAATTATATG
* * * * * * * *
364609 TTATTTTTTAAATCTCTTAGTTATTAATTTTTAG-AATATTATTATATTAGTATTATTTTATTTC
1 TTATTATTTAAATATCTAACTTATTAATTTTTAGAAATAATAATAAATTAGTATTATTTTATTCC
* * * * * * * **
364673 GAATAAACTTGTGTGAATAGATATAATTGTTTTATGAGATAACAAAAGGTTATAACAATTTGAAA
66 AAATAAACTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAA-GTCATAATGATTTGAAA
* * * * * *** * * *
364738 TATATAATTGTTCAAATAGTCATAACTATTTGAAGTGGTTCAGTAAATAGAT
130 TAAATAATTGTTCAAAAAGTAATAACTATTTAAACTTACTCGGTAAACAAAT
* * * *
364790 TAACTT-TTT-AA-ATCT--TTTATTAATTTTT-GAAATATTAGTAAATTAGTATTATTTTATTC
1 TTA-TTATTTAAATATCTAACTTATTAATTTTTAGAAATAATAATAAATTAGTATTATTTTATTC
** * * **
364849 CAAATAGGCTTGTTTG-ATGAAAAACAATTGTTTTATGACAAAACAAAAGTTCATAACAATTTGA
65 CAAATAAACTTGTATGAAT-AGAAACAATTGTTTTATGACAAAACAAAAG-TCATAATGATTTGA
* * ** ** * * * * * * **
364913 AATAGATAATTATTCAAATGGCCATAATTATTTGAA-TAATTTGATAAACTTAT
128 AATAAATAATTGTTCAAAAAGTAATAACTATTTAAACTTACTCGGTAAACAAAT
* * * * ** *
364966 TT-TT-TTTAAAAACTCCAACTTCTTAATTTTT-GAAATATTAATAAAGCAATATTATTTTATTT
1 TTATTATTTAAATA-TCTAACTTATTAATTTTTAGAAATAATAATAAATTAGTATTATTTTA-TT
*** * * * * * * * **
365028 TGGAA-AAAGTT-TAATGTACT-GAAATAGTTGTTTTATGATAAAATAAAAGGTCGTAACAATTT
64 CCAAATAAACTTGT-ATG-AATAGAAACAATTGTTTTATGACAAAACAAAA-GTCATAATGATTT
* * * * * * * * * *
365090 TAAATAGATAATTATTCAAATAGTCAGAACTATTTGAACTTATTCGGTAAATATA-
126 GAAATAAATAATTGTTCAAAAAGTAATAACTATTTAAACTTACTCGGTAAACAAAT
* ** * * *
365145 TT-TT-TTTAAA-AT-T-TCTTATTAATTTTCT--AAATTTTAATAAATTAGTATTACTATATTT
1 TTATTATTTAAATATCTAACTTATTAATTTT-TAGAAATAATAATAAATTAGTATTATTTTATTC
** * ** * ** * * * * * *
365203 TGAATAAGCACGTATGAATTGAAACAATAATTTTTTGACTAAACAAAAAATCAGAATAATTTGGA
65 CAAATAAACTTGTATGAATAGAAACAATTGTTTTATGACAAAAC-AAAAGTCATAATGATTTGAA
* * * ** * ** *
365268 ATAGATAATTG-TCTAATAGTCTTAACTATTTAAACTGT-TTCGAAAAACACAT
129 ATAAATAATTGTTCAAAAAGTAATAACTATTTAAACT-TACTCGGTAAACAAAT
* * *
365320 TT-TT-TTT-AA-ATC---CTTATTAATTTTT-GAAATAGTAATAAATTGGTATTATTTTATTCT
1 TTATTATTTAAATATCTAACTTATTAATTTTTAGAAATAATAATAAATTAGTATTATTTTATTCC
** * * * **
365377 AAATAATTTTGTATGAATAGAAACAATTATTTTATAATAAAACAAATTTCATAATGATTTGAAAT
66 AAATAAACTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGTCATAATGATTTGAAAT
** * * * * *
365442 AAATAACAGTTC-AAATGGACATGACTATTTAAACTTATTTGGTAAACAAAT
131 AAATAATTGTTCAAAAAGTA-ATAACTATTTAAACTTACTCGGTAAACAAAT
* * *
365493 TTATTTTTTAAATCTCTAACTTATTAATTTTTAG-AATAATAACAAATTAGTATTATTTTATTCC
1 TTATTATTTAAATATCTAACTTATTAATTTTTAGAAATAATAATAAATTAGTATTATTTTATTCC
* *
365557 AAATAAACTTGTGTGAATAGAAACAATTGTTTTATGACAAAACAAAAGATCATAAAGATTTGAAA
66 AAATAAACTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAG-TCATAATGATTTGAAA
* * * * *
