Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 68 of 145
Found at i:22575992 original size:23 final size:23
Alignment explanation
Indices: 22575966--22576011 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
22575956 ACTACTTGTA
22575966 TCCATTCTTCAACTCTTAAATAG
1 TCCATTCTTCAACTCTTAAATAG
*
22575989 TCCATTCTTCAATTCTTAAATAG
1 TCCATTCTTCAACTCTTAAATAG
22576012 AATGATAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.24, G:0.04, T:0.41
Consensus pattern (23 bp):
TCCATTCTTCAACTCTTAAATAG
Found at i:22578646 original size:225 final size:224
Alignment explanation
Indices: 22578259--22578713 Score: 745
Period size: 225 Copynumber: 2.0 Consensus size: 224
22578249 TAGGTTAGTG
**
22578259 AGAATTTTCTAACGGTAGTAACTAAATTACATTTATTTTATTTGAGGGATCAAAATGAAAGGGCT
1 AGAATTTTCTAACGGTAGTAACTAAATTACATTTATTTTATTTGAGGGATCAAAATGAAAGCACT
*
22578324 TAAAAAGTTGAGTAATCAACTAGGTAGTTTATCTTAATTTATTTTATTTAATTTTATAGCAATAT
66 TAAAAAGTTGAGTAACCAACTAGGTAGTTTATCTTAATTTATTTTATTTAATTTTATAGCAATAT
* * *
22578389 AGGAGGACATGGGTTCGATTGTACTGAATCTCATTATCCTCTTA-TT-TA-TGGAGAGGGACTAT
131 AAGAGGACATGGGTTCGAGTGTACTGAATCTCATTATCCTCTTATTTATAGTGGAGAGAGACTAT
22578451 GTATAGTTTTAAACATTGTCTTCTCAAAA
196 GTATAGTTTTAAACATTGTCTTCTCAAAA
* * *
22578480 AGAATTTTCTAACGGTAGTGACTAAATTACAAGTTTTTTTTTTATTTGAGGGATTAAAATGAAAG
1 AGAATTTTCTAACGGTAGTAACTAAATTAC-A---TTTATTTTATTTGAGGGATCAAAATGAAAG
*
22578545 CACTTAAAAAGTTGGGTAACCAACTAGGTAGTTTATCTTAATTTATTTTATTTAATTTTATAGCA
62 CACTTAAAAAGTTGAGTAACCAACTAGGTAGTTTATCTTAATTTATTTTATTTAATTTTATAGCA
22578610 ATATAAGAGGACATGGGTTCGAGTGTACTGAATCTCATTATCCTCTTATTTATAGGTTGGAGAGA
127 ATATAAGAGGACATGGGTTCGAGTGTACTGAATCTCATTATCCTCTTATTTATA-G-TGGAGAGA
22578675 GACTATGTATAGTTTTAAACATTGTCTTCTCAAAA
190 GACTATGTATAGTTTTAAACATTGTCTTCTCAAAA
22578710 AGAA
1 AGAA
22578714 CATATATGAA
Statistics
Matches: 215, Mismatches: 10, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
221 29 0.13
222 1 0.00
225 135 0.63
226 2 0.01
227 2 0.01
230 46 0.21
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (224 bp):
AGAATTTTCTAACGGTAGTAACTAAATTACATTTATTTTATTTGAGGGATCAAAATGAAAGCACT
TAAAAAGTTGAGTAACCAACTAGGTAGTTTATCTTAATTTATTTTATTTAATTTTATAGCAATAT
AAGAGGACATGGGTTCGAGTGTACTGAATCTCATTATCCTCTTATTTATAGTGGAGAGAGACTAT
GTATAGTTTTAAACATTGTCTTCTCAAAA
Found at i:22579175 original size:13 final size:13
Alignment explanation
Indices: 22579157--22579192 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
22579147 CTACAGTATG
22579157 ATAAAAATTTCGT
1 ATAAAAATTTCGT
22579170 ATAAAAATTTCGT
1 ATAAAAATTTCGT
22579183 -TAAGAAATTT
1 ATAA-AAATTT
22579193 TACCGTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 3 0.14
13 19 0.86
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (13 bp):
ATAAAAATTTCGT
Found at i:22579966 original size:16 final size:17
Alignment explanation
Indices: 22579945--22579978 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
22579935 GTTCCATGTT
22579945 GAATTAAATTG-AATGA
1 GAATTAAATTGAAATGA
*
22579961 GAATTATATTGAAATGA
1 GAATTAAATTGAAATGA
22579978 G
1 G
22579979 TTAAATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (17 bp):
GAATTAAATTGAAATGA
Found at i:22580361 original size:25 final size:25
Alignment explanation
Indices: 22580289--22580361 Score: 119
Period size: 25 Copynumber: 2.9 Consensus size: 25
22580279 GACACACCAT
*
22580289 AGCTCGCATGAGCTTCCCGTTACTC
1 AGCTCGCATGAGCTTCCCGTTATTC
*
22580314 AGCTCGCATAAGCTTCCCGTTATTC
1 AGCTCGCATGAGCTTCCCGTTATTC
*
22580339 AGCTCGCATGAGCTTCCCATTAT
1 AGCTCGCATGAGCTTCCCGTTAT
22580362 ACAACTCGGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.19, C:0.33, G:0.18, T:0.30
Consensus pattern (25 bp):
AGCTCGCATGAGCTTCCCGTTATTC
Found at i:22580376 original size:25 final size:25
Alignment explanation
Indices: 22580291--22580378 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 25
22580281 CACACCATAG
* * *
22580291 CTCGCATGAGCTTCCCGTTACT-CAG
1 CTCGCAGGAGCTTCCCATTA-TACAA
** * * *
22580316 CTCGCATAAGCTTCCCGTTATTCAG
1 CTCGCAGGAGCTTCCCATTATACAA
*
22580341 CTCGCATGAGCTTCCCATTATACAA
1 CTCGCAGGAGCTTCCCATTATACAA
*
22580366 CTCGGAGGAGCTT
1 CTCGCAGGAGCTT
22580379 ACTATTTACA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
24 1 0.02
25 54 0.98
ACGTcount: A:0.20, C:0.32, G:0.19, T:0.28
Consensus pattern (25 bp):
CTCGCAGGAGCTTCCCATTATACAA
Found at i:22607512 original size:3 final size:3
Alignment explanation
Indices: 22607504--22607554 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
22607494 TCAGAAACAC
22607504 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
22607552 ATT
1 ATT
22607555 CAGTACTAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:22611383 original size:29 final size:29
Alignment explanation
Indices: 22611333--22611414 Score: 105
Period size: 29 Copynumber: 2.8 Consensus size: 29
22611323 GGTGCCTTCG
* *
22611333 AACCAATAGCT-TAGATATCACTTGGTTCA
1 AACCAACAGCTCT-GATACCACTTGGTTCA
*
22611362 AACCAACAGCTC-GAATACCACTTGGTTCG
1 AACCAACAGCTCTG-ATACCACTTGGTTCA
22611391 AACCAACAGCTCTGATACCACTTG
1 AACCAACAGCTCTGATACCACTTG
22611415 TTACGGGACT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
28 1 0.02
29 45 0.96
30 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCAACAGCTCTGATACCACTTGGTTCA
Found at i:22613256 original size:7 final size:7
Alignment explanation
Indices: 22613244--22613268 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22613234 AAGGCCGAAA
22613244 TTAAATT
1 TTAAATT
22613251 TTAAATT
1 TTAAATT
22613258 TTAAATT
1 TTAAATT
22613265 TTAA
1 TTAA
22613269 TAGTTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTAAATT
Found at i:22614162 original size:20 final size:20
Alignment explanation
Indices: 22614137--22614176 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22614127 CTTAGATGAG
*
22614137 TTGTAAGATATTTTGTTATT
1 TTGTAAGATATTTTATTATT
*
22614157 TTGTAAGGTATTTTATTATT
1 TTGTAAGATATTTTATTATT
22614177 AACTTTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (20 bp):
TTGTAAGATATTTTATTATT
Found at i:22621314 original size:2 final size:2
