Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 64 of 210
Found at i:22673247 original size:31 final size:32
Alignment explanation
Indices: 22673209--22673269 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
22673199 GCCCATTTTC
22673209 ATTTTAAAAAT-TTTAAAAAATTAAAAAAAGT
1 ATTTTAAAAATCTTTAAAAAATTAAAAAAAGT
* *
22673240 ATTTTAAAAATCTTTTAAAATTTAAAAAAA
1 ATTTTAAAAATCTTTAAAAAATTAAAAAAA
22673270 ATTAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 11 0.41
32 16 0.59
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (32 bp):
ATTTTAAAAATCTTTAAAAAATTAAAAAAAGT
Found at i:22673268 original size:41 final size:41
Alignment explanation
Indices: 22673209--22673343 Score: 218
Period size: 42 Copynumber: 3.2 Consensus size: 41
22673199 GCCCATTTTC
*
22673209 ATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAAT
1 ATTTT-AAAATTTAAAAAAATTAAAAAAAGTATTTTAAAAAT
*
22673251 CTTTTAAAATTTAAAAAAAATTAAAAAAAGTATTTTAAAAAT
1 ATTTTAAAATTT-AAAAAAATTAAAAAAAGTATTTTAAAAAT
22673293 ATTTTAAAA-TTAAAAAAATTAAAAAAAAGTATTTTAAAAAT
1 ATTTTAAAATTTAAAAAAATT-AAAAAAAGTATTTTAAAAAT
22673334 ATTTTAAAAT
1 ATTTTAAAAT
22673344 ATTTTTACCC
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
40 9 0.10
41 38 0.44
42 40 0.46
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (41 bp):
ATTTTAAAATTTAAAAAAATTAAAAAAAGTATTTTAAAAAT
Found at i:22673290 original size:12 final size:11
Alignment explanation
Indices: 22673209--22673348 Score: 70
Period size: 11 Copynumber: 13.5 Consensus size: 11
22673199 GCCCATTTTC
22673209 ATTTT-AAAA-
1 ATTTTAAAAAT
22673218 ATTTTAAAAA-
1 ATTTTAAAAAT
**
22673228 ATTAAAAAAAGT
1 ATTTTAAAAA-T
22673240 ATTTTAAAAAT
1 ATTTTAAAAAT
*
22673251 CTTTT--AAA-
1 ATTTTAAAAAT
* *
22673259 ATTTAAAAAAA
1 ATTTTAAAAAT
**
22673270 ATTAAAAAAAGT
1 ATTTTAAAAA-T
22673282 ATTTTAAAAAT
1 ATTTTAAAAAT
22673293 ATTTT--AAA-
1 ATTTTAAAAAT
*
22673301 A--TTAAAAAA
1 ATTTTAAAAAT
**
22673310 ATTAAAAAAAAGT
1 ATT-TTAAAAA-T
22673323 ATTTTAAAAAT
1 ATTTTAAAAAT
22673334 ATTTT-AAAAT
1 ATTTTAAAAAT
22673344 ATTTT
1 ATTTT
22673349 TACCCAAACC
Statistics
Matches: 101, Mismatches: 16, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
6 2 0.02
8 7 0.07
9 12 0.12
10 25 0.25
11 26 0.26
12 26 0.26
13 3 0.03
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.39
Consensus pattern (11 bp):
ATTTTAAAAAT
Found at i:22677165 original size:18 final size:18
Alignment explanation
Indices: 22677127--22677217 Score: 60
Period size: 18 Copynumber: 4.9 Consensus size: 18
22677117 TTGATTGGAA
**
22677127 AAAAAATATTAAAAACAAT
1 AAAAAAT-TTAAAAATTAT
22677146 AAAAAATTTAAAAATTAT
1 AAAAAATTTAAAAATTAT
* *
22677164 --AACATTGTAACAACTTATT
1 AAAAAATT-TAA-AAATTA-T
**
22677183 AAAAAATGCAAAAATTAT
1 AAAAAATTTAAAAATTAT
* *
22677201 AAAAAATGTAAATATTA
1 AAAAAATTTAAAAATTA
22677218 ACAAATTATT
Statistics
Matches: 57, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
16 5 0.09
17 3 0.05
18 30 0.53
19 13 0.23
20 2 0.04
21 4 0.07
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAAAATTTAAAAATTAT
Found at i:22677805 original size:31 final size:31
Alignment explanation
Indices: 22677744--22677811 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
22677734 TGTTAATCTA
* * *
22677744 TGAACTTGGCAATTGTTCCTCTATTGGGGCT
1 TGAACTTGACAATTGTTCCTCCATTAGGGCT
*
22677775 TGAATTTGACAATTGTT-CTCACATTAGGGCT
1 TGAACTTGACAATTGTTCCTC-CATTAGGGCT
*
22677806 TCAACT
1 TGAACT
22677812 CTAGGGCTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (31 bp):
TGAACTTGACAATTGTTCCTCCATTAGGGCT
Found at i:22680772 original size:21 final size:21
Alignment explanation
Indices: 22680746--22680824 Score: 126
Period size: 21 Copynumber: 3.9 Consensus size: 21
22680736 GGTGGATTAA
* *
22680746 CTCTTACGAGCTTCTATTCAG
1 CTCTTATGAGCTTCTGTTCAG
22680767 CTCTTATGAGCTTCTGTTCAG
1 CTCTTATGAGCTTCTGTTCAG
22680788 CTCTTATGAGCTTCTGTTCAG
1 CTCTTATGAGCTTCTGTTCAG
22680809 CT-TT-TGAGCTTCTGTT
1 CTCTTATGAGCTTCTGTT
22680825 GGTGTATTCG
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
19 12 0.21
20 2 0.04
21 42 0.75
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (21 bp):
CTCTTATGAGCTTCTGTTCAG
Found at i:22683256 original size:29 final size:29
Alignment explanation
Indices: 22683216--22683277 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
22683206 ATTTAGTCCC
* *
22683216 TTTTGTTTTTTA-TTTCGATTTCGCCCCCT
1 TTTTGGTTTTTACTTT-GATTTAGCCCCCT
*
22683245 TTTTGGTTTTTACTTTGATTTAGTCCCCT
1 TTTTGGTTTTTACTTTGATTTAGCCCCCT
22683274 TTTT
1 TTTT
22683278 AGTATTTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 26 0.90
30 3 0.10
ACGTcount: A:0.08, C:0.19, G:0.11, T:0.61
Consensus pattern (29 bp):
TTTTGGTTTTTACTTTGATTTAGCCCCCT
Found at i:22683376 original size:3 final size:3
Alignment explanation
Indices: 22683299--22683364 Score: 91
Period size: 3 Copynumber: 22.3 Consensus size: 3
22683289 TATTTTCTTC
* *
22683299 ATT ATT -TT AAT A-T ATT ATC ATTT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
22683343 ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT A
22683365 ACGTTATTAT
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
2 4 0.07
3 51 0.89
4 2 0.04
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:22683384 original size:18 final size:18
Alignment explanation
Indices: 22683350--22683384 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22683340 ATTATTATTA
* *
22683350 TTATTATTATTATTAACG
1 TTATTATTACTAATAACG
22683368 TTATTATTACTAATAAC
1 TTATTATTACTAATAAC
22683385 TATTATTCAT
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:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (18 bp):
TTATTATTACTAATAACG
Found at i:22694010 original size:21 final size:21
Alignment explanation
Indices: 22693969--22694011 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
22693959 CTACAAATGG
22693969 AAAACTGAACTATATCAATGTA
1 AAAACTGAACTATAT-AATGTA
*
22693991 AAAACTAGTACTATAT-ATGTA
1 AAAACT-GAACTATATAATGTA
22694012 GGAGTGGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 6 0.32
23 8 0.42
ACGTcount: A:0.49, C:0.12, G:0.09, T:0.30
Consensus pattern (21 bp):
AAAACTGAACTATATAATGTA
Found at i:22694606 original size:21 final size:21
Alignment explanation
Indices: 22694580--22694632 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
22694570 AGTGGTGGTG
*
22694580 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
* *
22694601 GTGAGATTAGATACTGTATCG
1 GTGAGATTAGATACTGTAGCA
22694622 GTGAGATTAGA
1 GTGAGATTAGA
22694633 AACAATGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.32
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:22695151 original size:31 final size:30
Alignment explanation
Indices: 22695094--22695152 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
22695084 ATAAATTTCA
* *
22695094 AATTTATACACGAATTTTTATCCAATGTGC
1 AATTTATACACGAACTTTGATCCAATGTGC
* *
22695124 AATTTAATACATGAACTTTGATTCAATGT
1 AATTT-ATACACGAACTTTGATCCAATGT
22695153 AATTAAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 5 0.21
31 19 0.79
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.41
Consensus pattern (30 bp):
AATTTATACACGAACTTTGATCCAATGTGC
Found at i:22695235 original size:23 final size:22
Alignment explanation
Indices: 22695188--22695233 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
22695178 TAATGTATTT
* *
22695188 ATTTTTTTAAATATAGTTTTAA
1 ATTTTTTTAAATAAAATTTTAA
22695210 ATTTTTTTAAATTTAAAATTTTAA
1 ATTTTTTTAAA--TAAAATTTTAA
22695234 TTAATTACTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 11 0.55
24 9 0.45
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTTTTTTAAATAAAATTTTAA
Found at i:22700104 original size:18 final size:20
Alignment explanation
Indices: 22700066--22700105 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
22700056 TACAACACGA
22700066 TTCAATTTCATATCGAATAT
1 TTCAATTTCATATCGAATAT
*
22700086 TTCAATTTTAT-TC-AATAT
1 TTCAATTTCATATCGAATAT
22700104 TT
1 TT
22700106 TCCTAAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 2 0.11
20 10 0.53
ACGTcount: A:0.33, C:0.12, G:0.03, T:0.53
Consensus pattern (20 bp):
TTCAATTTCATATCGAATAT
Found at i:22712656 original size:1 final size:1
Alignment explanation
Indices: 22712650--22712677 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
22712640 CTTTTACATT
22712650 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
22712678 CACCACCACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:22713953 original size:20 final size:20
Alignment explanation
Indices: 22713930--22713972 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
22713920 ATTTCTCTTC
*
22713930 TTTCCTTTC-CTCTCGTCTCT
1 TTTCCTCTCTCTCTC-TCTCT
22713950 TTT-CTCTCTCTCTCTCTCT
1 TTTCCTCTCTCTCTCTCTCT
22713969 TTTC
1 TTTC
22713973 TTCCTCCCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.00, C:0.40, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTCCTCTCTCTCTCTCTCT
Found at i:22719707 original size:225 final size:226
Alignment explanation
Indices: 22719305--22719755 Score: 895
Period size: 225 Copynumber: 2.0 Consensus size: 226
22719295 CACTCCACTT
22719305 ATATTTATTATTAAATAAATTTTAAAAAATAATATAAAATATTTTCTAATAATTTTTTTTACCCA
1 ATATTTATTATTAAATAAATTTTAAAAAATAATATAAAATATTTTCTAATAATTTTTTTTACCCA
22719370 TATCGTGTGACAAAATCTAATTATATTAAAAAGCTTTATTGATGATTTTGCCATCAACTATACCA
66 TATCGTGTGACAAAATCTAATTATATTAAAAAGCTTTATTGATGATTTTGCCATCAACTATACCA
22719435 CTTTTCCATTTTAATACTTAAAACATTTTTCGGCCGATATTTAAGGTTTAATTTCGTCCACCAGT
131 CTTTTCCATTTTAATACTTAAAACATTTTTCGGCCGATATTTAAGGTTTAATTTCGTCCACCAGT
22719500 TTAGCCCTCTAAAATTAGTGGTATTAAAAAA
196 TTAGCCCTCTAAAATTAGTGGTATTAAAAAA
22719531 ATATTTATTA-TAAATAAATTTTAAAAAATAATATAAAATATTTTCTAATAATTTTTTTTACCCA
1 ATATTTATTATTAAATAAATTTTAAAAAATAATATAAAATATTTTCTAATAATTTTTTTTACCCA
22719595 TATCGTGTGACAAAATCTAATTATATTAAAAAGCTTTATTGATGATTTTGCCATCAACTATACCA
66 TATCGTGTGACAAAATCTAATTATATTAAAAAGCTTTATTGATGATTTTGCCATCAACTATACCA
22719660 CTTTTCCATTTTAATACTTAAAACATTTTTCGGCCGATATTTAAGGTTTAATTTCGTCCACCAGT
131 CTTTTCCATTTTAATACTTAAAACATTTTTCGGCCGATATTTAAGGTTTAATTTCGTCCACCAGT
22719725 TTAGCCCTCTAAAATTAGTGGTATTAAAAAA
196 TTAGCCCTCTAAAATTAGTGGTATTAAAAAA
22719756 CTAAATGTGT
Statistics
Matches: 225, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
225 215 0.96
226 10 0.04
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (226 bp):
ATATTTATTATTAAATAAATTTTAAAAAATAATATAAAATATTTTCTAATAATTTTTTTTACCCA
TATCGTGTGACAAAATCTAATTATATTAAAAAGCTTTATTGATGATTTTGCCATCAACTATACCA