365622 TATATATTTGTTCAAAAAGTAATAACTATTTGAACTTGCTCGGTTAACAAAT
130 TAAATAATTGTTCAAAAAGTAATAACTATTTAAACTTACTCGGTAAACAAAT
* * * * * *
365674 TTATTATTTAAATATTTTATTTATTAA-TTTTAGAAATATTAATAAATTAATATTATTTTATTTC
1 TTATTATTTAAATATCTAACTTATTAATTTTTAGAAATAATAATAAATTAGTATTATTTTATTCC
* * * * *
365738 GAATAAGCTTGTATGAATAGAAATAATTGGTTTATGACAAAACAAATTGTCATAATGATTTGAAA
66 AAATAAACTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAA-AGTCATAATGATTTGAAA
* * *
365803 TAGATAATTGTTCAAATAGTCATAACTATT
130 TAAATAATTGTTCAAAAAGTAATAACTATT
365833 GAATGTGTTC
Statistics
Matches: 824, Mismatches: 180, Indels: 78
0.76 0.17 0.07
Matches are distributed among these distances:
172 28 0.03
173 96 0.12
174 49 0.06
175 86 0.10
176 23 0.03
177 123 0.15
178 2 0.00
179 120 0.15
180 103 0.12
181 186 0.23
182 8 0.01
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (181 bp):
TTATTATTTAAATATCTAACTTATTAATTTTTAGAAATAATAATAAATTAGTATTATTTTATTCC
AAATAAACTTGTATGAATAGAAACAATTGTTTTATGACAAAACAAAAGTCATAATGATTTGAAAT
AAATAATTGTTCAAAAAGTAATAACTATTTAAACTTACTCGGTAAACAAAT
Found at i:366223 original size:50 final size:54
Alignment explanation
Indices: 366132--366236 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 54
366122 AGATTAATCA
366132 ATTAATTAATATAACAATAAAATAATATAATATTAAATATTATAATAGTATTAATTT
1 ATTAATTAATATAACAATAAAATAATATAATATT--ATATTATAATAGT-TTAATTT
* *
366189 ATTATTTAA-ATAACAAT-AAATAAT-T-ATATT-TATTATATTAGTTTAATT
1 ATTAATTAATATAACAATAAAATAATATAATATTATATTATAATAGTTTAATT
366237 AATCAAATAG
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
49 6 0.13
50 11 0.24
53 5 0.11
54 1 0.02
55 7 0.15
56 8 0.17
57 8 0.17
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (54 bp):
ATTAATTAATATAACAATAAAATAATATAATATTATATTATAATAGTTTAATTT
Found at i:366897 original size:15 final size:16
Alignment explanation
Indices: 366877--366906 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
366867 TTATGATACT
366877 AATATAATT-TTTATA
1 AATATAATTATTTATA
366892 AATATAATTATTTAT
1 AATATAATTATTTAT
366907 CTTAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATATAATTATTTATA
Found at i:367137 original size:20 final size:19
Alignment explanation
Indices: 367112--367166 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 19
367102 ATAACATAAC
367112 AATAAATTATTTTATTATA
1 AATAAATTATTTTATTATA
367131 TAATAAATTTATTTGTATTATA
1 -AATAAA-TTATTT-TATTATA
*
367153 AAT-AATTAGTTTAT
1 AATAAATTATTTTAT
367167 CTTAGTATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.09
19 5 0.16
20 8 0.25
21 9 0.28
22 7 0.22
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
AATAAATTATTTTATTATA
Found at i:367166 original size:24 final size:21
Alignment explanation