Alignment explanation
Indices: 22621307--22621333 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22621297 AGAATTCAGA
22621307 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
22621334 ATTTTCAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:22630149 original size:13 final size:13
Alignment explanation
Indices: 22630131--22630161 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
22630121 CACATGACTA
22630131 ATTTCATATAGCC
1 ATTTCATATAGCC
*
22630144 ATTTCATATATCC
1 ATTTCATATAGCC
22630157 ATTTC
1 ATTTC
22630162 CATTTATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.03, T:0.45
Consensus pattern (13 bp):
ATTTCATATAGCC
Found at i:22633489 original size:25 final size:25
Alignment explanation
Indices: 22633423--22633502 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
22633413 GCTATATAAT
** *
22633423 GGGAAGCTCATAAGAGCCA-ATAAC
1 GGGAAGCTCCGAAGAGCCATATATC
* *
22633447 AGGTAGCTCCGAAGAGCCAT-TAATC
1 GGGAAGCTCCGAAGAGCCATAT-ATC
* *
22633472 GGGAAGCTCCGGATAGCCATATATC
1 GGGAAGCTCCGAAGAGCCATATATC
22633497 GGGAAG
1 GGGAAG
22633503 TTCAAGCGAG
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
24 16 0.36
25 27 0.61
26 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.29, T:0.16
Consensus pattern (25 bp):
GGGAAGCTCCGAAGAGCCATATATC
Found at i:22633691 original size:25 final size:25
Alignment explanation
Indices: 22633663--22633711 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
22633653 GGAAGGTCGC
22633663 AAGAACCATATAACGAAAAGCTCGT
1 AAGAACCATATAACGAAAAGCTCGT
**
22633688 AAGAACCATATAACGGGAAGCTCG
1 AAGAACCATATAACGAAAAGCTCG
22633712 AGAGGGCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.14
Consensus pattern (25 bp):
AAGAACCATATAACGAAAAGCTCGT
Found at i:22635375 original size:16 final size:16
Alignment explanation
Indices: 22635335--22635375 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
22635325 AGTTTTAGTT
22635335 TGACCCAATCTGTTAA
1 TGACCCAATCTGTTAA
* *
22635351 TGGCTCAATCTGTTAA
1 TGACCCAATCTGTTAA
22635367 TGACCCAAT
1 TGACCCAAT
22635376 TAATAAGCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (16 bp):
TGACCCAATCTGTTAA
Found at i:22635435 original size:23 final size:22
Alignment explanation
Indices: 22635398--22635473 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 22
22635388 TCAAGTCAAG
*
22635398 TTGTCTTCCACAATTTTAGGGAT
1 TTGT-TTCCACAATTTTAGGAAT
* * *
22635421 TTGTTTGGCTA-AATTGTAGGTAT
1 TTGTTT--CCACAATTTTAGGAAT
22635444 TTGTCTTCCACAATTTTAGGAAT
1 TTGT-TTCCACAATTTTAGGAAT
22635467 TTGTTTC
1 TTGTTTC
22635474 TCTTTTATCC
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
22 7 0.16
23 32 0.74
24 4 0.09
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.47
Consensus pattern (22 bp):
TTGTTTCCACAATTTTAGGAAT
Found at i:22637983 original size:27 final size:27
Alignment explanation
Indices: 22637928--22638002 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 27
22637918 AACATAGAAG
*
22637928 GTCTGCCAGGATAATAAACACGAGATA
1 GTCTGCCAGGACAATAAACACGAGATA
* * *
22637955 GTTTGCCAGGACACTAAACAC-ATGGTA
1 GTCTGCCAGGACAATAAACACGA-GATA
* * *
22637982 GTCTGCTATGACAGTAAACAC
1 GTCTGCCAGGACAATAAACAC
22638003 TGGGTGAAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.03
27 38 0.97
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (27 bp):
GTCTGCCAGGACAATAAACACGAGATA
Found at i:22645563 original size:34 final size:34
Alignment explanation
Indices: 22645525--22645590 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
22645515 CAGTAAAATG
*
22645525 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTAC-AGAAAATATTTTAC
*
22645559 TTTTCTGTAAAATGATTTACAGAAAATATTTT
1 TTTTCCGTAAAATGATTTACAGAAAATATTTT
22645591 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (34 bp):
TTTTCCGTAAAATGATTTACAGAAAATATTTTAC
Found at i:22654038 original size:16 final size:16
Alignment explanation
Indices: 22654013--22654058 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
22654003 CGCTGTTATG
*
22654013 GAATAGAGTTGTAATA
1 GAATAAAGTTGTAATA
*
22654029 GAATAAAGTT-TAATG
1 GAATAAAGTTGTAATA
22654044 GAATAAAGTTGTAAT
1 GAATAAAGTTGTAAT
22654059 CAGTAATTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.33
Consensus pattern (16 bp):
GAATAAAGTTGTAATA
Found at i:22654047 original size:15 final size:16
Alignment explanation
Indices: 22654010--22654058 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
22654000 GTTCGCTGTT
*
22654010 ATGGAATAGAGTTGTA
1 ATGGAATAAAGTTGTA
*
22654026 ATAGAATAAAGTT-TA
1 ATGGAATAAAGTTGTA
22654041 ATGGAATAAAGTTGTA
1 ATGGAATAAAGTTGTA
22654057 AT
1 AT
22654059 CAGTAATTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 14 0.48
16 15 0.52
ACGTcount: A:0.45, C:0.00, G:0.22, T:0.33
Consensus pattern (16 bp):
ATGGAATAAAGTTGTA
Found at i:22674620 original size:22 final size:22
Alignment explanation
Indices: 22674568--22674637 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
22674558 TGGACATGTC
* *
22674568 ACCACTAATTTATAGATAAACT
1 ACCACTGATTTGTAGATAAACT
** *
22674590 GTCATTGATTTGTAGATAAACT
1 ACCACTGATTTGTAGATAAACT
* *
22674612 ACCACTGATTTGCAAATAAACT
1 ACCACTGATTTGTAGATAAACT
22674634 ACCA
1 ACCA
22674638 TTCATAAAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (22 bp):
ACCACTGATTTGTAGATAAACT
Found at i:22677867 original size:20 final size:20
Alignment explanation
Indices: 22677844--22677882 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22677834 TTTGGAGAAA
*
22677844 AGAAAGAATGATGAATGATG
1 AGAAAGAATGAGGAATGATG
*
22677864 AGAATGAATGAGGAATGAT
1 AGAAAGAATGAGGAATGAT
22677883 TGAGGGATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.31, T:0.21
Consensus pattern (20 bp):
AGAAAGAATGAGGAATGATG
Found at i:22685691 original size:46 final size:46
Alignment explanation
Indices: 22685624--22685717 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
22685614 AAAAGGTCCT
*
22685624 TAGTCAAGTATTATTGTTGGATACGACAACAATAATGCATTAAGAC
1 TAGTCAAGTATTATAGTTGGATACGACAACAATAATGCATTAAGAC
*
22685670 TAGTCAAGTATTATAGTTGGATACGACAATAATAATGCATTAAGAC