CTTTTCCATTTTAATACTTAAAACATTTTTCGGCCGATATTTAAGGTTTAATTTCGTCCACCAGT
TTAGCCCTCTAAAATTAGTGGTATTAAAAAA
Found at i:22721400 original size:772 final size:772
Alignment explanation
Indices: 22720259--22721776 Score: 3036
Period size: 772 Copynumber: 2.0 Consensus size: 772
22720249 ATTAATAAAA
22720259 AAACGTTTTTTTACAAAAATAAATTTACTTTTTATATATGTATTTTATTTTTCAAATATTTGTTT
1 AAACGTTTTTTTACAAAAATAAATTTACTTTTTATATATGTATTTTATTTTTCAAATATTTGTTT
22720324 CATTAATTTAAAATTTATAAGCAAATTTATTATTTTTTGATATTTTATAAATTAAATTATTATTA
66 CATTAATTTAAAATTTATAAGCAAATTTATTATTTTTTGATATTTTATAAATTAAATTATTATTA
22720389 ACGATTGAAATAAAATATTTGAAAGAAGGTTTTTTTTATTAAATTTTATTTTTAAATCTTCAAAA
131 ACGATTGAAATAAAATATTTGAAAGAAGGTTTTTTTTATTAAATTTTATTTTTAAATCTTCAAAA
22720454 TTAATATTGAATGATATAATTTAATTAAAAAAATGAAAATTAGTGGAAAAAATTAATAAAATTTA
196 TTAATATTGAATGATATAATTTAATTAAAAAAATGAAAATTAGTGGAAAAAATTAATAAAATTTA
22720519 AAGTTTAATGATAAAATTCATTAGCATAAAAATTGATTTTCAAATTTACTCACACTTGAAAAAAG
261 AAGTTTAATGATAAAATTCATTAGCATAAAAATTGATTTTCAAATTTACTCACACTTGAAAAAAG
22720584 CAACCGCAAATATCAATAAAAATAAAATATAATAGCGAATTTTAACATTTATCTATTATATGATG
326 CAACCGCAAATATCAATAAAAATAAAATATAATAGCGAATTTTAACATTTATCTATTATATGATG
22720649 GTGAATTTACACTTTTAACCCTTTTAAAAAACAATATTTGGAATTTTTAAAATAATATGATAAAA
391 GTGAATTTACACTTTTAACCCTTTTAAAAAACAATATTTGGAATTTTTAAAATAATATGATAAAA
22720714 GAATTTGTTAAAAAAATTAACAGTATTTTAAAACATAATTATTGTACCGGTTGTTTTTAATTTTT
456 GAATTTGTTAAAAAAATTAACAGTATTTTAAAACATAATTATTGTACCGGTTGTTTTTAATTTTT
22720779 TACCAAACATAATTTTTAATATTTTTAGATAATTTGGTAAAAATAATAATTGTATTTTAATGATT
521 TACCAAACATAATTTTTAATATTTTTAGATAATTTGGTAAAAATAATAATTGTATTTTAATGATT
22720844 AAATAGTATGGTAATTTAAAATAGTTTTAGTAAAAAAACCATATATATTTAATATAATTACTCAT
586 AAATAGTATGGTAATTTAAAATAGTTTTAGTAAAAAAACCATATATATTTAATATAATTACTCAT
22720909 CATCAATTTGAATTTATCTTAAATAAGTTATTGAAATTAATAAATTTTACATATAGTATTGATTA
651 CATCAATTTGAATTTATCTTAAATAAGTTATTGAAATTAATAAATTTTACATATAGTATTGATTA
22720974 ATAAATAGAAAGTCTTTTATTAACATTATCAACATTATATAATATTTAATTTTATAT
716 ATAAATAGAAAGTCTTTTATTAACATTATCAACATTATATAATATTTAATTTTATAT
22721031 AAACGTTTTTTTACAAAAATAAATTTACTTTTTATATATGTATTTTATTTTTCAAATATTTGTTT
1 AAACGTTTTTTTACAAAAATAAATTTACTTTTTATATATGTATTTTATTTTTCAAATATTTGTTT
22721096 CATTAATTTAAAATTTATAAGCAAATTTATTATTTTTTGATATTTTATAAATTAAATTATTATTA
66 CATTAATTTAAAATTTATAAGCAAATTTATTATTTTTTGATATTTTATAAATTAAATTATTATTA
22721161 ACGATTGAAATAAAATATTTGAAAGAAGGTTTTTTTTATTAAATTTTATTTTTAAATCTTCAAAA
131 ACGATTGAAATAAAATATTTGAAAGAAGGTTTTTTTTATTAAATTTTATTTTTAAATCTTCAAAA
22721226 TTAATATTGAATGATATAATTTAATTAAAAAAATGAAAATTAGTGGAAAAAATTAATAAAATTTA
196 TTAATATTGAATGATATAATTTAATTAAAAAAATGAAAATTAGTGGAAAAAATTAATAAAATTTA
22721291 AAGTTTAATGATAAAATTCATTAGCATAAAAATTGATTTTCAAATTTACTCACACTTGAAAAAAG
261 AAGTTTAATGATAAAATTCATTAGCATAAAAATTGATTTTCAAATTTACTCACACTTGAAAAAAG
22721356 CAACCGCAAATATCAATAAAAATAAAATATAATAGCGAATTTTAACATTTATCTATTATATGATG
326 CAACCGCAAATATCAATAAAAATAAAATATAATAGCGAATTTTAACATTTATCTATTATATGATG
22721421 GTGAATTTACACTTTTAACCCTTTTAAAAAACAATATTTGGAATTTTTAAAATAATATGATAAAA
391 GTGAATTTACACTTTTAACCCTTTTAAAAAACAATATTTGGAATTTTTAAAATAATATGATAAAA
22721486 GAATTTGTTAAAAAAATTAACAGTATTTTAAAACATAATTATTGTACCGGTTGTTTTTAATTTTT
456 GAATTTGTTAAAAAAATTAACAGTATTTTAAAACATAATTATTGTACCGGTTGTTTTTAATTTTT
22721551 TACCAAACATAATTTTTAATATTTTTAGATAATTTGGTAAAAATAATAATTGTATTTTAATGATT
521 TACCAAACATAATTTTTAATATTTTTAGATAATTTGGTAAAAATAATAATTGTATTTTAATGATT
22721616 AAATAGTATGGTAATTTAAAATAGTTTTAGTAAAAAAACCATATATATTTAATATAATTACTCAT
586 AAATAGTATGGTAATTTAAAATAGTTTTAGTAAAAAAACCATATATATTTAATATAATTACTCAT
22721681 CATCAATTTGAATTTATCTTAAATAAGTTATTGAAATTAATAAATTTTACATATAGTATTGATTA
651 CATCAATTTGAATTTATCTTAAATAAGTTATTGAAATTAATAAATTTTACATATAGTATTGATTA
22721746 ATAAATAGAAAGTCTTTTATTAACATTATCA
716 ATAAATAGAAAGTCTTTTATTAACATTATCA
22721777 NNNNNNNNNN
Statistics
Matches: 746, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
772 746 1.00
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.43
Consensus pattern (772 bp):
AAACGTTTTTTTACAAAAATAAATTTACTTTTTATATATGTATTTTATTTTTCAAATATTTGTTT
CATTAATTTAAAATTTATAAGCAAATTTATTATTTTTTGATATTTTATAAATTAAATTATTATTA
ACGATTGAAATAAAATATTTGAAAGAAGGTTTTTTTTATTAAATTTTATTTTTAAATCTTCAAAA
TTAATATTGAATGATATAATTTAATTAAAAAAATGAAAATTAGTGGAAAAAATTAATAAAATTTA
AAGTTTAATGATAAAATTCATTAGCATAAAAATTGATTTTCAAATTTACTCACACTTGAAAAAAG
CAACCGCAAATATCAATAAAAATAAAATATAATAGCGAATTTTAACATTTATCTATTATATGATG
GTGAATTTACACTTTTAACCCTTTTAAAAAACAATATTTGGAATTTTTAAAATAATATGATAAAA
GAATTTGTTAAAAAAATTAACAGTATTTTAAAACATAATTATTGTACCGGTTGTTTTTAATTTTT
TACCAAACATAATTTTTAATATTTTTAGATAATTTGGTAAAAATAATAATTGTATTTTAATGATT
AAATAGTATGGTAATTTAAAATAGTTTTAGTAAAAAAACCATATATATTTAATATAATTACTCAT
CATCAATTTGAATTTATCTTAAATAAGTTATTGAAATTAATAAATTTTACATATAGTATTGATTA
ATAAATAGAAAGTCTTTTATTAACATTATCAACATTATATAATATTTAATTTTATAT
Found at i:22723456 original size:30 final size:31
Alignment explanation
Indices: 22723415--22723474 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
22723405 TTGGTAGTAT
*
22723415 ATTTTTTAAAATGT-T-TAATTAATTTTTAG
1 ATTTTTTAAAATATATATAATTAATTTTTAG
*
22723444 ATTTTTCTAAAATATATATTATTAATTTTTA
1 ATTTTT-TAAAATATATATAATTAATTTTTA
22723475 AAATGTTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 6 0.23
30 7 0.27
31 1 0.04
32 12 0.46
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (31 bp):
ATTTTTTAAAATATATATAATTAATTTTTAG
Found at i:22727004 original size:26 final size:25
Alignment explanation
Indices: 22726961--22727033 Score: 94
Period size: 25 Copynumber: 2.9 Consensus size: 25
22726951 TTTTTCACCC
22726961 CAATTTTACCCTGGTAAAATTTTGA
1 CAATTTTACCCTGGTAAAATTTTGA
*
22726986 CAATTTTACTCCTGGTAAAA-ATTGA
1 CAATTTTAC-CCTGGTAAAATTTTGA
* *
22727011 CGATTTTAGCCCTGATAAAATTT
1 CAATTTTA-CCCTGGTAAAATTT
22727034 CGAAAAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 29 0.71
26 12 0.29
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.38
Consensus pattern (25 bp):
CAATTTTACCCTGGTAAAATTTTGA
Found at i:22762642 original size:20 final size:20
Alignment explanation
Indices: 22762619--22762658 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
22762609 AAAATCACAA
22762619 ATGCTGAATTAAAAACAAGT
1 ATGCTGAATTAAAAACAAGT
22762639 ATGCTGAATTAAAAACAAGT
1 ATGCTGAATTAAAAACAAGT
22762659 GCATAAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (20 bp):
ATGCTGAATTAAAAACAAGT
Found at i:22771471 original size:23 final size:21
Alignment explanation
Indices: 22771429--22771471 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22771419 AATAGAGAAA
*
22771429 ACGAAATTTCTGGTATATGTT
1 ACGAAATTTCTGGTAGATGTT
22771450 ACGAAATTTCATTGGTAGATGT
1 ACGAAATTTC--TGGTAGATGT
22771472 CTCATTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
23 9 0.47
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (21 bp):
ACGAAATTTCTGGTAGATGTT
Found at i:22775341 original size:20 final size:20
Alignment explanation
Indices: 22775316--22775355 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
22775306 GATTTTGTTG
22775316 TTGTTTGAA-TCGATTCAAAA
1 TTGTTT-AACTCGATTCAAAA
*
22775336 TTGTTTAACTCGATTTAAAA
1 TTGTTTAACTCGATTCAAAA
22775356 CCCAACAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (20 bp):
TTGTTTAACTCGATTCAAAA
Found at i:22786664 original size:41 final size:39
Alignment explanation
Indices: 22786539--22786671 Score: 121
Period size: 40 Copynumber: 3.4 Consensus size: 39
22786529 CTAGTTTGGT
* * *
22786539 ACCCAGTACCTCATTGGA-TAATTCGAAGTAATAAGTTGAC
1 ACCCAGTGCCTCA-TCGATTAATCCGAAGTAATAA-TTGAC
* * * *
22786579 ACCTAGTGTCTCATCGGTTAAACCGAAGT-A-AATT-AGC
1 ACCCAGTGCCTCATCGATTAATCCGAAGTAATAATTGA-C
22786616 ACCCAGTGCCTCATCGAATTAATCCGAAGTAATAGATTGAC
1 ACCCAGTGCCTCATCG-ATTAATCCGAAGTAATA-ATTGAC
*
22786657 ACCCAGTGTCTCATC
1 ACCCAGTGCCTCATC
22786672 AACTCGAAGT
Statistics
Matches: 74, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
36 1 0.01
37 17 0.23
38 13 0.18
39 4 0.05
40 20 0.27
41 18 0.24
42 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (39 bp):
ACCCAGTGCCTCATCGATTAATCCGAAGTAATAATTGAC
Found at i:22787648 original size:50 final size:51
Alignment explanation
Indices: 22787573--22787698 Score: 191
Period size: 50 Copynumber: 2.5 Consensus size: 51
22787563 CTTACGTATG
* *
22787573 ATCACTTATCACTTGTCCCTGATCAAATAAGTGTAGCT-AAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAAATAAGTGTAGCTGAAGCTACCACTT
* * *
22787623 ATCACTTGCCACTAGTCACTGATCAAATAAGTGTAGCTGAAGCTACTACTT
1 ATCACTTGTCACTTGTCACTGATCAAATAAGTGTAGCTGAAGCTACCACTT
*
22787674 ATCACTTGTCACTTGCCACTGATCA
1 ATCACTTGTCACTTGTCACTGATCA
22787699 GAAGTACTCA
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 34 0.51
51 33 0.49
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.31
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAAATAAGTGTAGCTGAAGCTACCACTT
Found at i:22787694 original size:51 final size:50
Alignment explanation
Indices: 22787573--22787698 Score: 182
Period size: 51 Copynumber: 2.5 Consensus size: 50
22787563 CTTACGTATG
*
22787573 ATCACTTATCACTTGTCC-CTGATCAAATAAGTGTAGCTAAGCTACCACTT
1 ATCACTTGTCACTTG-CCACTGATCAAATAAGTGTAGCTAAGCTACCACTT
* * * *
22787623 ATCACTTGCCACTAGTCACTGATCAAATAAGTGTAGCTGAAGCTACTACTT
1 ATCACTTGTCACTTGCCACTGATCAAATAAGTGTAGCT-AAGCTACCACTT
22787674 ATCACTTGTCACTTGCCACTGATCA
1 ATCACTTGTCACTTGCCACTGATCA
22787699 GAAGTACTCA
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
49 1 0.02
50 32 0.48
51 33 0.50
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.31
Consensus pattern (50 bp):
ATCACTTGTCACTTGCCACTGATCAAATAAGTGTAGCTAAGCTACCACTT
Found at i:22790192 original size:7 final size:7
Alignment explanation
Indices: 22790180--22790245 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
22790170 ATTTACTTAT
22790180 TATAATA
1 TATAATA
22790187 TATAATA
1 TATAATA
22790194 TAATATATA
1 T-ATA-ATA
22790203 TACTTAATA
1 TA--TAATA
*
22790212 -ATTAAGA
1 TA-TAATA
22790219 TATAATA
1 TATAATA
22790226 TTATAATA
1 -TATAATA
22790234 TTATAATA
1 -TATAATA
22790242 TATA
1 TATA
22790246 TTTTAACTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
7 21 0.41
8 21 0.41
9 7 0.14
10 2 0.04
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (7 bp):
TATAATA
Found at i:22790207 original size:30 final size:31
Alignment explanation
Indices: 22790167--22790245 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 31
22790157 TTTTATTTAT
*
22790167 TATATTTACTTATTATAATATATA-ATATAA
1 TATATATACTTATTATAATATATAGATATAA
22790197 TATATATACTTA--ATAAT-TA-AGATATAA