Indices: 367112--367157 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
367102 ATAACATAAC
367112 AATAAA-TTATTTTATTATAT
1 AATAAATTTATTTTATTATAT
367132 AATAAATTTATTTGTATTATA-
1 AATAAATTTATTT-TATTATAT
367153 AATAA
1 AATAA
367158 TTAGTTTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 6 0.25
21 11 0.46
22 7 0.29
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
AATAAATTTATTTTATTATAT
Found at i:367270 original size:15 final size:16
Alignment explanation
Indices: 367241--367271 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
367231 AAATTTATAA
367241 TTAATTATAATATTAT
1 TTAATTATAATATTAT
367257 TTAATTAT-ATATTAT
1 TTAATTATAATATTAT
367272 AAATATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTAATTATAATATTAT
Found at i:367345 original size:23 final size:24
Alignment explanation
Indices: 367294--367345 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
367284 TAAATCAAAA
367294 TAATAATTATTCTAAATATTAAAT
1 TAATAATTATTCTAAATATTAAAT
*
367318 T-ATAATTATT-T-ATTATTATAAT
1 TAATAATTATTCTAAATATTA-AAT
367340 TAATAA
1 TAATAA
367346 AATAAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.24
22 5 0.20
23 13 0.52
24 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
TAATAATTATTCTAAATATTAAAT
Found at i:367399 original size:18 final size:17
Alignment explanation
Indices: 367346--367402 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
367336 TAATTAATAA
367346 AATAAATT-AT-TTTAT
1 AATAAATTAATATTTAT
*
367361 AATAAATTAATATTATTT
1 AATAAATTAATATT-TAT
367379 AATAAA-TAATAAATTTAT
1 AATAAATTAAT--ATTTAT
367397 AATAAA
1 AATAAA
367403 GATATATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
15 8 0.23
16 2 0.06
17 6 0.17
18 16 0.46
19 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATAAATTAATATTTAT
Found at i:367436 original size:15 final size:15
Alignment explanation
Indices: 367418--367507 Score: 60
Period size: 15 Copynumber: 5.9 Consensus size: 15
367408 ATATTAAATT
* *
367418 ATTATAATTATCTTA
1 ATTATAATAATATTA
367433 ATTATAATAATATTA
1 ATTATAATAATATTA
367448 ATTA-AATAA-ATTA
1 ATTATAATAATATTA
* *
367461 ATACTATATTAAT-TAA
1 AT--TATAATAATATTA
* *
367477 TATTATAAGATTATTA
1 -ATTATAATAATATTA
367493 ATTAATAACTAATAT
1 ATT-ATAA-TAATAT
367508 AGTTGTTTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
13 6 0.11
14 5 0.09
15 28 0.49
16 12 0.21
17 6 0.11
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (15 bp):
ATTATAATAATATTA
Found at i:367459 original size:24 final size:23
Alignment explanation
Indices: 367431--367497 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
367421 ATAATTATCT
367431 TAATTATAATAATATTAATTAAA
1 TAATTATAATAATATTAATTAAA
*
367454 TAAAT-TAATACTATATTAATT-AA
1 TAATTATAATA--ATATTAATTAAA
* *