1 TAGTCAAGTATTATAGTTGGATACGACAACAATAATGCATTAAGAC
22685716 TA
1 TA
22685718 ACATGTAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (46 bp):
TAGTCAAGTATTATAGTTGGATACGACAACAATAATGCATTAAGAC
Found at i:22688919 original size:24 final size:23
Alignment explanation
Indices: 22688881--22688933 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
22688871 GGTACTTCCC
*
22688881 TCATATTTTAAATATGTTTATTTA
1 TCATATTTTAAATAT-TTTATTAA
**
22688905 TCATATTTTCCATATTTTATTAA
1 TCATATTTTAAATATTTTATTAA
22688928 T-ATATT
1 TCATATT
22688934 AAACAATTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 5 0.19
23 8 0.31
24 13 0.50
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (23 bp):
TCATATTTTAAATATTTTATTAA
Found at i:22701812 original size:20 final size:20
Alignment explanation
Indices: 22701701--22701834 Score: 178
Period size: 20 Copynumber: 6.7 Consensus size: 20
22701691 AAGTGTAACA
*
22701701 GAGGCACCGAAGTGCGAACG
1 GAGGCACCGAAGTGCAAACG
*
22701721 GAGGCACCGAAGTGCGAACG
1 GAGGCACCGAAGTGCAAACG
22701741 GAGGCACCGAAGTGCAAACG
1 GAGGCACCGAAGTGCAAACG
*
22701761 GAGGCACCGAAGTGGAAACG
1 GAGGCACCGAAGTGCAAACG
*
22701781 GAGGCACCGAAGTGCAAACA
1 GAGGCACCGAAGTGCAAACG
** * *
22701801 GAGGCATTGAAGAGCAAATG
1 GAGGCACCGAAGTGCAAACG
* *
22701821 AAGGCACTGAAGTG
1 GAGGCACCGAAGTG
22701835 AAAAATCTTA
Statistics
Matches: 102, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 102 1.00
ACGTcount: A:0.35, C:0.21, G:0.37, T:0.07
Consensus pattern (20 bp):
GAGGCACCGAAGTGCAAACG
Found at i:22701869 original size:21 final size:21
Alignment explanation
Indices: 22701843--22701907 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
22701833 TGAAAAATCT
*
22701843 TACAAGTGCACGTTCAAACCC
1 TACAAGCGCACGTTCAAACCC
*
22701864 TACAAGCACACGTTCAAACCC
1 TACAAGCGCACGTTCAAACCC
*
22701885 TACAAGCGCACATTCAAACCC
1 TACAAGCGCACGTTCAAACCC
22701906 TA
1 TA
22701908 TTGGCATGCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.37, C:0.35, G:0.11, T:0.17
Consensus pattern (21 bp):
TACAAGCGCACGTTCAAACCC
Found at i:22713738 original size:86 final size:86
Alignment explanation
Indices: 22713589--22713754 Score: 305
Period size: 86 Copynumber: 1.9 Consensus size: 86
22713579 ATTCGTTGTG
* *
22713589 TATTTTGGGAATTTAGAGGTATCCTAAACCCCTCCTCTAAATTCCAAGTGGAAGTGTTCTTTTAC
1 TATTTTAGGAATTTAGAGGTATCCTAAACCCCTCCTCTAAATTCCAAGTGGAAGTGTTATTTTAC
22713654 CTATGCTAAATATGTGATAAA
66 CTATGCTAAATATGTGATAAA
*
22713675 TATTTTAGGAATTTAGAGGTATCCTAAACCCCTCCTCTAAATTCCAAGTGTAAGTGTTATTTTAC
1 TATTTTAGGAATTTAGAGGTATCCTAAACCCCTCCTCTAAATTCCAAGTGGAAGTGTTATTTTAC
22713740 CTATGCTAAATATGT
66 CTATGCTAAATATGT
22713755 TTGTGAATTC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 77 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (86 bp):
TATTTTAGGAATTTAGAGGTATCCTAAACCCCTCCTCTAAATTCCAAGTGGAAGTGTTATTTTAC
CTATGCTAAATATGTGATAAA
Found at i:22715040 original size:17 final size:17
Alignment explanation
Indices: 22715018--22715060 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
22715008 CTGTCACATG
*
22715018 AATTAAATTAATTAT-TC
1 AATTAAATTAATT-TGAC
*
22715035 AATTAATTTAATTTGAC
1 AATTAAATTAATTTGAC
22715052 AATTAAATT
1 AATTAAATT
22715061 TTAAACGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 1 0.05
17 21 0.95
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (17 bp):
AATTAAATTAATTTGAC
Found at i:22716654 original size:20 final size:20
Alignment explanation
Indices: 22716631--22716693 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
22716621 TGGGCCTTCA
*
22716631 TGGCATTCTATTAGCCTTTG
1 TGGCATTATATTAGCCTTTG
* * * *
22716651 TGGCATTTTGTTAGTCGTTG
1 TGGCATTATATTAGCCTTTG
22716671 TGGCATTATATT-GCCTTTG
1 TGGCATTATATTAGCCTTTG
22716690 TGGC
1 TGGC
22716694 GTACTTAGTA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
19 9 0.26
20 26 0.74
ACGTcount: A:0.13, C:0.16, G:0.25, T:0.46
Consensus pattern (20 bp):
TGGCATTATATTAGCCTTTG
Found at i:22728186 original size:29 final size:29
Alignment explanation
Indices: 22728153--22728309 Score: 131
Period size: 29 Copynumber: 5.4 Consensus size: 29
22728143 GTCGTAACAG
** *
22728153 TCCCTTTTCATATTCGATGGCCGAAACCA
1 TCCCTTTTCATATTCGATGGTTGACACCA
* * *
22728182 TCCCTTTTCATTAATCAATGGTTGTCACCA
1 TCCCTTTTCA-TATTCGATGGTTGACACCA
* *
22728212 TCCCTTTTTC-TATTTGATGGTTGTCACCA
1 TCCC-TTTTCATATTCGATGGTTGACACCA
* * * * *
22728241 TCCCGTTTCATAATCGATAGCTGA-AGCTA
1 TCCCTTTTCATATTCGATGGTTGACA-CCA
*
22728270 TCCCTTTTCATATTCGATGG-TCATCACCA
1 TCCCTTTTCATATTCGATGGTTGA-CACCA
22728299 TCCCTTTTCAT
1 TCCCTTTTCAT
22728310 TAATCAATGA
Statistics
Matches: 101, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
28 7 0.07
29 71 0.70
30 18 0.18
31 5 0.05
ACGTcount: A:0.21, C:0.28, G:0.12, T:0.39
Consensus pattern (29 bp):
TCCCTTTTCATATTCGATGGTTGACACCA
Found at i:22728289 original size:58 final size:59
Alignment explanation
Indices: 22728153--22728317 Score: 183
Period size: 58 Copynumber: 2.8 Consensus size: 59
22728143 GTCGTAACAG
* ** * * *
22728153 TCCCTTTTCATATTCGATGGCCGAAACCATCCCTTTTCATTAATCAATGGTTGTCACCA
1 TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATTAATCAATAGCTGTAACCA
* * * * *
22728212 TCCCTTTTTC-TATTTGATGGTTGTCACCATCCCGTTTCA-TAATCGATAGCTG-AAGCTA
1 TCCC-TTTTCATATTCGATGGTCGTCACCATCCCTTTTCATTAATCAATAGCTGTAA-CCA
*
22728270 TCCCTTTTCATATTCGATGGTCATCACCATCCCTTTTCATTAATCAAT
1 TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATTAATCAAT
22728318 GATTACCGAT
Statistics
Matches: 86, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
57 6 0.07
58 41 0.48
59 34 0.40
60 5 0.06
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (59 bp):
TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATTAATCAATAGCTGTAACCA
Found at i:22734204 original size:33 final size:33
Alignment explanation
Indices: 22734167--22734232 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
22734157 AGCATCCTAG
22734167 ATCCTCTTATACTCACTATTGAGGTAACCTATC
1 ATCCTCTTATACTCACTATTGAGGTAACCTATC
*
22734200 ATCCTCTTATACTTACTATTGAGGTAACCTATC