1 TATATATACTTATTATAATATATAGATATAA
*
22790224 TAT-TATA-ATATTATAATATATA
1 TATATATACTTATTATAATATATA
22790246 TTTTAACTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
25 2 0.05
26 5 0.12
27 16 0.38
28 7 0.17
29 1 0.02
30 11 0.26
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (31 bp):
TATATATACTTATTATAATATATAGATATAA
Found at i:22790232 original size:8 final size:8
Alignment explanation
Indices: 22790177--22790242 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
22790167 TATATTTACT
22790177 TATTATAA
1 TATTATAA
22790185 TA-TATAA
1 TATTATAA
*
22790192 TATAAT-A
1 TATTATAA
22790199 TATATACTTAA
1 TAT-TA--TAA
*
22790210 TAAT-TAA
1 TATTATAA
*
22790217 GA-TATAA
1 TATTATAA
22790224 TATTATAA
1 TATTATAA
22790232 TATTATAA
1 TATTATAA
22790240 TAT
1 TAT
22790243 ATATTTTAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
6 1 0.02
7 19 0.41
8 21 0.46
10 2 0.04
11 3 0.07
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (8 bp):
TATTATAA
Found at i:22790331 original size:29 final size:31
Alignment explanation
Indices: 22790265--22790325 Score: 95
Period size: 33 Copynumber: 1.9 Consensus size: 31
22790255 TAAATTTTAT
22790265 AAATATCTATCTTATGCCACCTCATTTAGTTAC
1 AAATATCTATCTTATGCCACCTCATTTA--TAC
*
22790298 AAATATCTATCTTATGCCGCCTCATTTA
1 AAATATCTATCTTATGCCACCTCATTTA
22790326 AGAATAATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (31 bp):
AAATATCTATCTTATGCCACCTCATTTATAC
Found at i:22802723 original size:8 final size:8
Alignment explanation
Indices: 22802712--22802742 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
22802702 AATTATTCAA
22802712 TTTTTTAT
1 TTTTTTAT
22802720 TTTTTTAT
1 TTTTTTAT
22802728 TTTTTTAT
1 TTTTTTAT
22802736 TTTTTTA
1 TTTTTTA
22802743 AAATTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTAT
Found at i:22802837 original size:44 final size:45
Alignment explanation
Indices: 22802786--22802874 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
22802776 ATTGTAATAC
* *
22802786 ATTTTAAATAAATTG-TTTTTTTATTTCTATTTTGAAAATTACGT
1 ATTTTAAATAAACTGTTTTTTTTATTTCTATTTTGAAAAATACGT
22802830 ATTTTAAATAAACTGTTTTTTTTATTTCTATTTTGAAAAATACGT
1 ATTTTAAATAAACTGTTTTTTTTATTTCTATTTTGAAAAATACGT
22802875 GCTTTCACTA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
44 14 0.33
45 28 0.67
ACGTcount: A:0.33, C:0.06, G:0.07, T:0.55
Consensus pattern (45 bp):
ATTTTAAATAAACTGTTTTTTTTATTTCTATTTTGAAAAATACGT
Found at i:22808715 original size:30 final size:29
Alignment explanation
Indices: 22808658--22808715 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
22808648 TGATTTGAAT
*
22808658 TTTTTAAAAATATTATATAATTTTCATAA
1 TTTTTAAAAATATTATATAATTCTCATAA
*
22808687 TTTTTAATAATGATTATAT-ATTACTCATA
1 TTTTTAAAAAT-ATTATATAATT-CTCATA
22808716 TGAAATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (29 bp):
TTTTTAAAAATATTATATAATTCTCATAA
Found at i:22808945 original size:36 final size:35
Alignment explanation
Indices: 22808898--22808969 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 35
22808888 CATCTCCGGA
22808898 GCTTGGCAAATAAGGAAAGTGATCTTTTGAAGATAT
1 GCTTGGCAAATAAGGAAAGTGATCTTTTG-AGATAT
* *
22808934 GCTTGGCAAATATGGAAGGTGATCTTTTGAGATAT
1 GCTTGGCAAATAAGGAAAGTGATCTTTTGAGATAT
22808969 G
1 G
22808970 TGATCCTAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 7 0.21
36 27 0.79
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (35 bp):
GCTTGGCAAATAAGGAAAGTGATCTTTTGAGATAT
Found at i:22813564 original size:35 final size:35
Alignment explanation
Indices: 22813505--22813574 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
22813495 ATCTCTGGAA
22813505 CTTGGCAAATAAGGAAAGTGATCTTTTGAAGATATG
1 CTTGGCAAATAAGGAAAGTGATCTTTTG-AGATATG
**
22813541 CTTGGCAAATGTGG-AAGTGATCTTTTGAGATATG
1 CTTGGCAAATAAGGAAAGTGATCTTTTGAGATATG
22813575 TGATCCTAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 7 0.22
35 13 0.41
36 12 0.38
ACGTcount: A:0.31, C:0.09, G:0.27, T:0.33
Consensus pattern (35 bp):
CTTGGCAAATAAGGAAAGTGATCTTTTGAGATATG
Found at i:22813943 original size:48 final size:48
Alignment explanation
Indices: 22813872--22813966 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
22813862 TAAGGGAATT
**
22813872 CTGTTGAATCCTTTATTGTTGCAAGTTAAGCTGACTTAGGCGTTTTTA
1 CTGTTGAATCCTTTATTACTGCAAGTTAAGCTGACTTAGGCGTTTTTA
*
22813920 CTGTTGAATCCTTTATTACTGCAAGTTAGGCTGACTTAGGCGTTTTT
1 CTGTTGAATCCTTTATTACTGCAAGTTAAGCTGACTTAGGCGTTTTT
22813967 GAGCAAAGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (48 bp):
CTGTTGAATCCTTTATTACTGCAAGTTAAGCTGACTTAGGCGTTTTTA
Found at i:22815478 original size:413 final size:414
Alignment explanation
Indices: 22814700--22815527 Score: 1649
Period size: 413 Copynumber: 2.0 Consensus size: 414
22814690 ATTACGAAAA
22814700 ATAAAACATACGAGGAATCCCCTCTACAATTAATAATAAAACTATTTTATCTTTATTAAAAATAC
1 ATAAAACATACGAGGAATCCCCTCTACAATTAATAATAAAACTATTTTATCTTTATTAAAAATAC
22814765 TGGTATAGAACAATAAGATTTTATAAAGTAAAATAGGTTATCAATTCTAAGGAAGTTTGATCAAA
66 TGGTATAGAACAATAAGATTTTATAAAGTAAAATAGGTTATCAATTCTAAGGAAGTTTGATCAAA
22814830 TGACATGTTTTCAGCTCACACTTGTATGTTGTATCCTGGATTTAAAGGGTTTAAGTTTACGCAAT
131 TGACATGTTTTCAGCTCACACTTGTATGTTGTATCCTGGATTTAAAGGGTTTAAGTTTACGCAAT
22814895 TCGCCCACCAGCCAACCCATATCCTGGACGGAGCTTCCCTCCTTGCTCACCGCTTCCAATGCTTT
196 TCGCCCACCAGCCAACCCATATCCTGGACGGAGCTTCCCTCCTTGCTCACCGCTTCCAATGCTTT
22814960 TTCCTTCAATTCTTTAGCCTTATCCTTCAACCCACCCACCTCGCTCATTGACTCACCAATCACAC
261 TTCCTTCAATTCTTTAGCCTTATCCTTCAACCCACCCACCTCGCTCATTGACTCACCAATCACAC
22815025 GGCTCAACTCACCCGCCTCAGGAACCGACCCAGCACCCTCACACACCCTCACTCCCACCCCCATA
326 GGCTCAACTCACCCGCCTCAGGAACCGACCCAGCACCCTCACACACCCTCACTCCCACCCCCATA
22815090 TCCTCCACCAGCAGCCTCGCATTC
391 TCCTCCACCAGCAGCCTCGCATTC
22815114 ATAAAACATA-GAGGAATCCCCTCTACAATTAATAATAAAACTATTTTATCTTTATTAAAAATAC
1 ATAAAACATACGAGGAATCCCCTCTACAATTAATAATAAAACTATTTTATCTTTATTAAAAATAC
22815178 TGGTATAGAACAATAAGATTTTATAAAGTAAAATAGGTTATCAATTCTAAGGAAGTTTGATCAAA
66 TGGTATAGAACAATAAGATTTTATAAAGTAAAATAGGTTATCAATTCTAAGGAAGTTTGATCAAA
22815243 TGACATGTTTTCAGCTCACACTTGTATGTTGTATCCTGGATTTAAAGGGTTTAAGTTTACGCAAT
131 TGACATGTTTTCAGCTCACACTTGTATGTTGTATCCTGGATTTAAAGGGTTTAAGTTTACGCAAT
22815308 TCGCCCACCAGCCAACCCATATCCTGGACGGAGCTTCCCTCCTTGCTCACCGCTTCCAATGCTTT
196 TCGCCCACCAGCCAACCCATATCCTGGACGGAGCTTCCCTCCTTGCTCACCGCTTCCAATGCTTT
22815373 TTCCTTCAATTCTTTAGCCTTATCCTTCAACCCACCCACCTCGCTCATTGACTCACCAATCACAC
261 TTCCTTCAATTCTTTAGCCTTATCCTTCAACCCACCCACCTCGCTCATTGACTCACCAATCACAC
22815438 GGCTCAACTCACCCGCCTCAGGAACCGACCCAGCACCCTCACACACCCTCACTCCCACCCCCATA
326 GGCTCAACTCACCCGCCTCAGGAACCGACCCAGCACCCTCACACACCCTCACTCCCACCCCCATA
22815503 TCCTCCACCAGCAGCCTCGCATTC
391 TCCTCCACCAGCAGCCTCGCATTC
22815527 A
1 A
22815528 CAAATTGGTC
Statistics
Matches: 414, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
413 404 0.98
414 10 0.02
ACGTcount: A:0.29, C:0.31, G:0.12, T:0.28
Consensus pattern (414 bp):
ATAAAACATACGAGGAATCCCCTCTACAATTAATAATAAAACTATTTTATCTTTATTAAAAATAC
TGGTATAGAACAATAAGATTTTATAAAGTAAAATAGGTTATCAATTCTAAGGAAGTTTGATCAAA
TGACATGTTTTCAGCTCACACTTGTATGTTGTATCCTGGATTTAAAGGGTTTAAGTTTACGCAAT
TCGCCCACCAGCCAACCCATATCCTGGACGGAGCTTCCCTCCTTGCTCACCGCTTCCAATGCTTT
TTCCTTCAATTCTTTAGCCTTATCCTTCAACCCACCCACCTCGCTCATTGACTCACCAATCACAC
GGCTCAACTCACCCGCCTCAGGAACCGACCCAGCACCCTCACACACCCTCACTCCCACCCCCATA
TCCTCCACCAGCAGCCTCGCATTC
Found at i:22818304 original size:19 final size:19
Alignment explanation
Indices: 22818269--22818319 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
22818259 TATAATTAAT
*
22818269 ATAATTTA-TT-ATTTTTA
1 ATAATTTATTTAATATTTA
22818286 ATAATTTATTTAATATTTA
1 ATAATTTATTTAATATTTA
*
22818305 A-ATTTTATTTTAATA
1 ATAATTTA-TTTAATA
22818320 GTAAATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 8 0.28
18 7 0.24
19 14 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATAATTTATTTAATATTTA
Found at i:22818313 original size:18 final size:18
Alignment explanation
Indices: 22818290--22818329 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
22818280 TTTTTAATAA
*
22818290 TTTA-TTTAATATTTAAAT
1 TTTATTTTAATA-GTAAAT
22818308 TTTATTTTAATAGTAAAT
1 TTTATTTTAATAGTAAAT
22818326 TTTA
1 TTTA
22818330 AAAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTATTTTAATAGTAAAT
Found at i:22818938 original size:13 final size:14
Alignment explanation
Indices: 22818900--22818937 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
22818890 TTTTTCAATA
*
22818900 AAATTATTTTTCAG
1 AAATCATTTTTCAG
22818914 AAATCATTTTTC-G
1 AAATCATTTTTCAG
22818927 AAAGTCATTTT
1 AAA-TCATTTT
22818938 CAGTGAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (14 bp):
AAATCATTTTTCAG
Found at i:22837928 original size:119 final size:117
Alignment explanation
Indices: 22837707--22837930 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 117
22837697 TAAATACTAT
* ** *
22837707 AAATTTTATCATACGCATATGCATGTGGAAATTACATATTTAGAACACAAATATCTTTAAAAATA
1 AAATTCTATCATACGCATATGCATGTGGAAACCACATATCTAGAACACAAATATCTTTAAAAATA
*
22837772 ACATAAAATAAATAATGAACTCTATGATTTGAAACTAATTAATAATAACTGA
66 ACATAAAATAAATAATGAAATCTATGATTTGAAACTAATTAATAATAACTGA
* * *
22837824 AAATTCTATCAT-CTGCGTATGCATGTGGAAACCACGTATCTGGAACACAAAGT-TGCATTTAAA
1 AAATTCTATCATAC-GCATATGCATGTGGAAACCACATATCTAGAACACAAA-TAT-C-TTTAAA
* * *
22837887 AATAGCATACAATAAATAATGAAATGTAT-AGTTTGAAACTAATT
62 AATAACATAAAATAAATAATGAAATCTATGA-TTTGAAACTAATT
22837931 GATGACTCTA
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
116 1 0.01
117 43 0.47
118 3 0.03
119 44 0.48
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (117 bp):
AAATTCTATCATACGCATATGCATGTGGAAACCACATATCTAGAACACAAATATCTTTAAAAATA
ACATAAAATAAATAATGAAATCTATGATTTGAAACTAATTAATAATAACTGA
Found at i:22844102 original size:5 final size:5
Alignment explanation
Indices: 22844092--22844117 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22844082 TTAGAGGTGG
22844092 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
22844118 CGTTTACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:22845435 original size:18 final size:18
Alignment explanation
Indices: 22845404--22845456 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
22845394 GCAATATATG
22845404 TAAAAATA-ATTTAAAATA
1 TAAAAATATA-TTAAAATA
* *
22845422 TAAAAATTTATTAATATA
1 TAAAAATATATTAAAATA
*
22845440 TAACAATATATGTAAAA
1 TAAAAATATAT-TAAAA
22845457 ACAATTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
TAAAAATATATTAAAATA
Found at i:22845590 original size:34 final size:35
Alignment explanation