367477 T-ATTATAAGATTATTAATTAA
1 TAATTATAATAATATTAATTAA
367498 TAACTAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
21 8 0.22
22 8 0.22
23 11 0.31
24 9 0.25
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (23 bp):
TAATTATAATAATATTAATTAAA
Found at i:367768 original size:18 final size:16
Alignment explanation
Indices: 367724--367796 Score: 60
Period size: 16 Copynumber: 4.4 Consensus size: 16
367714 ATATAAATAC
367724 TATTATAATTATTATA
1 TATTATAATTATTATA
*
367740 TATTAATTAATTATATCTA
1 TATT-A-TAATTAT-TATA
*
367759 TAATTATAATTATGAT-
1 T-ATTATAATTATTATA
*
367775 TATTTATAATTAGTA-A
1 TA-TTATAATTATTATA
367791 TATTAT
1 TATTAT
367797 TATAAAATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
15 5 0.11
16 17 0.37
17 2 0.04
18 14 0.30
19 5 0.11
20 3 0.07
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (16 bp):
TATTATAATTATTATA
Found at i:367770 original size:22 final size:22
Alignment explanation
Indices: 367725--367800 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
367715 TATAAATACT
* *
367725 ATTATAATTATTATATATTAATTA
1 ATTAT-ATTATAAT-TAGTAATTA
367749 ATTATATCTATAATTA-TAATTA
1 ATTATAT-TATAATTAGTAATTA
*
367771 TGATTAT-TTATAATTAGTAATATT
1 --ATTATATTATAATTAGTAAT-TA
367795 ATTATA
1 ATTATA
367801 AAATTAATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
22 19 0.43
23 9 0.20
24 16 0.36
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (22 bp):
ATTATATTATAATTAGTAATTA
Found at i:367781 original size:16 final size:16
Alignment explanation
Indices: 367726--367786 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 16
367716 ATAAATACTA
367726 TTATAATTATTATATAT
1 TTATAATTA-TATATAT
* *
367743 TAATTAATTATATCTATAA
1 TTA-TAATTATA--TATAT
367762 TTATAATTATGAT-TAT
1 TTATAATTAT-ATATAT
367778 TTATAATTA
1 TTATAATTA
367787 GTAATATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
16 11 0.31
17 5 0.14
18 13 0.36
19 7 0.19
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TTATAATTATATATAT
Found at i:367990 original size:13 final size:13
Alignment explanation
Indices: 367974--367998 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
367964 TATAAATAAT
367974 ATATATAATATAC
1 ATATATAATATAC
367987 ATATATAATATA
1 ATATATAATATA
367999 TATAGATGTA
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:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATATAATATAC
Found at i:369205 original size:15 final size:15
Alignment explanation
Indices: 369185--369241 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
369175 ATATTTTAAA
*
369185 ATATTAATCAATATT
1 ATATTAATAAATATT
*
369200 ATATTATTAAATATT
1 ATATTAATAAATATT
*
369215 AATATAATAATTAATATT
1 -ATAT--TAATAAATATT
369233 ATTATTAAT
1 A-TATTAAT