1 ATCCTCTTATACTCACTATTGAGGTAACCTATC
22734233 GCCCACCTCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.26, G:0.09, T:0.38
Consensus pattern (33 bp):
ATCCTCTTATACTCACTATTGAGGTAACCTATC
Found at i:22741876 original size:13 final size:13
Alignment explanation
Indices: 22741858--22741885 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
22741848 AACATCACAT
22741858 GTTTTATGTAAAA
1 GTTTTATGTAAAA
22741871 GTTTTATGTAAAA
1 GTTTTATGTAAAA
22741884 GT
1 GT
22741886 GAGAGTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (13 bp):
GTTTTATGTAAAA
Found at i:22756705 original size:33 final size:33
Alignment explanation
Indices: 22756650--22756730 Score: 81
Period size: 33 Copynumber: 2.5 Consensus size: 33
22756640 TAGTCCAACT
* ** *
22756650 ATGGTCTTACACATGCATTGCCATGGCCCTGCC
1 ATGGTCTTACACATGCAGTGCCATAACCCAGCC
** * *
22756683 ATGGTCTTACATTTGTAGTGCCATAACCCAGCT
1 ATGGTCTTACACATGCAGTGCCATAACCCAGCC
*
22756716 ATGGTCTTATACATG
1 ATGGTCTTACACATG
22756731 TATTTATACT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (33 bp):
ATGGTCTTACACATGCAGTGCCATAACCCAGCC
Found at i:22757274 original size:38 final size:39
Alignment explanation
Indices: 22757232--22757341 Score: 116
Period size: 38 Copynumber: 2.8 Consensus size: 39
22757222 TCTGATAGTT
* *
22757232 CGAAGCAAAGTTGACACCCAGTGTCTCATCG-GCCTAGC
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGC
* * * *
22757270 CGAAGTAAAG-TGATACCCAGTATCTCATCGAATCTATC
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGC
* *
22757308 TGAAGTAAAATAGTGACACCCAGTGTCTCATCGA
1 CGAAGTAAAGT--TGACACCCAGTGTCTCATCGA
22757342 CTCGAGGTCG
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
37 18 0.31
38 21 0.36
41 19 0.33
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (39 bp):
CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:22766122 original size:16 final size:16
Alignment explanation
Indices: 22766069--22766124 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 16
22766059 TACATAATAG
*
22766069 TCCATTCCAA-TGATA
1 TCCATTTCAATTGATA
* * *
22766084 TCCTTTTCATTTGAAA
1 TCCATTTCAATTGATA
22766100 T-CATTTCAATTGATA
1 TCCATTTCAATTGATA
22766115 TCCATTTCAA
1 TCCATTTCAA
22766125 CCTTTTCATT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
15 19 0.59
16 13 0.41
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.43
Consensus pattern (16 bp):
TCCATTTCAATTGATA
Found at i:22768832 original size:27 final size:28
Alignment explanation
Indices: 22768802--22768857 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
22768792 ACTCAACTCT
22768802 TGTTCAAACAACCCATTTAGACAA-ACC
1 TGTTCAAACAACCCATTTAGACAAGACC
* * *
22768829 TGTTTAAACAATCTATTTAGACAAGACC
1 TGTTCAAACAACCCATTTAGACAAGACC
22768857 T
1 T
22768858 TTGAGACAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (28 bp):
TGTTCAAACAACCCATTTAGACAAGACC
Found at i:22770440 original size:16 final size:17
Alignment explanation
Indices: 22770419--22770455 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
22770409 AAGGGGATGA
22770419 AAATAAATTT-TTAATT
1 AAATAAATTTATTAATT
22770435 AAATAAATTTGATTAATT
1 AAATAAATTT-ATTAATT
22770453 AAA
1 AAA
22770456 ATTTTTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
18 9 0.47
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATAAATTTATTAATT
Found at i:22776883 original size:13 final size:13
Alignment explanation
Indices: 22776852--22776885 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
22776842 TTTGAATTTC
22776852 AATTT-ATTTAAT
1 AATTTAATTTAAT
22776864 AATTTTAATTTAAT
1 AA-TTTAATTTAAT
22776878 AATTTAAT
1 AATTTAAT
22776886 CCAAGGAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 9 0.45
14 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTTAATTTAAT
Found at i:22778582 original size:23 final size:23
Alignment explanation
Indices: 22778554--22778603 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
22778544 AAGTATAAGT
22778554 ATATAATTAGTTATATATAACGC
1 ATATAATTAGTTATATATAACGC
* *
22778577 ATATAATTGGTTATATATAATGC
1 ATATAATTAGTTATATATAACGC
22778600 ATAT
1 ATAT
22778604 TTTCTTTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (23 bp):
ATATAATTAGTTATATATAACGC
Found at i:22778648 original size:14 final size:14
Alignment explanation
Indices: 22778612--22778669 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
22778602 ATTTTCTTTC
22778612 TATATTATTATCTTA
1 TATATTATTAT-TTA
*
22778627 T-TAATATTATTTA
1 TATATTATTATTTA
22778640 TATATTATTA---A
1 TATATTATTATTTA
22778651 TATATT-TTAATTTA
1 TATATTATT-ATTTA
22778665 TATAT
1 TATAT
22778670 ATTTAAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
10 2 0.06
11 8 0.22
13 4 0.11
14 21 0.58
15 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
TATATTATTATTTA
Found at i:22778680 original size:15 final size:14
Alignment explanation
Indices: 22778650--22778690 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
22778640 TATATTATTA
*
22778650 ATATATTTTAATTT
1 ATATATTTTAAATT
22778664 ATATATATTTAAATT
1 ATATAT-TTTAAATT
22778679 ATATA-TTTAAAT
1 ATATATTTTAAAT
22778691 GATAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 7 0.28
14 6 0.24
15 12 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATATATTTTAAATT
Found at i:22778686 original size:13 final size:13
Alignment explanation
Indices: 22778665--22778690 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22778655 TTTTAATTTA
22778665 TATATATTTAAAT
1 TATATATTTAAAT
22778678 TATATATTTAAAT
1 TATATATTTAAAT
22778691 GATAAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATTTAAAT
Found at i:22778716 original size:15 final size:15
Alignment explanation
Indices: 22778692--22778729 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
22778682 TATTTAAATG
*
22778692 ATAAATAATAATAAA
1 ATAAACAATAATAAA
22778707 ATAAACAATAATAAA
1 ATAAACAATAATAAA
22778722 ATAAACAA
1 ATAAACAA
22778730 ACCAAATCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (15 bp):
ATAAACAATAATAAA
Found at i:22778883 original size:21 final size:21
Alignment explanation