Indices: 22845535--22845601 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
22845525 CAAACACCAG
*
22845535 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
22845570 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
22845602 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:22847506 original size:19 final size:19
Alignment explanation
Indices: 22847482--22847526 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
22847472 CGTCTCTTTC
* *
22847482 TGCATT-CATTTCATGCATT
1 TGCATTACATTACAT-CATA
22847501 TGCATTACATTACATCATA
1 TGCATTACATTACATCATA
22847520 TGCATTA
1 TGCATTA
22847527 AAGACTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (19 bp):
TGCATTACATTACATCATA
Found at i:22849436 original size:24 final size:25
Alignment explanation
Indices: 22849408--22849462 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
22849398 CTTACGATAA
22849408 TTTTTGAACCAA-TATTCTTTCAGTT
1 TTTTTGAA-CAATTATTCTTTCAGTT
*
22849433 TTTTTGAATAATTATTCTTTCA-TT
1 TTTTTGAACAATTATTCTTTCAGTT
22849457 TTTTTG
1 TTTTTG
22849463 GATTTTCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.22, C:0.11, G:0.07, T:0.60
Consensus pattern (25 bp):
TTTTTGAACAATTATTCTTTCAGTT
Found at i:22857555 original size:28 final size:27
Alignment explanation
Indices: 22857523--22857577 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 27
22857513 TTATTATATT
*
22857523 TTTTATTTACTAAAATATTATAAAAAAA
1 TTTTATTTACCAAAATA-TATAAAAAAA
22857551 TTTTATTTACCAAAATATATAAAAAAA
1 TTTTATTTACCAAAATATATAAAAAAA
22857578 CAGAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (27 bp):
TTTTATTTACCAAAATATATAAAAAAA
Found at i:22857656 original size:27 final size:27
Alignment explanation
Indices: 22857618--22857696 Score: 131
Period size: 27 Copynumber: 2.9 Consensus size: 27
22857608 AGCTAATCAC
*
22857618 ATTGGCGGCACCAAAGGTGCCAAAGAG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
* *
22857645 ATTGGCGGCACCAATGGTGCCAATGTG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
22857672 ATTGGCGGCACCAATGGTGCCAAAG
1 ATTGGCGGCACCAATGGTGCCAAAG
22857697 GACTAAAATG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.28, C:0.23, G:0.33, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGAG
Found at i:22858119 original size:18 final size:19
Alignment explanation
Indices: 22858080--22858138 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
22858070 ATTTTATATT
22858080 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
22858099 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
22858117 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
22858136 TTA
1 TTA
22858139 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:22858841 original size:28 final size:28
Alignment explanation
Indices: 22858801--22858871 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
22858791 TTTTTCTGTT
22858801 TTTTTGAT-ATATTTTAGTAAATAAAAAA
1 TTTTT-ATAATATTTTAGTAAATAAAAAA
*
22858829 TTTTTATAATATTTTGGTAAATAAAAAA
1 TTTTTATAATATTTTAGTAAATAAAAAA
***
22858857 AAGTTATAATATTTT
1 TTTTTATAATATTTT
22858872 GGTTATTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 2 0.05
28 36 0.95
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (28 bp):
TTTTTATAATATTTTAGTAAATAAAAAA
Found at i:22858872 original size:28 final size:28
Alignment explanation
Indices: 22858809--22858874 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
22858799 TTTTTTTGAT
* ***
22858809 ATATTTTAGTAAATAAAAAATTTTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
22858837 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
22858865 ATATTTTGGT
1 ATATTTTGGT
22858875 TATTTTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:22859539 original size:29 final size:29
Alignment explanation
Indices: 22859497--22859555 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
22859487 GGAGGAGGAG
22859497 TAAGATTAATGAAAGGTATCTCCTTTTGT
1 TAAGATTAATGAAAGGTATCTCCTTTTGT
22859526 TAAGATTAATGAAAGGTATCTCCTTTTGT
1 TAAGATTAATGAAAGGTATCTCCTTTTGT
22859555 T
1 T
22859556 TTCTTCCAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (29 bp):
TAAGATTAATGAAAGGTATCTCCTTTTGT
Found at i:22872466 original size:20 final size:20
Alignment explanation
Indices: 22872441--22872479 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
22872431 AGAGGCTTTT
22872441 CTTTGTTCTCAAAAGGTTCG
1 CTTTGTTCTCAAAAGGTTCG
22872461 CTTTGTTCTCAAAAGGTTC
1 CTTTGTTCTCAAAAGGTTC
22872480 TATGTCAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.41
Consensus pattern (20 bp):
CTTTGTTCTCAAAAGGTTCG
Found at i:22874826 original size:62 final size:62
Alignment explanation
Indices: 22874743--22874867 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
22874733 CTTCTTGTCT
* *
22874743 AGTTTAATCCTCTCCATTTTTCCCCAGGTCAAACCCTCTATTGTCTCCTCCCCCCCCCCCAA
1 AGTTTAATCCTCTCCATTTTTCCCCAGGTCAAACCCTCTATTGTCCCCCCCCCCCCCCCCAA
22874805 AGTTTAATCCTCTCCATTTTTCCCCAGGTCAAACCCTCTATTGTCCCCCCCCCCCCCCCCAA
1 AGTTTAATCCTCTCCATTTTTCCCCAGGTCAAACCCTCTATTGTCCCCCCCCCCCCCCCCAA
22874867 A
1 A
22874868 ATGATCCTCC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.18, C:0.46, G:0.06, T:0.29
Consensus pattern (62 bp):
AGTTTAATCCTCTCCATTTTTCCCCAGGTCAAACCCTCTATTGTCCCCCCCCCCCCCCCCAA
Found at i:22883877 original size:41 final size:40
Alignment explanation
Indices: 22883832--22883933 Score: 141
Period size: 41 Copynumber: 2.5 Consensus size: 40
22883822 TGATTCAGTA
22883832 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCTGAAATATTT
* * *
22883873 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTGAAATATTT
*
22883914 CACCGGCAATAAGCCTGCTA
1 CACCGGC-ATTAGCCTGCTA
22883934 AGCGCTAAGC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
40 2 0.04
41 51 0.93
42 2 0.04
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:22883948 original size:41 final size:41
Alignment explanation
Indices: 22883832--22883948 Score: 112
Period size: 41 Copynumber: 2.9 Consensus size: 41
22883822 TGATTCAGTA
* * * * *
22883832 CACCGGCACTTAGCCTGCTAGACA-TATAGTCTGAAATATTT
1 CACCGGCAATAAGCCTGCTAGACACTA-AGCCTGAAGTGTTT
* * * *
22883873 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAGTGTTT
*
22883914 CACCGGCAATAAGCCTGCTA-AGCGCTAAGCCTGAA
1 CACCGGCAATAAGCCTGCTAGA-CACTAAGCCTGAA
22883949 AATCTCAATT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
40 1 0.02
41 62 0.97
42 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAGTGTTT
Found at i:22884339 original size:2 final size:2
Alignment explanation
Indices: 22884332--22884389 Score: 50
Period size: 2 Copynumber: 30.0 Consensus size: 2
22884322 CAAATTCAAG
* * * *
22884332 TA TA TA TA TA CA TA TA GA TA CA TA TA TA -A T- TA TT TGA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
22884372 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
22884390 CCTTTATACC
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:22884928 original size:29 final size:29
Alignment explanation
Indices: 22884891--22884960 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
22884881 TCATTTATTT
* *
22884891 CACATTTAAGCCCCTAAATTTTCAAATTC
1 CACAATTAAGCCCCTAAATTTTCAAATTA
**
22884920 CACAATTAA-CCCCTAAATTTTCATTTTA
1 CACAATTAAGCCCCTAAATTTTCAAATTA
*
22884948 CGCAATTAAGCCC
1 CACAATTAAGCCC
22884961 TTTTATTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 24 0.69
29 11 0.31
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.33
Consensus pattern (29 bp):
CACAATTAAGCCCCTAAATTTTCAAATTA
Found at i:22885041 original size:13 final size:13
Alignment explanation
Indices: 22885023--22885047 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22885013 CAATCAAATG
22885023 CACACAAAATAAA
1 CACACAAAATAAA
22885036 CACACAAAATAA
1 CACACAAAATAA
22885048 TATTAAAATA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:22889469 original size:77 final size:78
Alignment explanation
Indices: 22889364--22889519 Score: 305
Period size: 77 Copynumber: 2.0 Consensus size: 78
22889354 AAATAATAAC
22889364 TTTTCCCTCTCTAATTTCATAATATTTTTAATTGGTTGAAACTACCATTAAAATATTGACTTTAA
1 TTTTCCCTCTCTAATTTCATAATATTTTTAATTGGTTGAAACTACCATTAAAATATTGACTTTAA
22889429 TTTTTTTAAATAT
66 TTTTTTTAAATAT
22889442 TTTTCCCTCTC-AATTTCATAATATTTTTAATTGGTTGAAACTACCATTAAAATATTGACTTTAA
1 TTTTCCCTCTCTAATTTCATAATATTTTTAATTGGTTGAAACTACCATTAAAATATTGACTTTAA
22889506 TTTTTTTAAATAT
66 TTTTTTTAAATAT
22889519 T
1 T
22889520 AATATTATTA
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
77 67 0.86
78 11 0.14
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.50
Consensus pattern (78 bp):
TTTTCCCTCTCTAATTTCATAATATTTTTAATTGGTTGAAACTACCATTAAAATATTGACTTTAA
TTTTTTTAAATAT
Found at i:22890057 original size:15 final size:14
Alignment explanation
Indices: 22890031--22890079 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
22890021 AGTTTTAAAA
22890031 ATAAAGAATTAAATT
1 ATAAA-AATTAAATT
* *
22890046 ATGATAAATTAAATG
1 AT-AAAAATTAAATT
22890061 ATAAAAATTAAATT
1 ATAAAAATTAAATT
*
22890075 TTAAA
1 ATAAA
22890080 TTTGAACATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 14 0.50
15 12 0.43
16 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (14 bp):
ATAAAAATTAAATT
Found at i:22894326 original size:23 final size:23
Alignment explanation
Indices: 22894300--22894343 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
22894290 TTTTATTAAA
*
22894300 TTTGTATATAAATTTTGATTTTT
1 TTTGTATATAAATTTTAATTTTT
* *
22894323 TTTGTATTTTAATTTTAATTT
1 TTTGTATATAAATTTTAATTT
22894344 GACATGTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (23 bp):
TTTGTATATAAATTTTAATTTTT
Found at i:22897115 original size:82 final size:83
Alignment explanation
Indices: 22897013--22897176 Score: 321
Period size: 82 Copynumber: 2.0 Consensus size: 83
22897003 TTGTTTAAAG
22897013 TGCTTAATTGCTATGATTAATTAAATTATATTTGTATTTGCTATGTGATGACTATGCTATGTCGT
1 TGCTTAATTGCTATGATTAATTAAATTATATTTGTATTTGCTATGTGATGACTATGCTATGTCGT
22897078 GTGAATTTGGATATTTGT
66 GTGAATTTGGATATTTGT
22897096 TGCTTAATT-CTATGATTAATTAAATTATATTTGTATTTGCTATGTGATGACTATGCTATGTCGT
1 TGCTTAATTGCTATGATTAATTAAATTATATTTGTATTTGCTATGTGATGACTATGCTATGTCGT
22897160 GTGAATTTGGATATTTG
66 GTGAATTTGGATATTTG
22897177 GTGTGGCTTG
Statistics
Matches: 81, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
82 72 0.89
83 9 0.11
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.48
Consensus pattern (83 bp):
TGCTTAATTGCTATGATTAATTAAATTATATTTGTATTTGCTATGTGATGACTATGCTATGTCGT
GTGAATTTGGATATTTGT
Found at i:22900730 original size:13 final size:13