369242 TAGTAGTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
15 13 0.38
16 8 0.24
17 1 0.03
18 12 0.35
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATTAATAAATATT
Found at i:369211 original size:25 final size:27
Alignment explanation
Indices: 369174--369236 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 27
369164 TTATAATTAA
369174 TATATT-TTAAAATATTAAT-CAAT-AT
1 TATATTATT-AAATATTAATACAATAAT
*
369199 TATATTATTAAATATTAATATAATAAT
1 TATATTATTAAATATTAATACAATAAT
369226 TAATATTATTA
1 T-ATATTATTA
369237 TTAATTAGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
25 16 0.48
26 5 0.15
27 3 0.09
28 9 0.27
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
TATATTATTAAATATTAATACAATAAT
Found at i:369220 original size:18 final size:18
Alignment explanation
Indices: 369209--369259 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 18
369199 TATATTATTA
369209 AATATTAATATAATAATT
1 AATATTAATATAATAATT
*
369227 AATATT-AT-TATTAATT
1 AATATTAATATAATAATT
*
369243 AGTAGTTTAATATAATA
1 AATA--TTAATATAATA
369260 TAATAATGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
16 10 0.38
17 2 0.08
18 8 0.31
19 2 0.08
20 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (18 bp):
AATATTAATATAATAATT
Found at i:369321 original size:10 final size:10
Alignment explanation
Indices: 369290--369332 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
369280 TTAAATGATA
369290 ATAATTAAAT
1 ATAATTAAAT
*
369300 ATAGTT-AAT
1 ATAATTAAAT
369309 ATAA-TAAATT
1 ATAATTAAA-T
369319 ATAATTAAAT
1 ATAATTAAAT
369329 ATAA
1 ATAA
369333 AACTAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
8 1 0.04
9 8 0.29
10 15 0.54
11 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (10 bp):
ATAATTAAAT
Found at i:369321 original size:19 final size:20
Alignment explanation
Indices: 369290--369332 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
369280 TTAAATGATA
*
369290 ATAATTAAATATAGTT-AAT
1 ATAATTAAATATAATTAAAT
369309 ATAA-TAAATTATAATTAAAT
1 ATAATTAAA-TATAATTAAAT
369329 ATAA
1 ATAA
369333 AACTAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 4 0.19
19 10 0.48
20 7 0.33
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
ATAATTAAATATAATTAAAT
Found at i:369520 original size:26 final size:25
Alignment explanation
Indices: 369457--369524 Score: 63
Period size: 26 Copynumber: 2.8 Consensus size: 25
369447 AATTAAAAAT
*
369457 ATTATTAAT-TAT-TTAAATATTTTA
1 ATTA-TAATATATATTAAATATTATA
*
369481 ATAATAA-ATAATATTATAATATTATA
1 ATTATAATAT-ATATTA-AATATTATA
369507 ATTATAATATATA-TAAAT
1 ATTATAATATATATTAAAT
369525 TGAATAATAG
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
23 4 0.11
24 8 0.22
25 5 0.14
26 17 0.47