Indices: 22778843--22778881 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
22778833 AAATCATGGA
22778843 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCGACTCTTTCT
22778864 TAAATCCAAGCGA-TCTTT
1 TAAATCCAAGCGACTCTTT
22778882 TCGTAGGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAATCCAAGCGACTCTTTCT
Found at i:22781415 original size:12 final size:12
Alignment explanation
Indices: 22781398--22781422 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22781388 ATTTTATAAC
22781398 ATAAATATTGTT
1 ATAAATATTGTT
22781410 ATAAATATTGTT
1 ATAAATATTGTT
22781422 A
1 A
22781423 ATAGCCTCTG
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:22782212 original size:35 final size:35
Alignment explanation
Indices: 22782166--22782236 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
22782156 TTAAAGAAAG
22782166 ATAGTTTTGGCCCGTTTTCCTATAATCTATAATAT
1 ATAGTTTTGGCCCGTTTTCCTATAATCTATAATAT
22782201 ATAGTTTTGGCCCGTTTTCCTATAATCTATAATAT
1 ATAGTTTTGGCCCGTTTTCCTATAATCTATAATAT
22782236 A
1 A
22782237 GAAAAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.45
Consensus pattern (35 bp):
ATAGTTTTGGCCCGTTTTCCTATAATCTATAATAT
Found at i:22786805 original size:305 final size:305
Alignment explanation
Indices: 22786128--22787051 Score: 1392
Period size: 305 Copynumber: 3.0 Consensus size: 305
22786118 AATTACAAAA
* * *
22786128 GAATAAAAAGGAAAGCCCTTTTCACCAGCAATAACATGCATAGCAAAGAAATAAAATGATTTTAG
1 GAATAAAAAGGAAGGCCCTTTTCACCAGCAATAACATGCAGAGCGAAGAAATAAAATGATTTTAG
* * * * *
22786193 ATCCAAATTTGAGTAAAACCAAGTTCTTAGCAAAAATTATGCAAAATCCACATCAAATTTACAAT
66 ATCCAAATTTGAGTAAAACCAAGTTGTTAGCAGAAATTATGCAAAACCCACATCAGATATACAAT
* *
22786258 TAATCATGTAGAGTCTCCAAGTACCAA-CAGATAAAACTAATAACATAGAGATATAGTTTAAAGA
131 TAATAATGTA-AGTCTCCAAGTACCAAGCAGATAAAACTAATAACATAGAAATATAGTTTAAAGA
* *
22786322 AAACAAAAGCTACTAACCAATTAGCTCTGAACCAAAATTTACCCAAGACCAGCAAAAGAAAAAAA
195 AAACAAAAGCTACTAACCAATTAGCTCTGAACCAAAACTTACCCAAGACCAGCAAAA-AAAAAGA
* * *
22786387 ATGCAAGGTAGTTTAACACAAAATCAACAGTAAGAAAGAATAATCTG
259 TTGCAAGGTAATTCAACACAAAATCAACAGTAAGAAAGAATAATCTG
* *
22786434 GAATAAAAAAGGAAGGCCCTTTTCACTAGCAATAACATGCAGAGCGAAAAAATAAAATGATTTTA
1 GAAT-AAAAAGGAAGGCCCTTTTCACCAGCAATAACATGCAGAGCGAAGAAATAAAATGATTTTA
*
22786499 GATCCAAATTTGAGTAAAACCAAGTTGTTAGCAGAAATTATACAAAACCCACATCAGATATACAA
65 GATCCAAATTTGAGTAAAACCAAGTTGTTAGCAGAAATTATGCAAAACCCACATCAGATATACAA
* *
22786564 TTAATAATGT-AGTCTCAAAGTACCAAGTAGATAAAACTAATAACATAGAAATATAGTTTAAAGA
130 TTAATAATGTAAGTCTCCAAGTACCAAGCAGATAAAACTAATAACATAGAAATATAGTTTAAAGA
*
22786628 ATACAAAAGCTACTAACCAATTAGCT-TGAACCAAAACTTACCCAAGACCAGCAAAAAAGAAAGA
195 AAACAAAAGCTACTAACCAATTAGCTCTGAACCAAAACTTACCCAAGACCAGCAAAAAA-AAAGA
* * *
22786692 TTGTAAGGTAATTCAACACAAAAATCAACAATAAGAAAGAATAATTTG
259 TTGCAAGGTAATTCAACAC-AAAATCAACAGTAAGAAAGAATAATCTG
* * * *
22786740 GAATAAAAAGGAAGGCCCTTTTCACCAGCAGTAATATGCAGAGCGAAGAAATAAAACGGTTTTAG
1 GAATAAAAAGGAAGGCCCTTTTCACCAGCAATAACATGCAGAGCGAAGAAATAAAATGATTTTAG
*
22786805 ATCCAAATTTGAGTAAAACCAAGTTGTTAGCAGAAATTATGCAAAACCCACATCAGAAATACAAT
66 ATCCAAATTTGAGTAAAACCAAGTTGTTAGCAGAAATTATGCAAAACCCACATCAGATATACAAT
* * *
22786870 TAATAATGTAGAGTCTCCAAGTACTAAGCAGATAAAAC---TAACATAGAAATATAATTTAAATA
131 TAATAATGTA-AGTCTCCAAGTACCAAGCAGATAAAACTAATAACATAGAAATATAGTTTAAAGA
* * *
22786932 AAACACAAGCTACTAACCAATTAGCTCTAAACCAAAACTTACCCAAGACTAGCAAAAAAAAAAAA
195 AAACAAAAGCTACTAACCAATTAGCTCTGAACCAAAACTTACCCAAGACCAGC----AAAAAAAA
*
22786997 AGATTGCAAGGTAATTCAACACAAAATCAGCAGTAAGAAAGAATAATCTG
256 AGATTGCAAGGTAATTCAACACAAAATCAACAGTAAGAAAGAATAATCTG
22787047 GAATA
1 GAATA
22787052 CCCACAAAGA
Statistics
Matches: 562, Mismatches: 45, Indels: 21
0.89 0.07 0.03
Matches are distributed among these distances:
304 48 0.09
305 214 0.38
306 94 0.17
307 177 0.31
308 23 0.04
309 6 0.01
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (305 bp):
GAATAAAAAGGAAGGCCCTTTTCACCAGCAATAACATGCAGAGCGAAGAAATAAAATGATTTTAG
ATCCAAATTTGAGTAAAACCAAGTTGTTAGCAGAAATTATGCAAAACCCACATCAGATATACAAT
TAATAATGTAAGTCTCCAAGTACCAAGCAGATAAAACTAATAACATAGAAATATAGTTTAAAGAA
AACAAAAGCTACTAACCAATTAGCTCTGAACCAAAACTTACCCAAGACCAGCAAAAAAAAAGATT
GCAAGGTAATTCAACACAAAATCAACAGTAAGAAAGAATAATCTG
Found at i:22795569 original size:27 final size:27
Alignment explanation
Indices: 22795514--22795571 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
22795504 ATTAATGGCC
* **
22795514 GCTTCCATCACTGCTTGTGTCATGGTT
1 GCTTCCATCACTGCTTGCGTCATCATT
*
22795541 GCTTCCATCATTGCTTGCGTCATCATT
1 GCTTCCATCACTGCTTGCGTCATCATT
22795568 GCTT
1 GCTT
22795572 TGATGATAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.12, C:0.28, G:0.19, T:0.41
Consensus pattern (27 bp):
GCTTCCATCACTGCTTGCGTCATCATT
Found at i:22800594 original size:21 final size:20
Alignment explanation
Indices: 22800570--22800614 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
22800560 AAAACCCCAG
*
22800570 AAAAAT-GCAAAAAAATCAGA
1 AAAAATAGCAAAAAAAT-AAA
*
22800590 AAAAATAGCAAAATAATAAA
1 AAAAATAGCAAAAAAATAAA
22800610 AAAAA
1 AAAAA
22800615 ATCTCACTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.11
Consensus pattern (20 bp):
AAAAATAGCAAAAAAATAAA
Found at i:22800615 original size:21 final size:20
Alignment explanation
Indices: 22800570--22800616 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
22800560 AAAACCCCAG
* *
22800570 AAAAATGCAAAAAAATCAGA
1 AAAAATGCAAAAAAATAAAA
*
22800590 AAAAATAGCAAAATAATAAAA
1 AAAAAT-GCAAAAAAATAAAA
22800611 AAAAAT
1 AAAAAT
22800617 CTCACTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.13
Consensus pattern (20 bp):
AAAAATGCAAAAAAATAAAA
Found at i:22801633 original size:24 final size:24
Alignment explanation
Indices: 22801593--22801659 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
22801583 ATTTTGTGTT
*
22801593 TTTTTTCTCTA-TA-TTTTAATGA
1 TTTTTTCTTTATTATTTTTAATGA
* *
22801615 TTTTTTCTTTATTATTTTTCATTGT
1 TTTTTTCTTTATTATTTTT-AATGA
*
22801640 TTTTTTCATT-TTATTTTTAA
1 TTTTTTCTTTATTATTTTTAA
22801660 AAAAGAAAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.27
23 3 0.08
24 12 0.32
25 12 0.32