Alignment explanation
Indices: 22900712--22900741 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
22900702 ATAATATTTT
*
22900712 TTTATTTTTAGAA
1 TTTATTATTAGAA
22900725 TTTATTATTAGAA
1 TTTATTATTAGAA
22900738 TTTA
1 TTTA
22900742 ACTTTCCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (13 bp):
TTTATTATTAGAA
Found at i:22901196 original size:42 final size:42
Alignment explanation
Indices: 22901103--22901218 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 42
22901093 AATATATTTA
* *
22901103 TTTTTTTAATTTTAAAATATTTTTTACATAC--TTTTTTAAT
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTAAT
*
22901143 TTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTTAAT
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTAAT
*
22901185 TTTTTTTAATTTTAAAATATTTTAAAAATA-TTTT
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTT
22901219 AAAAATACTT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
40 28 0.41
41 4 0.06
42 37 0.54
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (42 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTAAT
Found at i:22901206 original size:10 final size:10
Alignment explanation
Indices: 22901193--22901222 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
22901183 ATTTTTTTTA
22901193 ATTTTAAAAT
1 ATTTTAAAAT
22901203 ATTTTAAAAAT
1 ATTTT-AAAAT
22901214 ATTTTAAAA
1 ATTTTAAAA
22901223 ATACTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:22901230 original size:21 final size:21
Alignment explanation
Indices: 22901193--22901232 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22901183 ATTTTTTTTA
*
22901193 ATTTTAAAATATTTTAAAAAT
1 ATTTTAAAATATCTTAAAAAT
22901214 ATTTTAAAA-ATACTTAAAA
1 ATTTTAAAATAT-CTTAAAA
22901233 TTTTGGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTTTAAAATATCTTAAAAAT
Found at i:22904104 original size:22 final size:22
Alignment explanation
Indices: 22904063--22904161 Score: 89
Period size: 23 Copynumber: 4.5 Consensus size: 22
22904053 GAAGATGAAA
**
22904063 CTGGAAATTG-TTACATTTGTT
1 CTGGAAATTGTTTTGATTTGTT
* *
22904084 -TTGATATTGTTCTTGATTTGTT
1 CTGGAAATTGTT-TTGATTTGTT
22904106 CTGGAAATTGTTTTGA-TTGTCT
1 CTGGAAATTGTTTTGATTTGT-T
22904128 ACTGGAAATTGTTTTGA-TTGTCT
1 -CTGGAAATTGTTTTGATTTGT-T
22904151 GCTGGAAATTG
1 -CTGGAAATTG
22904162 AATTTGTTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
20 7 0.11
21 5 0.08
22 13 0.20
23 41 0.62
ACGTcount: A:0.20, C:0.08, G:0.22, T:0.49
Consensus pattern (22 bp):
CTGGAAATTGTTTTGATTTGTT
Found at i:22904132 original size:23 final size:22
Alignment explanation
Indices: 22904089--22904161 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 22
22904079 TTGTTTTGAT
22904089 ATTGTTCTTGATTTGT-TCTGGAA
1 ATTGTT-TTGA-TTGTCTCTGGAA
22904112 ATTGTTTTGATTGTCTACTGGAA
1 ATTGTTTTGATTGTCT-CTGGAA
22904135 ATTGTTTTGATTGTCTGCTGGAA
1 ATTGTTTTGATTGTCT-CTGGAA
22904158 ATTG
1 ATTG
22904162 AATTTGTTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
21 4 0.09
22 5 0.11
23 38 0.81
ACGTcount: A:0.19, C:0.08, G:0.23, T:0.49
Consensus pattern (22 bp):
ATTGTTTTGATTGTCTCTGGAA
Found at i:22910228 original size:16 final size:16
Alignment explanation
Indices: 22910207--22910244 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
22910197 TTGATTTGCT
*
22910207 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
22910223 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
22910239 AATACA
1 ATTACA
22910245 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:22927844 original size:5 final size:5
Alignment explanation
Indices: 22927834--22927873 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
22927824 TTCTTCGTGT
*
22927834 TTTTA TTTTA TTTTA -TTTA TTTTA TCTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
22927874 ATATATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:22927858 original size:19 final size:19
Alignment explanation
Indices: 22927834--22927870 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
22927824 TTCTTCGTGT
*
22927834 TTTTATTTTATTTTATTTA
1 TTTTATCTTATTTTATTTA
22927853 TTTTATCTTATTTTATTT
1 TTTTATCTTATTTTATTT
22927871 TATATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTATCTTATTTTATTTA
Found at i:22928559 original size:20 final size:20
Alignment explanation
Indices: 22928531--22928580 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 20
22928521 AGCAAAGTCA
22928531 AAGAAAAAAACAGCAAGCAAA-
1 AAGAAAAAAA-A-CAAGCAAAG
22928552 AAGCAAAAAAAACAAGCAAAG
1 AAG-AAAAAAAACAAGCAAAG
22928573 AAGAAAAA
1 AAGAAAAA
22928581 GAGAAGAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 13 0.48
21 7 0.26
22 7 0.26
ACGTcount: A:0.74, C:0.12, G:0.14, T:0.00
Consensus pattern (20 bp):
AAGAAAAAAAACAAGCAAAG
Found at i:22928678 original size:7 final size:7
Alignment explanation
Indices: 22928663--22928729 Score: 55
Period size: 7 Copynumber: 8.7 Consensus size: 7
22928653 GGCTGAACGG
*
22928663 AGAAGAA
1 AGAAAAA
22928670 AGAAAAA
1 AGAAAAA
22928677 AGAAAAGA
1 AGAAAA-A
22928685 AGAAAGAA
1 AGAAA-AA
22928693 AGAAGAAA
1 AGAA-AAA
22928701 CAGAGAAGAA
1 -AGA-AA-AA
22928711 AGAAGAAA
1 AGAA-AAA
22928719 A-AAAAA
1 AGAAAAA
22928725 AGAAA
1 AGAAA
22928730 GGAAAAAGGG
Statistics
Matches: 51, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
6 4 0.08
7 17 0.33
8 17 0.33
9 10 0.20
10 3 0.06
ACGTcount: A:0.76, C:0.01, G:0.22, T:0.00
Consensus pattern (7 bp):
AGAAAAA
Found at i:22928681 original size:11 final size:11
Alignment explanation
Indices: 22928665--22928737 Score: 74
Period size: 11 Copynumber: 6.3 Consensus size: 11
22928655 CTGAACGGAG
22928665 AAGAAAGAAAA
1 AAGAAAGAAAA
*
22928676 AAGAAAAGAAGA
1 AAG-AAAGAAAA
22928688 AAGAAAGAAGAA
1 AAGAAAGAA-AA
*
22928700 ACAGAGAAGAAAG
1 A-AGA-AAGAAAA
*
22928713 AAGAAAAAAAA
1 AAGAAAGAAAA
*
22928724 AAGAAAGGAAA
1 AAGAAAGAAAA
22928735 AAG
1 AAG
22928738 GGGAAAGAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
11 26 0.51
12 15 0.29
13 5 0.10
14 5 0.10
ACGTcount: A:0.75, C:0.01, G:0.23, T:0.00
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:22928711 original size:18 final size:19
Alignment explanation
Indices: 22928663--22928730 Score: 88
Period size: 18 Copynumber: 3.7 Consensus size: 19
22928653 GGCTGAACGG
*
22928663 AGAAGAAAGAAAAAAGAAA
1 AGAAGAAAGAAAGAAGAAA
22928682 AGAAGAAAGAAAGAAGAAA
1 AGAAGAAAGAAAGAAGAAA
22928701 CAG-AG-AAGAAAGAAGAAA
1 -AGAAGAAAGAAAGAAGAAA
*
22928719 A-AAAAAAGAAAG
1 AGAAGAAAGAAAG
22928731 GAAAAAGGGG
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
17 2 0.05
18 20 0.45
19 20 0.45
20 2 0.05
ACGTcount: A:0.75, C:0.01, G:0.24, T:0.00
Consensus pattern (19 bp):
AGAAGAAAGAAAGAAGAAA
Found at i:22928747 original size:4 final size:4
Alignment explanation
Indices: 22928665--22928730 Score: 54
Period size: 4 Copynumber: 17.8 Consensus size: 4
22928655 CTGAACGGAG
* *
22928665 AAGA AAGA AA-A AAGA AA-A GAAGA AAGA AAG- AAGA AACA GAG- AAGA
1 AAGA AAGA AAGA AAGA AAGA -AAGA AAGA AAGA AAGA AAGA AAGA AAGA
*
22928710 AAG- AAGA AA-A AAAA AAGA AAG
1 AAGA AAGA AAGA AAGA AAGA AAG
22928731 GAAAAAGGGG
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
3 15 0.30
4 34 0.68
5 1 0.02
ACGTcount: A:0.76, C:0.02, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:22928879 original size:21 final size:22
Alignment explanation
Indices: 22928853--22928910 Score: 75
Period size: 21 Copynumber: 2.6 Consensus size: 22
22928843 CAAAATAGAA
*
22928853 AAAGAAA-CAGCAGAAAAAAAG
1 AAAGAAAGAAGCAGAAAAAAAG
22928874 AAAGAAAGAAGCAG-AAAAAAG
1 AAAGAAAGAAGCAGAAAAAAAG
22928895 AAGAAGAAAGAAGCAG
1 -A-AAGAAAGAAGCAG
22928911 TCCAGCAGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 14 0.42
22 6 0.18
23 13 0.39
ACGTcount: A:0.69, C:0.07, G:0.24, T:0.00
Consensus pattern (22 bp):
AAAGAAAGAAGCAGAAAAAAAG
Found at i:22928896 original size:13 final size:14
Alignment explanation
Indices: 22928871--22928906 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
22928861 AGCAGAAAAA
22928871 AAGAAAGAAAGAAG
1 AAGAAAGAAAGAAG
*
22928885 CAGAAA-AAAGAAG
1 AAGAAAGAAAGAAG
22928898 AAGAAAGAA
1 AAGAAAGAA
22928907 GCAGTCCAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.72, C:0.03, G:0.25, T:0.00
Consensus pattern (14 bp):
AAGAAAGAAAGAAG
Found at i:22928904 original size:23 final size:23
Alignment explanation
Indices: 22928844--22928910 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
22928834 AAAAAAAACC
* * *
22928844 AAAATAGAAAAAGAAA-CAGCAG
1 AAAAAAGAAGAAGAAAGAAGCAG
22928866 -AAAAA-AAGAAAGAAAGAAGCAG
1 AAAAAAGAAG-AAGAAAGAAGCAG
22928888 AAAAAAGAAGAAGAAAGAAGCAG
1 AAAAAAGAAGAAGAAAGAAGCAG
22928911 TCCAGCAGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 2 0.05
21 10 0.26
22 5 0.13
23 18 0.47
24 3 0.08
ACGTcount: A:0.70, C:0.06, G:0.22, T:0.01
Consensus pattern (23 bp):
AAAAAAGAAGAAGAAAGAAGCAG
Found at i:22929108 original size:13 final size:14
Alignment explanation
Indices: 22929092--22929121 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
22929082 TGGGTAAATT
22929092 TTTTA-TCCATTTA
1 TTTTAGTCCATTTA
22929105 TTTTAGTCCATTTA
1 TTTTAGTCCATTTA
22929119 TTT
1 TTT
22929122 AAATATTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.20, C:0.13, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTTAGTCCATTTA
Found at i:22929524 original size:17 final size:17
Alignment explanation
Indices: 22929497--22929542 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
22929487 AAAAAAATCG
22929497 TGTTTCAAAAATTT-TCA
1 TGTTTC-AAAATTTCTCA
*
22929514 TGTCTTCAAAATTTCTCG
1 TGT-TTCAAAATTTCTCA
22929532 TGTTTCAAAAT
1 TGTTTCAAAAT
22929543 AATAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (17 bp):
TGTTTCAAAATTTCTCA
Found at i:22929628 original size:17 final size:18
Alignment explanation
Indices: 22929600--22929691 Score: 52
Period size: 16 Copynumber: 5.3 Consensus size: 18
22929590 TTCTTTTTTA
22929600 AAAAATTC-CGTG-TTTC
1 AAAAATTCTCGTGATTTC
***
22929616 AAAAATTCTCGTGAATAAAA
1 AAAAATTCTCGTG-AT-TTC
*
22929636 AAAAATT-TCGTGTTTTC
1 AAAAATTCTCGTGATTTC
* *
22929653 -AAAATTCCCGTG-TTTGA
1 AAAAATTCTCGTGATTT-C
*
22929670 AAAAATT-TCGTGTTTTC
1 AAAAATTCTCGTGATTTC
22929687 AAAAA
1 AAAAA
22929692 AAAATTTCTC
Statistics
Matches: 57, Mismatches: 11, Indels: 15
0.69 0.13 0.18
Matches are distributed among these distances:
16 17 0.30
17 17 0.30
18 10 0.18
19 6 0.11
20 7 0.12
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (18 bp):
AAAAATTCTCGTGATTTC
Found at i:22929673 original size:36 final size:34