27 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTATAATATATATTAAATATTATA
Found at i:369632 original size:17 final size:19
Alignment explanation
Indices: 369602--369639 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
369592 ATTATAGTCA
*
369602 AATATAATATTATTAGTAT
1 AATATAATATTATTAATAT
369621 AATA-AATA-TATTAATAT
1 AATATAATATTATTAATAT
369638 AA
1 AA
369640 GTTATGACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
18 4 0.22
19 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
AATATAATATTATTAATAT
Found at i:370036 original size:180 final size:180
Alignment explanation
Indices: 369693--370679 Score: 800
Period size: 180 Copynumber: 5.5 Consensus size: 180
369683 CTTTATTTTG
* * * * * *
369693 TCATACAAGCTTATTCGGATTAAAATGATGCTAATTTAATAATATTTCAAAAA-T-TAA-TAAGA
1 TCATACAAGCTTATTTGGAATAAAATAATACTAATTTATTAATATTTGAAAAATTATAAGTAAGA
* * * * ** *
369755 GATTTAAAAAATAAATATG-TTAGCCGAACCAGTTCAAATAGTTAAGACTATCAAAATAATTATC
66 GATTTAAAAAATAAATCTGTTTA-CTGAACAAGTTCAAATAGTTATGACTATTTAAACAATTATC
* * * * * *
369819 TATTTTAAATCATTCT-ATCCTTTTGTTTAGTCATAAAACAATTATTTCAAT
130 TATTTAAAATCATTTTGA-CATTTTGTTTTGTCATAAAACAATTGTTTCAGT
* *
369870 TCATACAAGCTTATTTGGAATAAAATAATACTAATTTATTAACATTTGAAAAATTA-AAGCAAGA
1 TCATACAAGCTTATTTGGAATAAAATAATACTAATTTATTAATATTTGAAAAATTATAAGTAAGA
* * *
369934 GATTTAAAAAAATAAAATCTGTTTATTGAACAATTTCAAAT-GATATGACTATTTAAACAATTAT
66 GATTT-AAAAAAT-AAATCTGTTTACTGAACAAGTTCAAATAGTTATGACTATTTAAACAATTAT
* * * *
369998 CTGTTTAAAATTATTTTGACATTTTGTTTTGCCATAAAATAATTGTTTCAGT
129 CTATTTAAAATCATTTTGACATTTTGTTTTGTCATAAAACAATTGTTTCAGT
* * * * * * *
370050 TAATAAAAACTTATCTGAAATAAAATAATACTACTTTATTAATATTTCAAAAATTATTAAGTAAG
1 TCATACAAGCTTATTTGGAATAAAATAATACTAATTTATTAATATTTGAAAAATTA-TAAGTAAG
* * * * * ** * * * *
370115 AGATTTAAAAACTAAAGCTATATTTC-AAAGTAGTTCTAATTGTTATGACTATTTGAACAAATAT
65 AGATTTAAAAAATAAATCTGT-TTACTGAACAAGTTCAAATAGTTATGACTATTTAAACAATTAT
* * * * ***
370179 -TAATCTCAAATCGTTATG--ATCTTTGTTTTGTCATAAAACAATTGTTTTTTT
129 CT-ATTTAAAATCATTTTGACAT-TTTGTTTTGTCATAAAACAATTGTTTCAGT
* * *
370230 ATCATATAAGCTTATTTAG-ATAAAAATAATACTAATTTAATAATATTTTG-AAAATTAATAAGT
1 -TCATACAAGCTTATTTGGAAT-AAAATAATACTAATTTATTAATA-TTTGAAAAATT-ATAAGT
* * * * * *
370293 AAGAGATTTAAAAAATAAATGTGTTTGC-CAATC-AGTTCAAATAGTTAAGATTA-TTAGAATAA
62 AAGAGATTTAAAAAATAAATCTGTTTACTGAA-CAAGTTCAAATAGTTATGACTATTTA-AACAA
* * ** * *
370355 TTATCTATTTCAAATCATTTTGACCTTTTGTTTAATCATACAATAATTGTTTCAGT
125 TTATCTATTTAAAATCATTTTGACATTTTGTTTTGTCATAAAACAATTGTTTCAGT
* * * * * *
370411 TCATACAAGCTTATTCGAAAGAAAATAATACTAATTTATTAACT-TTTGAAAGATTAATAAGCAG
1 TCATACAAGCTTATTTGGAATAAAATAATACTAATTTATTAA-TATTTGAAAAATT-ATAAGTAA
* * * *