ACGTcount: A:0.18, C:0.07, G:0.03, T:0.72
Consensus pattern (24 bp):
TTTTTTCTTTATTATTTTTAATGA
Found at i:22801656 original size:12 final size:13
Alignment explanation
Indices: 22801616--22801657 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
22801606 TTTTAATGAT
*
22801616 TTTTTCTTTATTA
1 TTTTTCATTATTA
*
22801629 TTTTTCATTGTT-
1 TTTTTCATTATTA
22801641 TTTTTCATT-TTA
1 TTTTTCATTATTA
22801653 TTTTT
1 TTTTT
22801658 AAAAAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 2 0.08
12 14 0.54
13 10 0.38
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.79
Consensus pattern (13 bp):
TTTTTCATTATTA
Found at i:22804934 original size:7 final size:7
Alignment explanation
Indices: 22804922--22804947 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
22804912 TGTATTGTTT
22804922 TTTTTTC
1 TTTTTTC
22804929 TTTTTTC
1 TTTTTTC
22804936 TTTTTTC
1 TTTTTTC
22804943 TTTTT
1 TTTTT
22804948 CCGAATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:22807941 original size:188 final size:188
Alignment explanation
Indices: 22807624--22808003 Score: 697
Period size: 188 Copynumber: 2.0 Consensus size: 188
22807614 TATTCGCATA
*
22807624 ATTGGTCTACCAAAGATAGCGTTATATGCCATCGGGTGATTGACCACATAGAATTGGACACACTC
1 ATTGGTCTACCAAAGATAGCGTTATATGCCATCGGGTGATCGACCACATAGAATTGGACACACTC
*
22807689 TGTGGTTGTATGCTCGCTGTCACCTAGAGTGGCTGGCAACGTGATGTGCCCCTTACTTCGACAGG
66 CGTGGTTGTATGCTCGCTGTCACCTAGAGTGGCTGGCAACGTGATGTGCCCCTTACTTCGACAGG
22807754 ATGGTTCGCGAAGCCGTACAAAGGGCTGGCTACAAATAAGGATTTCTCTTTTAAGCCT
131 ATGGTTCGCGAAGCCGTACAAAGGGCTGGCTACAAATAAGGATTTCTCTTTTAAGCCT
22807812 ATTGGTCTACCAAAGATAGCGTTATATGCCATCGGGTGATCGACCACATAGAATTGGACACACTC
1 ATTGGTCTACCAAAGATAGCGTTATATGCCATCGGGTGATCGACCACATAGAATTGGACACACTC
* *
22807877 CGTGGTTGTATGCTCGCTGTCACTTAGAGTGGCTGGCAACGTGATGTGCCCTTTACTTCGACAGG
66 CGTGGTTGTATGCTCGCTGTCACCTAGAGTGGCTGGCAACGTGATGTGCCCCTTACTTCGACAGG
* * *
22807942 ATGGTTCGTGAAGCCGTACAAAGGGCTGGCTACGAATAATGATTTCTCTTTTAAGCCT
131 ATGGTTCGCGAAGCCGTACAAAGGGCTGGCTACAAATAAGGATTTCTCTTTTAAGCCT
22808000 ATTG
1 ATTG
22808004 TCTTATATGC
Statistics
Matches: 185, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
188 185 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (188 bp):
ATTGGTCTACCAAAGATAGCGTTATATGCCATCGGGTGATCGACCACATAGAATTGGACACACTC
CGTGGTTGTATGCTCGCTGTCACCTAGAGTGGCTGGCAACGTGATGTGCCCCTTACTTCGACAGG
ATGGTTCGCGAAGCCGTACAAAGGGCTGGCTACAAATAAGGATTTCTCTTTTAAGCCT
Found at i:22809578 original size:9 final size:9
Alignment explanation
Indices: 22809560--22809621 Score: 72
Period size: 9 Copynumber: 6.8 Consensus size: 9
22809550 TTTGGTTAAA
*
22809560 AATTATCCG
1 AATTACCCG
22809569 AATTACCCG
1 AATTACCCG
*
22809578 -ATTAACCG
1 AATTACCCG
*
22809586 AATTAACCG
1 AATTACCCG
22809595 AATTACCCG
1 AATTACCCG
22809604 AAAATTACCCG
1 --AATTACCCG
22809615 AATTACC
1 AATTACC
22809622 TGAAAATTAC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
8 7 0.15
9 31 0.66
11 9 0.19
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:22809581 original size:17 final size:17
Alignment explanation
Indices: 22809561--22809615 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
22809551 TTGGTTAAAA
*
22809561 ATTATCCGAATTACCCG
1 ATTAACCGAATTACCCG
*
22809578 ATTAACCGAATTAACCG
1 ATTAACCGAATTACCCG
*
22809595 AATTACCCGAAAATTACCCG
1 -ATTAACCG--AATTACCCG
22809615 A
1 A
22809616 ATTACCTGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 15 0.48
18 7 0.23
19 1 0.03
20 8 0.26
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (17 bp):
ATTAACCGAATTACCCG
Found at i:22809615 original size:20 final size:20
Alignment explanation
Indices: 22809569--22809633 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
22809559 AAATTATCCG
*
22809569 AATTACCCG-ATTAACCG--
1 AATTACCCGAATTACCCGAA
*
22809586 AATTAACCGAATTACCCGAA
1 AATTACCCGAATTACCCGAA
*
22809606 AATTACCCGAATTACCTGAA
1 AATTACCCGAATTACCCGAA
22809626 AATTACCC
1 AATTACCC
22809634 AAAAAGTTCG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
17 8 0.20
18 7 0.17
20 26 0.63
ACGTcount: A:0.40, C:0.28, G:0.09, T:0.23
Consensus pattern (20 bp):
AATTACCCGAATTACCCGAA
Found at i:22809638 original size:11 final size:11
Alignment explanation
Indices: 22809595--22809637 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
22809585 GAATTAACCG
22809595 AATTACCCGAA
1 AATTACCCGAA
22809606 AATTACCCG--
1 AATTACCCGAA
*
22809615 AATTACCTGAA
1 AATTACCCGAA
22809626 AATTACCC-AA
1 AATTACCCGAA
22809636 AA
1 AA
22809638 AGTTCGGTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 8 0.29
10 4 0.14
11 16 0.57
ACGTcount: A:0.47, C:0.26, G:0.07, T:0.21
Consensus pattern (11 bp):
AATTACCCGAA
Found at i:22810915 original size:17 final size:17
Alignment explanation
Indices: 22810890--22810926 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
22810880 TCTCATGAGG
*
22810890 CTTATGCGAGCTCTCCT
1 CTTACGCGAGCTCTCCT
22810907 CTTACGCGAGCTCTCCT
1 CTTACGCGAGCTCTCCT
22810924 CTT
1 CTT
22810927 GTGACCTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.38, G:0.16, T:0.35
Consensus pattern (17 bp):
CTTACGCGAGCTCTCCT
Found at i:22822488 original size:24 final size:24
Alignment explanation
Indices: 22822461--22822508 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
22822451 AAAAGTTTGT
*
22822461 TTAGGGTTTACAAAATTTCAAATA
1 TTAGGCTTTACAAAATTTCAAATA
* * *
22822485 TTAGTCTTTCCAAATTTTCAAATA
1 TTAGGCTTTACAAAATTTCAAATA
22822509 CTCTATTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (24 bp):
TTAGGCTTTACAAAATTTCAAATA
Found at i:22822738 original size:3 final size:3
Alignment explanation
Indices: 22822730--22822766 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
22822720 TCGTGAACTC
22822730 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22822767 ATCATATGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:22823187 original size:20 final size:20
Alignment explanation
Indices: 22823162--22823226 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
22823152 TCATTTTGCA
**
22823162 ATAAAAATACATAAGATTTT