Alignment explanation
Indices: 22929599--22929690 Score: 105
Period size: 36 Copynumber: 2.6 Consensus size: 34
22929589 TTTCTTTTTT
* *
22929599 AAAAAATTCCGTG-TTTCAAAAATTCTCGTGAATAAA
1 AAAAAATTTCGTGTTTTC-AAAATTCCCGTGAAT--A
** *
22929635 AAAAAATTTCGTGTTTTCAAAATTCCCGTGTTTG
1 AAAAAATTTCGTGTTTTCAAAATTCCCGTGAATA
22929669 AAAAAATTTCGTGTTTTCAAAA
1 AAAAAATTTCGTGTTTTCAAAA
22929691 AAAAATTTCT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
34 22 0.44
36 24 0.48
37 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (34 bp):
AAAAAATTTCGTGTTTTCAAAATTCCCGTGAATA
Found at i:22929747 original size:19 final size:19
Alignment explanation
Indices: 22929724--22930011 Score: 103
Period size: 18 Copynumber: 15.4 Consensus size: 19
22929714 TTTGATGTTA
22929724 TCGTGTTTTCAAAAAATTC
1 TCGTGTTTTCAAAAAATTC
* * * * *
22929743 CCGTG-TTTGACAAATTTT
1 TCGTGTTTTCAAAAAATTC
22929761 TC-TGTTTTCAAAAAATTC
1 TCGTGTTTTCAAAAAATTC
* *
22929779 TCGTGTTTTCAAAATTTTCATGTTT
1 TCGTGTTTTCAAAA-----A-ATTC
22929804 TCGTGTTTTCAAAAAATTC
1 TCGTGTTTTCAAAAAATTC
*
22929823 TCGTGTTTTTAAAAAAAATT-
1 TCGTG-TTTT-CAAAAAATTC
***
22929843 TCGTG-TTT-AAAAAAAAA
1 TCGTGTTTTCAAAAAATTC
* *
22929860 TCATGTTTTC--AAAATTT
1 TCGTGTTTTCAAAAAATTC
* *
22929877 TCGTGTTTTC-AAAATTTT
1 TCGTGTTTTCAAAAAATTC
22929895 TCGTG---TCAAAAAAATTC
1 TCGTGTTTTC-AAAAAATTC
* * * *
22929912 TCATG-TATCGAAAATTTC
1 TCGTGTTTTCAAAAAATTC
22929930 -CGTGTTTTCAAAAAAAAATT-
1 TCGTGTTTTC---AAAAAATTC
*
22929950 TCGTG-TTTC-AAAGA-TC
1 TCGTGTTTTCAAAAAATTC
*
22929966 TTCGTGTTTTCAAAAATTATTA
1 -TCGTGTTTTCAAAAA--ATTC
*
22929988 TTGTG-TTTC--AAAATTC
1 TCGTGTTTTCAAAAAATTC
22930004 TCGTGTTT
1 TCGTGTTT
22930012 AAAAACAAAA
Statistics
Matches: 200, Mismatches: 38, Indels: 64
0.66 0.13 0.21
Matches are distributed among these distances:
15 3 0.01
16 17 0.09
17 39 0.19
18 55 0.28
19 27 0.14
20 18 0.09
21 23 0.12
22 1 0.00
24 1 0.00
25 16 0.08
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (19 bp):
TCGTGTTTTCAAAAAATTC
Found at i:22929767 original size:36 final size:36
Alignment explanation
Indices: 22929727--22929805 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 36
22929717 GATGTTATCG
*
22929727 TGTTTTCAAAAAATTCCCGTGTTTGACAAATTTTTC-
1 TGTTTTCAAAAAATTCCCGTGTTT-ACAAAATTTTCA
* *
22929763 TGTTTTCAAAAAATTCTCGTGTTTTCAAAATTTTCA
1 TGTTTTCAAAAAATTCCCGTGTTTACAAAATTTTCA
22929799 TGTTTTC
1 TGTTTTC
22929806 GTGTTTTCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
35 9 0.23
36 30 0.77
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.48
Consensus pattern (36 bp):
TGTTTTCAAAAAATTCCCGTGTTTACAAAATTTTCA
Found at i:22929829 original size:27 final size:25
Alignment explanation
Indices: 22929779--22929831 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
22929769 CAAAAAATTC
*
22929779 TCGTGTTTTCAAAATTTTCATGTTT
1 TCGTGTTTTCAAAATTCTCATGTTT
*
22929804 TCGTGTTTTCAAAAAATTCTCGTGTTT
1 TCGTGTTTTC--AAAATTCTCATGTTT
22929831 T
1 T
22929832 TAAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 10 0.42
27 14 0.58
ACGTcount: A:0.21, C:0.13, G:0.13, T:0.53
Consensus pattern (25 bp):
TCGTGTTTTCAAAATTCTCATGTTT
Found at i:22929837 original size:20 final size:19
Alignment explanation
Indices: 22929802--22929860 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
22929792 ATTTTCATGT
*
22929802 TTTCGTG-TTTTCAAAAAA
1 TTTCGTGTTTTTAAAAAAA
22929820 TTCTCGTGTTTTTAAAAAAAA
1 TT-TCGTGTTTTT-AAAAAAA
**
22929841 TTTCGTGTTTAAAAAAAAA
1 TTTCGTGTTTTTAAAAAAA
22929860 T
1 T
22929861 CATGTTTTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 2 0.06
19 13 0.37
20 12 0.34
21 8 0.23
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.42
Consensus pattern (19 bp):
TTTCGTGTTTTTAAAAAAA
Found at i:22929897 original size:18 final size:17
Alignment explanation
Indices: 22929863--22930011 Score: 77
Period size: 17 Copynumber: 8.3 Consensus size: 17
22929853 AAAAAAATCA
22929863 TGTTTTCAAAATTTTCG
1 TGTTTTCAAAATTTTCG
22929880 TGTTTTCAAAATTTTTCG
1 TGTTTTCAAAA-TTTTCG
**** * *
22929898 TGTCAAAAAAATTCTCA
1 TGTTTTCAAAATTTTCG
* *
22929915 TG-TATCGAAAATTTCCG
1 TGTTTTC-AAAATTTTCG
*
22929932 TGTTTTCAAAAAAAAATTTCG
1 TGTTTTC----AAAATTTTCG
*
22929953 TG-TTTCAAAGATCTTCG
1 TGTTTTCAAA-ATTTTCG
**
22929970 TGTTTTCAAAAATTATTAT
1 TGTTTTC-AAAATT-TTCG
*
22929989 TGTGTTTCAAAATTCTCG
1 TGT-TTTCAAAATTTTCG
22930007 TGTTT
1 TGTTT
22930012 AAAAACAAAA
Statistics
Matches: 97, Mismatches: 24, Indels: 22
0.68 0.17 0.15
Matches are distributed among these distances:
16 4 0.04
17 35 0.36
18 26 0.27
19 14 0.14
20 8 0.08
21 10 0.10
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (17 bp):
TGTTTTCAAAATTTTCG
Found at i:22929958 original size:20 final size:22
Alignment explanation
Indices: 22929922--22929961 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
22929912 TCATGTATCG
22929922 AAAATTTCCGTGTTTTCAAAAA
1 AAAATTTCCGTGTTTTCAAAAA
22929944 AAAATTT-CGTG-TTTCAAA
1 AAAATTTCCGTGTTTTCAAA
22929962 GATCTTCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (22 bp):
AAAATTTCCGTGTTTTCAAAAA
Found at i:22929994 original size:38 final size:37
Alignment explanation
Indices: 22929802--22930011 Score: 104
Period size: 37 Copynumber: 5.7 Consensus size: 37
22929792 ATTTTCATGT
*
22929802 TTTCGTGTTTTCAAAAAATTCTCGTGTTTT-TAAAAAAAA
1 TTTCGTG-TTTC--AAAATTCTCGTGTTTTCAAAAAAAAA
* *** * *
22929841 TTTCGTGTTTAAAAAAAAATCATGTTTTC----AAAAT
1 TTTCGTGTTT-CAAAATTCTCGTGTTTTCAAAAAAAAA
*
22929875 TTTCGTGTTTTCAAAATTTTTCGTG---TC--AAAAAAA
1 TTTCGTG-TTTCAAAA-TTCTCGTGTTTTCAAAAAAAAA
* *
22929909 TTCTCATGTATCGAAAATT-TCCGTGTTTTCAAAAAAAAA
1 TT-TCGTGTTTC-AAAATTCT-CGTGTTTTCAAAAAAAAA
**
22929948 TTTCGTGTTTCAAAGA-TCTTCGTGTTTTC-AAAAATTA
1 TTTCGTGTTTCAAA-ATTC-TCGTGTTTTCAAAAAAAAA
*
22929985 TTATTGTGTTTCAAAATTCTCGTGTTT
1 TT-TCGTGTTTCAAAATTCTCGTGTTT
22930012 AAAAACAAAA
Statistics
Matches: 133, Mismatches: 19, Indels: 40
0.69 0.10 0.21
Matches are distributed among these distances:
32 2 0.02
33 1 0.01
34 30 0.23
35 15 0.11
37 35 0.26
38 33 0.25
39 17 0.13
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (37 bp):
TTTCGTGTTTCAAAATTCTCGTGTTTTCAAAAAAAAA
Found at i:22930787 original size:34 final size:34
Alignment explanation
Indices: 22930744--22930812 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
22930734 GATGTTAAAT
*
22930744 TTACTCATAGATCCGGATAGATCAAATATGGAGC
1 TTACTCATAGATCCGGATAGATCAAATACGGAGC
*
22930778 TTACTCATAGATCTGGATAGATCAAATACGGAGC
1 TTACTCATAGATCCGGATAGATCAAATACGGAGC
22930812 T
1 T
22930813 ATATCGAGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (34 bp):
TTACTCATAGATCCGGATAGATCAAATACGGAGC
Found at i:22932753 original size:140 final size:140
Alignment explanation
Indices: 22932501--22932913 Score: 530
Period size: 140 Copynumber: 3.0 Consensus size: 140
22932491 GTCGGCACAA
* * * * *
22932501 TGTTGGACAAAGCTGACTTTTATTTAAGTGTTGCCTTAGGCATGCATATCTCAGCCTTTATACAA
1 TGTTGGACAAAGTTGACTTTTATTTAAGCGTTGTCTTAGGCATGCATATCCCAACCTTTATACAA
* * * *
22932566 AGA-TTGGGTCAAAGCGTATGCCGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGGCCCAAAAG
66 AGAGTT-GGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGACCCAAAAG
*
22932630 TGT-TGACATAG
130 TGTCGGA-ATAG
*
22932641 TGTTGGACAAAATTGACTTTTATTTAAGCGTTGTCTTAGGCATGCATATCCCAACCTTTATACAA
1 TGTTGGACAAAGTTGACTTTTATTTAAGCGTTGTCTTAGGCATGCATATCCCAACCTTTATACAA
* * * * *
22932706 AGAGTTGACCAAGGTGTATGTCGGTAAGTCTATCCGAACACTTAGGAAAGTGTCGACCCAAAAGT
66 AGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGACCCAAAAGT
22932771 GTCGGAATAG
131 GTCGGAATAG
* * * *
22932781 TATTGGATAAAGTCGA-TTCTTATTTAAGCATT-TCCTTAGGCATGCATATCCCAAGCC-TTATA
1 TGTTGGACAAAGTTGACTT-TTATTTAAGCGTTGT-CTTAGGCATGCATATCCCAA-CCTTTATA
* * **
22932843 CAAAGAGTTGGCCAAAACGTATGTTGGCAAGTCTATCCCAACACTTAAAAAAGTGTCGACCCAAA
63 CAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGACCCAAA
22932908 AGTGTC
128 AGTGTC
22932914 ACCTTAAGAC
Statistics
Matches: 238, Mismatches: 30, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
139 3 0.01
140 229 0.96
141 6 0.03
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (140 bp):
TGTTGGACAAAGTTGACTTTTATTTAAGCGTTGTCTTAGGCATGCATATCCCAACCTTTATACAA
AGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGACCCAAAAGT
GTCGGAATAG
Found at i:22933233 original size:8 final size:8
Alignment explanation
Indices: 22933220--22933285 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
22933210 CACAAAATAT
22933220 ATATTATA
1 ATATTATA
22933228 ATATTATA
1 ATATTATA
22933236 ATATTAT-
1 ATATTATA
*
22933243 ATGTTA-A
1 ATATTATA
*
22933250 TTATTA-A
1 ATATTATA
*
22933257 GTATATATATT
1 --ATAT-TATA
22933268 ATATTAT-
1 ATATTATA
22933275 ATATTATA
1 ATATTATA
22933283 ATA
1 ATA
22933286 AGTAAATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
7 17 0.36
8 21 0.45
9 7 0.15
10 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (8 bp):
ATATTATA
Found at i:22933270 original size:7 final size:7
Alignment explanation
Indices: 22933217--22933282 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
22933207 GGCCACAAAA
22933217 TATATAT
1 TATATAT
22933224 TATAATAT
1 TAT-ATAT
22933232 TATAATAT
1 TAT-ATAT
*
22933240 TATATGT
1 TATATAT
22933247 TA-ATTAT
1 TATA-TAT
22933254 TAAGTATAT
1 T-A-TATAT
22933263 ATATTATAT
1 -TA-TATAT
22933272 TATATAT
1 TATATAT
22933279 TATA
1 TATA
22933283 ATAAGTAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
6 1 0.02
7 20 0.40
8 18 0.36
9 9 0.18
10 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:22933295 original size:30 final size:32
Alignment explanation
Indices: 22933227--22933295 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
22933217 TATATATTAT
* *
22933227 AATATTATAATATTATATGTTAATTATTAAGTA
1 AATA-TATAATATTATATATTAATTAATAAGTA
* *
22933260 TATATATTATATTATATATT-A-TAATAAGTA
1 AATATATAATATTATATATTAATTAATAAGTA
22933290 AATATA
1 AATATA
22933296 ATAAATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 13 0.42
31 1 0.03
32 14 0.45
33 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (32 bp):
AATATATAATATTATATATTAATTAATAAGTA
Found at i:22934086 original size:15 final size:15
Alignment explanation
Indices: 22934066--22934115 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
22934056 TGATGAATTT
22934066 ATTGAATTTATATTG
1 ATTGAATTTATATTG
22934081 ATTGAATTGGTATATAT-
1 ATTGAATT--TATAT-TG
*
22934098 ATTGAATATATATTG
1 ATTGAATTTATATTG
22934113 ATT
1 ATT
22934116 ATTTGAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