370475 GATATTTGAAAAACTAAATTTGTTTACTGAACAAGTTCAAATAGTTATGACTATTTCAACAATTA
64 GAGATTT-AAAAAATAAATCTGTTTACTGAACAAGTTCAAATAGTTATGACTATTTAAACAATTA
* * *
370540 TCTATTTAAAATCATTGTG-CATTTTTGTTTTTTCATAAAACAATTGTTTTAGT
128 TCTATTTAAAATCATTTTGACA-TTTTGTTTTGTCATAAAACAATTGTTTCAGT
* * * **** * *
370593 TCACAAAAGTTTATCCAAAATAAAATAATACTACTTTTCTTAATATTTTG--AAA--AT---TAA
1 TCATACAAGCTTATTTGGAATAAAATAATACTA-ATTTATTAATA-TTTGAAAAATTATAAGTAA
*
370651 GAGATTTAAAAAATAAATCAGTTTACTGA
64 GAGATTTAAAAAATAAATCTGTTTACTGA
370680 CTTAGTTTAT
Statistics
Matches: 641, Mismatches: 136, Indels: 68
0.76 0.16 0.08
Matches are distributed among these distances:
175 19 0.03
176 7 0.01
177 46 0.07
178 3 0.00
179 19 0.03
180 249 0.39
181 165 0.26
182 120 0.19
183 9 0.01
184 4 0.01
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (180 bp):
TCATACAAGCTTATTTGGAATAAAATAATACTAATTTATTAATATTTGAAAAATTATAAGTAAGA
GATTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAATAGTTATGACTATTTAAACAATTATCT
ATTTAAAATCATTTTGACATTTTGTTTTGTCATAAAACAATTGTTTCAGT
Found at i:370438 original size:361 final size:362
Alignment explanation
Indices: 369714--370625 Score: 821
Period size: 361 Copynumber: 2.5 Consensus size: 362
369704 TATTCGGATT
* * * *
369714 AAAATGATGCTAATTTAATAA-TATTTCAAAAATTAAT----AAGAGATTT-AAAAAATAAATAT
1 AAAATAATACTAATTTATTAACT-TTTCAAAAATTAATAAGCAAGAGATTTGAAAAACTAAATAT
* ** * * * * * *
369773 -GTTAGCCGAACCAGTTCAAATAGTTAAGACTA--TCAAAATAATTATCTATTTTAAATCATTCT
65 ATTTA-CTAAACAAGTTCAAATAGTTATGACTATTTCAACA-AA-TATCTATCTAAAATCATTAT
* * * *
369835 --ATCCTTTTGTTTAGTCATAAAACAATTATTTCAATTCATACAAGCTTATTTGGAATAAAATAA
127 GCAT-C-TTTGTTTTGTCATAAAACAATTGTTTTAATTCATACAAGCTTATTTAGAATAAAATAA
* ***
369898 TACTAATTTATTAACATTTGAAAAATTAAAGCAAGAGATTTAAAAAAATAAAATCTGTTTATTGA
190 TACTAATTTAATAACATTTGAAAAATTAAAGCAAGAGATTTAAAAAAATAAAATCTGTTTAGCCA
* * * * *
369963 ACAATTTCAAATGATATGACTATTTAAACAATTATCTGTTTAAAATTATTTTGACATTTTGTTTT
255 ACAAGTTCAAATGATAAGACTATTTAAACAATTATCTATTTAAAATCATTTTGACATTTTGTTTA
* *
370028 GCCATAAAATAATTGTTTCAGTTAATAAAAACTTATCTGAAAT
320 ACCATAAAATAATTGTTTCAGTTAATAAAAACTTATCTGAAAG
* * *
370071 AAAATAATACTACTTTATTAA-TATTTCAAAAATTATTAAGTAAGAGATTT-AAAAACTAAAGCT
1 AAAATAATACTAATTTATTAACT-TTTCAAAAATTAATAAGCAAGAGATTTGAAAAACTAAA--T
** * * * * *
370134 ATATTT-C-AAAGTAGTTCTAATTGTTATGACTATTTGAACAAATAT-TAATCTCAAATCGTTAT
63 ATATTTACTAAACAAGTTCAAATAGTTATGACTATTTCAACAAATATCT-ATCTAAAATCATTAT
** *
370196 G-ATCTTTGTTTTGTCATAAAACAATTGTTTTTTTATCATATAAGCTTATTTAG-ATAAAAATAA
127 GCATCTTTGTTTTGTCATAAAACAATTGTTTTAAT-TCATACAAGCTTATTTAGAAT-AAAATAA
* * *
370259 TACTAATTTAATAATATTTTG-AAAATTAATAAGTAAGAGATTT-AAAAAAT-AAATGTGTTT-G
190 TACTAATTTAATAACA-TTTGAAAAATT-A-AAGCAAGAGATTTAAAAAAATAAAATCTGTTTAG