1 ATAAAAATACATAAGAAATT
* **
22823182 ATAAAAATATATATTAAATT
1 ATAAAAATACATAAGAAATT
22823202 ATAAAAATACATACA-AAATT
1 ATAAAAATACATA-AGAAATT
22823222 ATAAA
1 ATAAA
22823227 TAAATGAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (20 bp):
ATAAAAATACATAAGAAATT
Found at i:22824919 original size:871 final size:872
Alignment explanation
Indices: 22823226--22824968 Score: 3479
Period size: 871 Copynumber: 2.0 Consensus size: 872
22823216 AAAATTATAA
22823226 ATAAATGAATATTCATTCTTCTCTTTTTCTGACTAAAACCATATTCAAACTTTTCCTCTTTTTAG
1 ATAAATGAATATTCATTCTTCTCTTTTTCTGACTAAAACCATATTCAAACTTTTCCTCTTTTTAG
22823291 TTTTATTTTATAAATAATAATTTATTTAGGTCTGCATTGTTCCTTAATCCTCACCAAATTTACTA
66 TTTTATTTTATAAATAATAATTTATTTAGGTCTGCATTGTTCCTTAATCCTCACCAAATTTACTA
22823356 AGCGTTGGGCACCACCTTCGCCTAAAACCACTGACACCAATAACATTTGCTCCGAACTCCTTAAT
131 AGCGTTGGGCACCACCTTCGCCTAAAACCACTGACACCAATAACATTTGCTCCGAACTCCTTAAT
22823421 TGCCTCATCTTCCATCGTCATGCCATCAAAATAGGAATTCATTGTGGAGCTACCAACATGGCTTT
196 TGCCTCATCTTCCATCGTCATGCCATCAAAATAGGAATTCATTGTGGAGCTACCAACATGGCTTT
22823486 CAACTTACTAAATCTTCTAGACTTCATCTTCACCTATATATTTTCAATCATGCCTACTTTCAAGC
261 CAACTTACTAAATCTTCTAGACTTCATCTTCACCTATATATTTTCAATCATGCCTACTTTCAAGC
22823551 ATAACCTCAAACTTAACAAACTTATTCTGGACAACAACCTAAAGATATTGATTCTTACCCTTTCA
326 ATAACCTCAAACTTAACAAACTTATTCTGGACAACAACCTAAAGATATTGATTCTTACCCTTTCA
22823616 ACCTCACGTTGTTTTTTACCCAACTTTTAACATGATGGTTGTTAATTTTGTAAAAAAAGGGATAA
391 ACCTCACGTTGTTTTTTACCCAACTTTTAACATGATGGTTGTTAATTTTGTAAAAAAAGGGATAA
22823681 TTGAATCTACTTAAGCCTTCTTCATTTTTGCCCTTAAATTGTTTTATTTATAAAATTATTATTTT
456 TTGAATCTACTTAAGCCTTCTTCATTTTTGCCCTTAAATTGTTTTATTTATAAAATTATTATTTT
22823746 AATAAATAAATGTTATGTTAGAAAATAAGAAAAATAGATATTTATTTATAAATATTTTTATACAA
521 AATAAATAAATGTTATGTTAGAAAATAAGAAAAATAGATATTTATTTATAAATATTTTTATACAA
22823811 TTGTGTATATTTTTATAAAATCTTATGTATTTTTATCGAAAAATAAAAAAATTAAATAGTTCTTG
586 TTGTGTATATTTTTATAAAATCTTATGTATTTTTATCGAAAAATAAAAAAATTAAATAGTTCTTG
22823876 TTTATTTTTGAATTTTGAATTCTTAAGGTTTAAGACTAAATTGACATAATGTGTAAATATGAGGG
651 TTTATTTTTGAATTTTGAATTCTTAAGGTTTAAGACTAAATTGACATAATGTGTAAATATGAGGG
22823941 ATAAATTTGTTATTATGCCAATGAAAAACAGCTAGATCAGCACTCTATTAGTGATTTAATGAATG
716 ATAAATTTGTTATTATGCCAATGAAAAACAGCTAGATCAGCACTCTATTAGTGATTTAATGAATG
22824006 AGTGACCAAAATAAAAACACACTAATAGTTGAGTGGCTATTTATATAGTTCACCCTTATTCTTTG
781 AGTGACCAAAATAAAAACACACTAATAGTTGAGTGGCTATTTATATAGTTCACCCTTATTCTTTG
22824071 TATTAACTCTTTTTTAGTTATATTCAT
846 TATTAACTCTTTTTTAGTTATATTCAT
22824098 ATAAATGAAT-TTCATTCTTCTCTTTTTCTGACTAAAACCATATTCAAACTTTTCCTCTTTTTAG
1 ATAAATGAATATTCATTCTTCTCTTTTTCTGACTAAAACCATATTCAAACTTTTCCTCTTTTTAG
22824162 TTTTATTTTATAAATAATAATTTATTTAGGTCTGCATTGTTCCTTAATCCTCACCAAATTTACTA
66 TTTTATTTTATAAATAATAATTTATTTAGGTCTGCATTGTTCCTTAATCCTCACCAAATTTACTA
22824227 AGCGTTGGGCACCACCTTCGCCTAAAACCACTGACACCAATAACATTTGCTCCGAACTCCTTAAT
131 AGCGTTGGGCACCACCTTCGCCTAAAACCACTGACACCAATAACATTTGCTCCGAACTCCTTAAT
22824292 TGCCTCATCTTCCATCGTCATGCCATCAAAATAGGAATTCATTGTGGAGCTACCAACATGGCTTT
196 TGCCTCATCTTCCATCGTCATGCCATCAAAATAGGAATTCATTGTGGAGCTACCAACATGGCTTT
22824357 CAACTTACTAAATCTTCTAGACTTCATCTTCACCTATATATTTTCAATCATGCCTACTTTCAAGC
261 CAACTTACTAAATCTTCTAGACTTCATCTTCACCTATATATTTTCAATCATGCCTACTTTCAAGC
22824422 ATAACCTCAAACTTAACAAACTTATTCTGGACAACAACCTAAAGATATTGATTCTTACCCTTTCA
326 ATAACCTCAAACTTAACAAACTTATTCTGGACAACAACCTAAAGATATTGATTCTTACCCTTTCA
22824487 ACCTCACGTTGTTTTTTACCCAACTTTTAACATGATGGTTGTTAATTTTGTAAAAAAAGGGATAA
391 ACCTCACGTTGTTTTTTACCCAACTTTTAACATGATGGTTGTTAATTTTGTAAAAAAAGGGATAA
22824552 TTGAATCTACTTAAGCCTTCTTCATTTTTGCCCTTAAATTGTTTTATTTATAAAATTATTATTTT
456 TTGAATCTACTTAAGCCTTCTTCATTTTTGCCCTTAAATTGTTTTATTTATAAAATTATTATTTT
22824617 AATAAATAAATGTTATGTTAGAAAATAAGAAAAATAGATATTTATTTATAAATATTTTTATACAA
521 AATAAATAAATGTTATGTTAGAAAATAAGAAAAATAGATATTTATTTATAAATATTTTTATACAA
22824682 TTGTGTATATTTTTATAAAATCTTATGTATTTTTATCGAAAAATAAAAAAATTAAATAGTTCTTG
586 TTGTGTATATTTTTATAAAATCTTATGTATTTTTATCGAAAAATAAAAAAATTAAATAGTTCTTG
22824747 TTTATTTTTGAATTTTGAATTCTTAAGGTTTAAGACTAAATTGACATAATGTGTAAATATGAGGG
651 TTTATTTTTGAATTTTGAATTCTTAAGGTTTAAGACTAAATTGACATAATGTGTAAATATGAGGG
22824812 ATAAATTTGTTATTATGCCAATGAAAAACAGCTAGATCAGCACTCTATTAGTGATTTAATGAATG
716 ATAAATTTGTTATTATGCCAATGAAAAACAGCTAGATCAGCACTCTATTAGTGATTTAATGAATG
22824877 AGTGACCAAAATAAAAACACACTAATAGTTGAGTGGCTATTTATATAGTTCACCCTTATTCTTTG
781 AGTGACCAAAATAAAAACACACTAATAGTTGAGTGGCTATTTATATAGTTCACCCTTATTCTTTG
22824942 TATTAACTCTTTTTTAGTTATATTCAT
846 TATTAACTCTTTTTTAGTTATATTCAT
22824969 TGTATTAACT
Statistics
Matches: 871, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
871 861 0.99
872 10 0.01
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.39
Consensus pattern (872 bp):
ATAAATGAATATTCATTCTTCTCTTTTTCTGACTAAAACCATATTCAAACTTTTCCTCTTTTTAG
TTTTATTTTATAAATAATAATTTATTTAGGTCTGCATTGTTCCTTAATCCTCACCAAATTTACTA
AGCGTTGGGCACCACCTTCGCCTAAAACCACTGACACCAATAACATTTGCTCCGAACTCCTTAAT
TGCCTCATCTTCCATCGTCATGCCATCAAAATAGGAATTCATTGTGGAGCTACCAACATGGCTTT
CAACTTACTAAATCTTCTAGACTTCATCTTCACCTATATATTTTCAATCATGCCTACTTTCAAGC
ATAACCTCAAACTTAACAAACTTATTCTGGACAACAACCTAAAGATATTGATTCTTACCCTTTCA
ACCTCACGTTGTTTTTTACCCAACTTTTAACATGATGGTTGTTAATTTTGTAAAAAAAGGGATAA
TTGAATCTACTTAAGCCTTCTTCATTTTTGCCCTTAAATTGTTTTATTTATAAAATTATTATTTT
AATAAATAAATGTTATGTTAGAAAATAAGAAAAATAGATATTTATTTATAAATATTTTTATACAA
TTGTGTATATTTTTATAAAATCTTATGTATTTTTATCGAAAAATAAAAAAATTAAATAGTTCTTG
TTTATTTTTGAATTTTGAATTCTTAAGGTTTAAGACTAAATTGACATAATGTGTAAATATGAGGG
ATAAATTTGTTATTATGCCAATGAAAAACAGCTAGATCAGCACTCTATTAGTGATTTAATGAATG
AGTGACCAAAATAAAAACACACTAATAGTTGAGTGGCTATTTATATAGTTCACCCTTATTCTTTG
TATTAACTCTTTTTTAGTTATATTCAT
Found at i:22827862 original size:2 final size:2
Alignment explanation
Indices: 22827855--22827902 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
22827845 TAATTTACTA
*
22827855 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC CC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
22827897 AC AC AC
1 AC AC AC
22827903 GCACTCTCTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:22830855 original size:10 final size:10