17 12 0.40
18 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:22934156 original size:29 final size:28
Alignment explanation
Indices: 22934098--22934161 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
22934088 TGGTATATAT
*
22934098 ATTGAATATATATTGATTATTTGAATTGA
1 ATTGAATATATATTGA-TATTTGAAGTGA
*
22934127 ATTGAATATATGTTG-TATTTGAAAAGTGA
1 ATTGAATATATATTGATATTTG--AAGTGA
22934156 ATTGAA
1 ATTGAA
22934162 ACCCTATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 6 0.19
29 25 0.81
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (28 bp):
ATTGAATATATATTGATATTTGAAGTGA
Found at i:22934242 original size:41 final size:38
Alignment explanation
Indices: 22934196--22934326 Score: 99
Period size: 41 Copynumber: 3.3 Consensus size: 38
22934186 GTCGGATGTA
22934196 GATGAGACACTAGGTGTTAATTTACTACTTCGGATTAATTC
1 GATGAGACACT-GGTGTTAATTTA-TACTTCGGATT-ATTC
* ** * **
22934237 GATGAGGCACTGGGTGCCAATTTAT--TTCGGTTTAGCC
1 GATGAGACACT-GGTGTTAATTTATACTTCGGATTATTC
*
22934274 GATGAGACACTGAGTGTCT-ATTTATTACTTCGAATTATTC
1 GATGAGACACTG-GTGT-TAATTTA-TACTTCGGATTATTC
22934314 GATGATG-CACTGG
1 GATGA-GACACTGG
22934327 GTGCCAAACT
Statistics
Matches: 70, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
36 1 0.01
37 20 0.29
38 8 0.11
39 1 0.01
40 19 0.27
41 21 0.30
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (38 bp):
GATGAGACACTGGTGTTAATTTATACTTCGGATTATTC
Found at i:22937127 original size:96 final size:96
Alignment explanation
Indices: 22936963--22937156 Score: 275
Period size: 96 Copynumber: 2.0 Consensus size: 96
22936953 TATTATCTAT
* * * *
22936963 ATATATGTAATGAGTAACTAAGCTTTACTCGTATAGTATTCAATATGTTATCCAGTCTTTTGCAA
1 ATATATATAATGAGTAACTAAGCTTTACTCGTATAATATTCAATATGTTATCCAGTCTATTACAA
22937028 CAAAATGGGGG-CACCGCCTCACATTTCGATC
66 CAAAA-GGGGGACACCGCCTCACATTTCGATC
* *
22937059 ATATATATAATGAGTAACTAAGCTTTACTCTTATAATATTCAATATTTTATCCAGAT-TATTACA
1 ATATATATAATGAGTAACTAAGCTTTACTCGTATAATATTCAATATGTTATCCAG-TCTATTACA
* * *
22937123 ACAAAAGGGGGATATCGCCTTACATTTCGATC
65 ACAAAAGGGGGACACCGCCTCACATTTCGATC
22937155 AT
1 AT
22937157 CGCTTCATAC
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
95 5 0.06
96 81 0.93
97 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.35
Consensus pattern (96 bp):
ATATATATAATGAGTAACTAAGCTTTACTCGTATAATATTCAATATGTTATCCAGTCTATTACAA
CAAAAGGGGGACACCGCCTCACATTTCGATC
Found at i:22941905 original size:42 final size:42
Alignment explanation
Indices: 22941829--22942026 Score: 245
Period size: 42 Copynumber: 4.7 Consensus size: 42
22941819 GTGCTAAACA
* ** *
22941829 GAAACCCATAAGGGTTGAA-TGGAAGCTCGTAAGAGCTGAATG
1 GAAACCCATAAGGGTTAAACT-GAAGCTCAAAAGAGCTGAACG
* *** * *
22941871 AAAATTGATAAGGGTTAAATTGAAGCTTAAAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACG
* *
22941913 GAAACTCAGAAGGGTTAAACTGAAGCTCAAAAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACTGAAGCTC-AAAAGAGCTGAACG
22941956 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACG
* *
22941998 GAAATCCATAAGGGTTAAACTGAAACTCA
1 GAAACCCATAAGGGTTAAACTGAAGCTCA
22942027 TATGAGTTAA
Statistics
Matches: 135, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
42 94 0.70
43 41 0.30
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.18
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACG
Found at i:22942028 original size:21 final size:21
Alignment explanation
Indices: 22941913--22942028 Score: 81
Period size: 21 Copynumber: 5.5 Consensus size: 21
22941903 GAGCTGAACG
*
22941913 GAAACTCAGAAGGGTTAAACT
1 GAAACTCATAAGGGTTAAACT
* * * * * *
22941934 GAAGCTCAAAAAGAGCTGAACG
1 GAAACTC-ATAAGGGTTAAACT
*
22941956 GAAACCCATAAGGGTTAAACT
1 GAAACTCATAAGGGTTAAACT
* * * * * *
22941977 GAAGCTCAAAAGAGCTGAACG
1 GAAACTCATAAGGGTTAAACT
22941998 GAAA-TCCATAAGGGTTAAACT
1 GAAACT-CATAAGGGTTAAACT
22942019 GAAACTCATA
1 GAAACTCATA
22942029 TGAGTTAACA
Statistics
Matches: 66, Mismatches: 26, Indels: 6
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.02
21 50 0.76
22 15 0.23
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.16
Consensus pattern (21 bp):
GAAACTCATAAGGGTTAAACT
Found at i:22942338 original size:45 final size:46
Alignment explanation
Indices: 22942252--22942339 Score: 115
Period size: 45 Copynumber: 1.9 Consensus size: 46
22942242 ATTTCAATTT
* * * *
22942252 ATAATTTAACGATATTTCATTTTTTTTAACAATATGCTAAATATATA
1 ATAATTTAACAATATTTCA-TTTTTTCAAAAATATACTAAATATATA
*
22942299 ATAATTTAACAATATTTCA-TTTTTCAAAAATATATTAAATA
1 ATAATTTAACAATATTTCATTTTTTCAAAAATATACTAAATA
22942340 CGTAACATCA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
45 18 0.50
47 18 0.50
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.45
Consensus pattern (46 bp):
ATAATTTAACAATATTTCATTTTTTCAAAAATATACTAAATATATA
Found at i:22944154 original size:31 final size:32
Alignment explanation
Indices: 22944098--22944182 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 32
22944088 TCATATACTA
*
22944098 AATAAAATAATAAAATATCTCATTAAA-ATATT
1 AATAAAATAATAAAATATCTAATTAAATA-ATT
**
22944130 AATAAAATAAT-ATTTATCTAATTAAATAATT
1 AATAAAATAATAAAATATCTAATTAAATAATT
22944161 -ATAAAATATCATCAAAATATCT
1 AATAAAATA--AT-AAAATATCT
22944183 CTAATATCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
30 8 0.19
31 15 0.35
32 14 0.33
34 6 0.14
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (32 bp):
AATAAAATAATAAAATATCTAATTAAATAATT
Found at i:22949203 original size:3 final size:3
Alignment explanation
Indices: 22949195--22949225 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
22949185 CCTACGATTG
*
22949195 ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
22949226 GTTGCATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:22951955 original size:170 final size:169
Alignment explanation
Indices: 22951657--22952917 Score: 1801
Period size: 170 Copynumber: 7.4 Consensus size: 169
22951647 AAAATAAATG
*
22951657 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGCGACCCGGGTTCGATCCCCGG
1 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
* * * *
22951722 CAACGGCGATTATAAATTTTTTCCTATCAAAAGAAGTTTTTGGATTTCTGGTCAAATTCCAGATA
66 CAACGGCGATTATTAATTTTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGATA
*
22951787 TTGCATGCGTAAAATATTAGAAAACTACCGAAAAATAGCA
131 TTGCATG-GTAAAATATTAGAAAACTACCGAAAAATAACA
* * * *
22951827 CGTCGTTCTAGTATAGTGGTGAGTATTCCCGCCTGTCGCGCGGGTGACCCGGGTTCGATCCCTGG
1 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
* *
22951892 CAACGGCGATTATTAATATTTTCCTATCAAAAAAAGATTTTGGATTTCTGGACAAACTCCAGATA
66 CAACGGCGATTATTAATTTTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGATA
*
22951957 TTGCATGGGTAAAATGTTAGAAAACTACCGAAAAATAACA
131 TTGCAT-GGTAAAATATTAGAAAACTACCGAAAAATAACA
22951997 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
1 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
* * *
22952062 CAACGGCGAATT-TTAATTATTTTCCTATCATATAAAGTTTTTAGATTTCTGGACAAACTCCAGA
66 CAACGGCG-ATTATTAATT-TTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGA
* *
22952126 TATTGCGTGGATAAAATACTAGAAAACTACCG-AAAATCAACA
129 TATTGCATGG-TAAAATATTAGAAAACTACCGAAAAAT-AACA
22952168 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
1 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
** *
22952233 CAACGGCGATTATTAATTTTTTCCTATCAAAAACGGTTTTTGGTTTTCTGGACAAACTCCAGATA
66 CAACGGCGATTATTAATTTTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGATA
* * *
22952298 CTGCATGGCTAAAATGTTAGAAAACTACCGAAAACTAACA
131 TTGCATGG-TAAAATATTAGAAAACTACCGAAAAATAACA
22952338 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGAT-CCCGG
1 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
* * *
22952402 CAACGGCGATTGTTAAGTTTTTCCTATCAAAAAAAGTTTTTGGATTTTTGGACAAACTCCAGATA
66 CAACGGCGATTATTAATTTTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGATA
* * * **
22952467 TTGCATGGCTAAAATGTTAGAAAACTACGGAAAATTAAGG
131 TTGCATGG-TAAAATATTAGAAAACTACCGAAAAATAACA
* **
22952507 AGTC---GTAGTATAGTGGTGAATATTCCCGCCTGTCACGCGGGTGACCCGTTTTCGATCCCCGG
1 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
* *
22952569 CAACGGCGATTGTTAAGTTTTTTTCCTATCAAAAAAAGTTTTTGGATTTTTGGACAAACTCCAGA
66 CAACGGCGATTATTAA--TTTTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGA
* * *
22952634 TATTGCATGGGTAAAATATTAGAAAACAACTG-GAAATCAACA
129 TATTGCAT-GGTAAAATATTAGAAAACTACCGAAAAAT-AACA
* **
22952676 A---GTTGTAGTATAGTGGTAAGTATTCCCGTTTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
1 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
* * * *
22952738 GAACGGCGATTATTAGTGGTTTTCCTATCAAATAAAGTTTTTGGATTTCTGGACAAACTCCAGAT
66 CAACGGCGATTATTAAT-TTTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGAT
22952803 ATTGCATCGGTAAAATATTAGAAAACTACCG-AAAATCAACA
130 ATTGCAT-GGTAAAATATTAGAAAACTACCGAAAAAT-AACA
* * * * *
22952844 AGTTGTAGTA-TAGTGGTGGTGAGTAATCCCAG-CTGTCACGCGGGTGACCCGTGTTCGATCCCC
1 AGTCGTTGTAGTA-TAGTGGTGAGTATTCCC-GCCTGTCACGCGGGTGACCCGGGTTCGATCCCC
*
22952907 GGTAACGGCGA
64 GGCAACGGCGA
22952918 CTAACTTTTT
Statistics
Matches: 988, Mismatches: 82, Indels: 41
0.89 0.07 0.04
Matches are distributed among these distances:
166 49 0.05
167 22 0.02
168 85 0.09
169 243 0.25
170 372 0.38
171 216 0.22
172 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (169 bp):
AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
CAACGGCGATTATTAATTTTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGATA
TTGCATGGTAAAATATTAGAAAACTACCGAAAAATAACA
Found at i:22952283 original size:341 final size:339
Alignment explanation
Indices: 22951657--22952917 Score: 1837
Period size: 341 Copynumber: 3.7 Consensus size: 339
22951647 AAAATAAATG
*
22951657 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGCGACCCGGGTTCGATCCCCGG
1 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
* * * *
22951722 CAACGGCGATTATAAATTTTTTCCTATCAAAAGAAGTTTTTGGATTTCTGGTCAAATTCCAGATA
66 CAACGGCGATTATTAATTTTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGATA
* * *
22951787 TTGCATGCGTAAAATATTAGAAAACTACCGAAAAAT-AGCACGTCGTTCTAGTATAGTGGTGAGT
131 TTGCATG-GTAAAATATTAGAAAACTACCG-AAAATCAACAAGTCGTTGTAGTATAGTGGTGAGT
* * *
22951851 ATTCCCGCCTGTCGCGCGGGTGACCCGGGTTCGATCCCTGGCAACGGCGATTATTAATATTTTCC
194 ATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGGCAACGGCGATTATTAATTTTTTCC
* *
22951916 TATCAAAAAAAGATTTTGGATTTCTGGACAAACTCCAGATATTGCATGGGTAAAATGTTAGAAAA
259 TATCAAAAAAAGTTTTTGGTTTTCTGGACAAACTCCAGATATTGCATGGGTAAAATGTTAGAAAA
22951981 CTACCGAAAAATAACA
324 CTACCGAAAAATAACA