* * * * *
370320 CCAATC-AGTTCAAATAGTTAAGATTA-TTAGAATAATTATCTATTTCAAATCATTTTGACCTTT
252 CCAA-CAAGTTCAAAT-GATAAGACTATTTA-AACAATTATCTATTTAAAATCATTTTGACATTT
* * * * *
370383 TGTTTAATCATACAATAATTGTTTCAGTTCATACAAGCTTAT-TCGAAAG
314 TGTTTAACCATAAAATAATTGTTTCAGTTAATAAAAACTTATCT-GAAAG
* * * * * *
370432 AAAATAATACTAATTTATTAACTTTTGAAAGATTAATAAGCAGGATATTTGAAAAACTAAATTTG
1 AAAATAATACTAATTTATTAACTTTTCAAAAATTAATAAGCAAGAGATTTGAAAAACTAAATATA
* * * *
370497 TTTACTGAACAAGTTCAAATAGTTATGACTATTTCAACAATTATCTATTTAAAATCATTGTGCAT
66 TTTACTAAACAAGTTCAAATAGTTATGACTATTTCAACAAATATCTATCTAAAATCATTATGCAT
* * * * * * ** *
370562 TTTTGTTTTTTCATAAAACAATTGTTTTAGTTCACAAAAGTTTATCCAAAATAAAATAATACTA
131 CTTTGTTTTGTCATAAAACAATTGTTTTAATTCATACAAGCTTATTTAGAATAAAATAATACTA
370626 CTTTTCTTAA
Statistics
Matches: 448, Mismatches: 80, Indels: 49
0.78 0.14 0.08
Matches are distributed among these distances:
357 32 0.07
360 47 0.10
361 221 0.49
362 95 0.21
363 51 0.11
364 2 0.00
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (362 bp):
AAAATAATACTAATTTATTAACTTTTCAAAAATTAATAAGCAAGAGATTTGAAAAACTAAATATA
TTTACTAAACAAGTTCAAATAGTTATGACTATTTCAACAAATATCTATCTAAAATCATTATGCAT
CTTTGTTTTGTCATAAAACAATTGTTTTAATTCATACAAGCTTATTTAGAATAAAATAATACTAA
TTTAATAACATTTGAAAAATTAAAGCAAGAGATTTAAAAAAATAAAATCTGTTTAGCCAACAAGT
TCAAATGATAAGACTATTTAAACAATTATCTATTTAAAATCATTTTGACATTTTGTTTAACCATA
AAATAATTGTTTCAGTTAATAAAAACTTATCTGAAAG
Found at i:370956 original size:21 final size:22
Alignment explanation
Indices: 370922--370968 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
370912 TATTTAATTT
370922 TATTATATATAATTCTTTAAAG
1 TATTATATATAATTCTTTAAAG
* *
370944 TATTA-ATTTAATTCTTTAAAT
1 TATTATATATAATTCTTTAAAG
370965 TATT
1 TATT
370969 TAAAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTATATATAATTCTTTAAAG
Found at i:370997 original size:18 final size:18
Alignment explanation
Indices: 370974--371008 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
370964 TTATTTAAAA
370974 ATAATTAAAATTATTTAT
1 ATAATTAAAATTATTTAT
370992 ATAATTAAAATTATTTA
1 ATAATTAAAATTATTTA
371009 AAATTAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATAATTAAAATTATTTAT
Found at i:371011 original size:10 final size:10
Alignment explanation
Indices: 370961--371014 Score: 58
Period size: 10 Copynumber: 5.6 Consensus size: 10
370951 TTAATTCTTT
370961 AAATTATTTA
1 AAATTATTTA
* *
370971 AAAATAATTA
1 AAATTATTTA
370981 AAATTATTT-
1 AAATTATTTA
* *
370990 ATA-TAATTA
1 AAATTATTTA
370999 AAATTATTTA
1 AAATTATTTA
371009 AAATTA
1 AAATTA
371015 ACTAAATTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
8 4 0.12
9 4 0.12
10 26 0.76
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
AAATTATTTA
Done.