22951997 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
1 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
* * *
22952062 CAACGGCGAATT-TTAATTATTTTCCTATCATATAAAGTTTTTAGATTTCTGGACAAACTCCAGA
66 CAACGGCG-ATTATTAATT-TTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGA
* *
22952126 TATTGCGTGGATAAAATACTAGAAAACTACCGAAAATCAACAAGTCGTTGTAGTATAGTGGTGAG
129 TATTGCATGG-TAAAATATTAGAAAACTACCGAAAATCAACAAGTCGTTGTAGTATAGTGGTGAG
22952191 TATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGGCAACGGCGATTATTAATTTTTTC
193 TATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGGCAACGGCGATTATTAATTTTTTC
** * *
22952256 CTATCAAAAACGGTTTTTGGTTTTCTGGACAAACTCCAGATACTGCATGGCTAAAATGTTAGAAA
258 CTATCAAAAAAAGTTTTTGGTTTTCTGGACAAACTCCAGATATTGCATGGGTAAAATGTTAGAAA
*
22952321 ACTACCGAAAACTAACA
323 ACTACCGAAAAATAACA
22952338 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGAT-CCCGG
1 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
* * *
22952402 CAACGGCGATTGTTAAGTTTTTCCTATCAAAAAAAGTTTTTGGATTTTTGGACAAACTCCAGATA
66 CAACGGCGATTATTAATTTTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGATA
* * * ** *
22952467 TTGCATGGCTAAAATGTTAGAAAACTACGGAAAATTAAGGAGTC---GTAGTATAGTGGTGAATA
131 TTGCATGG-TAAAATATTAGAAAACTACCGAAAATCAACAAGTCGTTGTAGTATAGTGGTGAGTA
** *
22952529 TTCCCGCCTGTCACGCGGGTGACCCGTTTTCGATCCCCGGCAACGGCGATTGTTAAGTTTTTTTC
195 TTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGGCAACGGCGATTATTAA--TTTTTTC
*
22952594 CTATCAAAAAAAGTTTTTGGATTTT-TGGACAAACTCCAGATATTGCATGGGTAAAATATTAGAA
258 CTATCAAAAAAAGTTTTTGG-TTTTCTGGACAAACTCCAGATATTGCATGGGTAAAATGTTAGAA
* * *
22952658 AACAACTG-GAAATCAACA
322 AACTACCGAAAAAT-AACA
* **
22952676 A---GTTGTAGTATAGTGGTAAGTATTCCCGTTTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
1 AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
* * * *
22952738 GAACGGCGATTATTAGTGGTTTTCCTATCAAATAAAGTTTTTGGATTTCTGGACAAACTCCAGAT
66 CAACGGCGATTATTAAT-TTTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGAT
* * *
22952803 ATTGCATCGGTAAAATATTAGAAAACTACCGAAAATCAACAAGTTGTAGTA-TAGTGGTGGTGAG
130 ATTGCAT-GGTAAAATATTAGAAAACTACCGAAAATCAACAAGTCGTTGTAGTA-TAGTGGTGAG
* * *
22952867 TAATCCCAG-CTGTCACGCGGGTGACCCGTGTTCGATCCCCGGTAACGGCGA
193 TATTCCC-GCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGGCAACGGCGA
22952918 CTAACTTTTT
Statistics
Matches: 834, Mismatches: 70, Indels: 34
0.89 0.07 0.04
Matches are distributed among these distances:
335 52 0.06
336 88 0.11
337 83 0.10
338 74 0.09
339 88 0.11
340 158 0.19
341 291 0.35
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (339 bp):
AGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGG
CAACGGCGATTATTAATTTTTTCCTATCAAAAAAAGTTTTTGGATTTCTGGACAAACTCCAGATA
TTGCATGGTAAAATATTAGAAAACTACCGAAAATCAACAAGTCGTTGTAGTATAGTGGTGAGTAT
TCCCGCCTGTCACGCGGGTGACCCGGGTTCGATCCCCGGCAACGGCGATTATTAATTTTTTCCTA
TCAAAAAAAGTTTTTGGTTTTCTGGACAAACTCCAGATATTGCATGGGTAAAATGTTAGAAAACT
ACCGAAAAATAACA
Found at i:22960697 original size:100 final size:95
Alignment explanation
Indices: 22960513--22960709 Score: 304
Period size: 100 Copynumber: 2.0 Consensus size: 95
22960503 CGGGCAGTTG
*
22960513 CTGCTCTATCTACACAACCAAGAAAACTTAGTAAAGAAGTAAGTAGCAAATAAGGTAGCTACTCT
1 CTGCTCTATCTACACAACCAAGAAAACCTAGTAAAGAAGTAAGTAGCAAATAAGGTAGCTACTCT
22960578 TCCATGATTCTCTCTTGTTTAAACGTGTAA
66 TCCATGATTCTCTCTTGTTTAAACGTGTAA
* * * *
22960608 CTGCTCTATCTACACAACCAAGGAAACCTAGTAAAGAAGTAAGAAAAGTAGCAATTAAGTTGGCT
1 CTGCTCTATCTACACAACCAAGAAAACCTAGTAAAGAAGT-----AAGTAGCAAATAAGGTAGCT
22960673 ACTCTTCCATGATTCTCTCTTGTTTAAACGTGTAA
61 ACTCTTCCATGATTCTCTCTTGTTTAAACGTGTAA
22960708 CT
1 CT
22960710 TTGTTGTTGA
Statistics
Matches: 92, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
95 38 0.41
100 54 0.59
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.29
Consensus pattern (95 bp):
CTGCTCTATCTACACAACCAAGAAAACCTAGTAAAGAAGTAAGTAGCAAATAAGGTAGCTACTCT
TCCATGATTCTCTCTTGTTTAAACGTGTAA
Found at i:22964063 original size:48 final size:49
Alignment explanation
Indices: 22963991--22964086 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 49
22963981 CTCAGTGGTA
22963991 TTACCATAATTCAAATTATAACAATAATAAACATGTAATGCATAATTCT
1 TTACCATAATTCAAATTATAACAATAATAAACATGTAATGCATAATTCT
22964040 TTACCATAA-TCAAATTATAACAATAATAAACATGTAATGCATAATTC
1 TTACCATAATTCAAATTATAACAATAATAAACATGTAATGCATAATTC
22964087 GTATATACAA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 38 0.81
49 9 0.19
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (49 bp):
TTACCATAATTCAAATTATAACAATAATAAACATGTAATGCATAATTCT
Found at i:22965983 original size:20 final size:20
Alignment explanation
Indices: 22965955--22965995 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
22965945 GTAGTGCTGT
**
22965955 ATAGAGGCACTGAAGTGCAA
1 ATAGAGGCACCAAAGTGCAA
*
22965975 ATAGTGGCACCAAAGTGCAA
1 ATAGAGGCACCAAAGTGCAA
22965995 A
1 A
22965996 CCCGTATAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.17, G:0.27, T:0.15
Consensus pattern (20 bp):
ATAGAGGCACCAAAGTGCAA
Found at i:22975322 original size:26 final size:26
Alignment explanation
Indices: 22975286--22975385 Score: 130
Period size: 26 Copynumber: 3.8 Consensus size: 26
22975276 GGACTCACCA
22975286 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTACCGATATAT
*
22975312 CAGCTCTTATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTACCGATATAT
* * * *
22975338 CAACTCTTATGAACTTACCG-TTTAT
1 CAGCTCGTATGAGCTTACCGATATAT
*
22975363 CAGCTCAGAATGAGCTTACCGAT
1 CAGCTC-GTATGAGCTTACCGAT
22975386 CATGGCTCGA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
25 9 0.14
26 54 0.84
27 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (26 bp):
CAGCTCGTATGAGCTTACCGATATAT
Found at i:22975561 original size:20 final size:20
Alignment explanation
Indices: 22975532--22975584 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
22975522 CTATGTAATT
22975532 ATATGGATAAATTACTGTTG
1 ATATGGATAAATTACTGTTG
* *
22975552 ATATGTATAAGTTACTGTTG
1 ATATGGATAAATTACTGTTG
*
22975572 ATACGGATAAATT
1 ATATGGATAAATT
22975585 TCTGCTATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.40
Consensus pattern (20 bp):
ATATGGATAAATTACTGTTG
Found at i:22976318 original size:17 final size:17
Alignment explanation
Indices: 22976277--22976325 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 17
22976267 CTCATTTTGC
22976277 GGTGAATTT-GATAAAT
1 GGTGAATTTGGATAAAT
*
22976293 GGT-ATTTTGGCATAAA-
1 GGTGAATTTGG-ATAAAT
22976309 GGTGAATTT-GATAAAT
1 GGTGAATTTGGATAAAT
22976325 G
1 G
22976326 ATATTTTGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
15 9 0.33
16 9 0.33
17 9 0.33
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.37
Consensus pattern (17 bp):
GGTGAATTTGGATAAAT
Found at i:22976318 original size:32 final size:32
Alignment explanation
Indices: 22976277--22976340 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
22976267 CTCATTTTGC
*
22976277 GGTGAATTTGATAAATGGTATTTTGGCATAAA
1 GGTGAATTTGATAAATGATATTTTGGCATAAA
22976309 GGTGAATTTGATAAATGATATTTTGGCATAAA
1 GGTGAATTTGATAAATGATATTTTGGCATAAA
22976341 TGAGACATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (32 bp):
GGTGAATTTGATAAATGATATTTTGGCATAAA
Found at i:22976341 original size:17 final size:17
Alignment explanation
Indices: 22976287--22976343 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
22976277 GGTGAATTTG
*
22976287 ATAAATGGTATTTTGGC
1 ATAAATGATATTTTGGC
22976304 ATAAAGGTGA-A-TTT-G-
1 ATAAA--TGATATTTTGGC
22976319 ATAAATGATATTTTGGC
1 ATAAATGATATTTTGGC
22976336 ATAAATGA
1 ATAAATGA
22976344 GACATATGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
13 3 0.09
14 1 0.03
15 8 0.24
16 2 0.06
17 16 0.48
18 1 0.03
19 2 0.06
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.37
Consensus pattern (17 bp):
ATAAATGATATTTTGGC
Found at i:22979135 original size:44 final size:42
Alignment explanation
Indices: 22979050--22979137 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 42
22979040 TTTGAAATAA
22979050 AATAAAAGTTGTGATAATTACATTTAAAAATAATTACAATTT
1 AATAAAAGTTGTGATAATTACATTTAAAAATAATTACAATTT
* *
22979092 AATAGAAA-TTGTGATAATTACACATTTAAAAATATTTAGAATTT
1 AATA-AAAGTTGTGATAATT--ACATTTAAAAATAATTACAATTT
22979136 AA
1 AA
22979138 ATTACAATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 15 0.37
43 3 0.07
44 23 0.56
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.38
Consensus pattern (42 bp):
AATAAAAGTTGTGATAATTACATTTAAAAATAATTACAATTT
Found at i:22987320 original size:8 final size:8
Alignment explanation
Indices: 22987308--22987339 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
22987298 AAAAAATTCA
22987308 AAAAAGTAT
1 AAAAA-TAT
22987317 AAAAATAT
1 AAAAATAT
22987325 AAAAATAT
1 AAAAATAT
22987333 AAAAATA
1 AAAAATA
22987340 ATTTAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.78
9 5 0.22
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (8 bp):
AAAAATAT
Found at i:22987320 original size:10 final size:9
Alignment explanation
Indices: 22987292--22987337 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
22987282 AATATTTTTC
22987292 AAATATAAA
1 AAATATAAA
22987301 AAAT-TCAAA
1 AAATAT-AAA
22987310 AAAGTAT-AA
1 AAA-TATAAA
22987319 AAATAT-AA
1 AAATATAAA
22987327 AAATATAAA
1 AAATATAAA
22987336 AA
1 AA
22987338 TAATTTAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
8 12 0.36
9 19 0.58
10 1 0.03
11 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (9 bp):
AAATATAAA
Found at i:22987322 original size:18 final size:17
Alignment explanation
Indices: 22987292--22987338 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 17
22987282 AATATTTTTC
22987292 AAATATAAAAAATTCA-AA
1 AAATAT-AAAAATT-ATAA
22987310 AAAGTATAAAAA-TATAA
1 AAA-TATAAAAATTATAA
22987327 AAATATAAAAAT
1 AAATATAAAAAT
22987339 AATTTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 9 0.35
17 6 0.23
18 8 0.31
19 3 0.12
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (17 bp):
AAATATAAAAATTATAA
Found at i:23003553 original size:24 final size:23
Alignment explanation
Indices: 23003522--23003567 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
23003512 GGTTAATGAC
23003522 TTTAGTTT-CAACTATATATTTGA
1 TTTAGTTTGC-ACTATATATTTGA
*
23003545 TTTATGTTTGCATTATATATTTG
1 TTTA-GTTTGCACTATATATTTG
23003568 GCTTAGTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 15 0.75
25 1 0.05
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.57
Consensus pattern (23 bp):
TTTAGTTTGCACTATATATTTGA
Done.