Alignment explanation
Indices: 22830842--22830901 Score: 63
Period size: 9 Copynumber: 6.2 Consensus size: 10
22830832 ATATTCTATT
*
22830842 AAAATGATTA
1 AAAATCATTA
22830852 AAAATCA-TA
1 AAAATCATTA
22830861 AAAAGTCATTA
1 AAAA-TCATTA
*
22830872 AAAATTA-TA
1 AAAATCATTA
*
22830881 AAAATCATAA
1 AAAATCATTA
22830891 AAAAT-ATTA
1 AAAATCATTA
22830900 AA
1 AA
22830902 GATTATAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
9 19 0.45
10 17 0.40
11 6 0.14
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (10 bp):
AAAATCATTA
Found at i:22830872 original size:29 final size:27
Alignment explanation
Indices: 22830838--22830913 Score: 89
Period size: 29 Copynumber: 2.7 Consensus size: 27
22830828 TAATATATTC
*
22830838 TATTAAAATGATTAAAAATCATAAAAAG
1 TATTAAAATGA-TAAAAATCATAAAAAA
*
22830866 TCATTAAAAATTATAAAAATCATAAAAAA
1 T-ATT-AAAATGATAAAAATCATAAAAAA
*
22830895 TATTAAAGATTATAAAAAT
1 TATTAAA-ATGATAAAAAT
22830914 AAGGAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 3 0.07
28 15 0.35
29 19 0.44
30 6 0.14
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (27 bp):
TATTAAAATGATAAAAATCATAAAAAA
Found at i:22830873 original size:20 final size:19
Alignment explanation
Indices: 22830842--22830895 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
22830832 ATATTCTATT
*
22830842 AAAATGATTAAAAATCATA
1 AAAATCATTAAAAATCATA
*
22830861 AAAAGTCATTAAAAATTATA
1 AAAA-TCATTAAAAATCATA
*
22830881 AAAATCATAAAAAAT
1 AAAATCATTAAAAAT
22830896 ATTAAAGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.26
Consensus pattern (19 bp):
AAAATCATTAAAAATCATA
Found at i:22830901 original size:19 final size:19
Alignment explanation
Indices: 22830838--22830912 Score: 57
Period size: 19 Copynumber: 3.9 Consensus size: 19
22830828 TAATATATTC
* *
22830838 TATT-AAAATGATTAAAAA
1 TATTAAAAATCATAAAAAA
*
22830856 TCA-TAAAAAGTCATTAAAAA
1 T-ATTAAAAA-TCATAAAAAA
22830876 T-TATAAAAATCATAAAAAA
1 TAT-TAAAAATCATAAAAAA
* *
22830895 TATTAAAGATTATAAAAA
1 TATTAAAAATCATAAAAA
22830913 TAAGGAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
18 2 0.04
19 28 0.60
20 17 0.36
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (19 bp):
TATTAAAAATCATAAAAAA
Found at i:22830910 original size:9 final size:9
Alignment explanation
Indices: 22830850--22831026 Score: 81
Period size: 9 Copynumber: 18.7 Consensus size: 9
22830840 TTAAAATGAT
*
22830850 TAAAAATCA
1 TAAAAATTA
*
22830859 TAAAAAGTCA
1 TAAAAA-TTA
22830869 TTAAAAATTA
1 -TAAAAATTA
*
22830879 TAAAAATCA
1 TAAAAATTA
*
22830888 TAAAAAATA
1 TAAAAATTA
*
22830897 TTAAAGATTA
1 -TAAAAATTA
*
22830907 TAAAAATAA
1 TAAAAATTA
*
22830916 GGAAAAAATTA
1 --TAAAAATTA
22830927 T-AAAA-TA
1 TAAAAATTA
*
22830934 TTAAAATTAA
1 TAAAAATT-A
*
22830944 TATAAACTTA
1 TA-AAAATTA
* *
22830954 TAATACTTA
1 TAAAAATTA
*
22830963 TAAAAGCTTA
1 TAAAA-ATTA
*
22830973 TAAATATTA
1 TAAAAATTA
*
22830982 TAAAAAAATA
1 T-AAAAATTA
22830992 TAATAAATCTA
1 TAA-AAAT-TA
**
22831003 -ATTAATTA
1 TAAAAATTA
22831011 TAAAAATATA
1 TAAAAAT-TA
22831021 TAAAAA
1 TAAAAA
22831027 AATTAATAAA
Statistics
Matches: 129, Mismatches: 24, Indels: 29
0.71 0.13 0.16
Matches are distributed among these distances:
7 3 0.02
8 10 0.08
9 52 0.40
10 44 0.34
11 20 0.16
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:22830921 original size:28 final size:27
Alignment explanation
Indices: 22830868--22830940 Score: 76
Period size: 28 Copynumber: 2.7 Consensus size: 27
22830858 ATAAAAAGTC
* *
22830868 ATTAAAAATTATAAAAATCATAAAAAA
1 ATTAAAAATTATAAAAATAAGAAAAAA
* *
22830895 TATTAAAGATTATAAAAATAAGGAAAAA
1 -ATTAAAAATTATAAAAATAAGAAAAAA
*
22830923 ATTATAAAA-TATTAAAAT
1 ATTA-AAAATTATAAAAAT
22830941 TAATATAAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 12 0.32
28 26 0.68
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (27 bp):
ATTAAAAATTATAAAAATAAGAAAAAA
Found at i:22830931 original size:10 final size:10
Alignment explanation
Indices: 22830851--22830936 Score: 52
Period size: 10 Copynumber: 8.8 Consensus size: 10
22830841 TAAAATGATT
*
22830851 AAAAATCATA
1 AAAAATTATA
* * *
22830861 AAAAGTCATT
1 AAAAATTATA
22830871 AAAAATTAT-
1 AAAAATTATA
*
22830880 AAAAATCATA
1 AAAAATTATA
*
22830890 AAAAA-TATT
1 AAAAATTATA
*
22830899 AAAGATTAT-
1 AAAAATTATA
* *
22830908 AAAAATAAGGA
1 AAAAATTA-TA
22830919 AAAAATTATA
1 AAAAATTATA
*
22830929 AAATATTA
1 AAAAATTA
22830937 AAATTAATAT
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
9 20 0.34
10 31 0.53
11 7 0.12
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (10 bp):
AAAAATTATA
Found at i:22830974 original size:19 final size:19
Alignment explanation
Indices: 22830950--22830986 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
22830940 TTAATATAAA
22830950 CTTAT-AATACTTATAAAAG
1 CTTATAAATA-TTATAAAAG
22830969 CTTATAAATATTATAAAA
1 CTTATAAATATTATAAAA
22830987 AAATATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (19 bp):
CTTATAAATATTATAAAAG
Found at i:22830992 original size:13 final size:13
Alignment explanation
Indices: 22830974--22831036 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
22830964 AAAAGCTTAT
*
22830974 AAATATTATAAAA
1 AAATATAATAAAA
*
22830987 AAATATAATAAATC
1 AAATATAATAAA-A
* *
22831001 TAAT-TAATTATAA
1 AAATATAA-TAAAA
22831014 AAATAT-ATAAAA
1 AAATATAATAAAA
22831026 AAAT-TAATAAA
1 AAATATAATAAA
22831037 CATATTAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
11 1 0.03
12 13 0.33
13 18 0.46
14 7 0.18
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATATAATAAAA
Found at i:22831030 original size:25 final size:27
Alignment explanation
Indices: 22830978--22831033 Score: 71
Period size: 29 Copynumber: 2.1 Consensus size: 27
22830968 GCTTATAAAT
22830978 ATTATAAAAAAATATAATAAATCTAATTA
1 ATTATAAAAAAATATAATAAA--TAATTA
*
22831007 ATTATAAAAATATATAA-AAA-AATTA
1 ATTATAAAAAAATATAATAAATAATTA
22831032 AT
1 AT
22831034 AAACATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 7 0.27
28 3 0.12
29 16 0.62
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (27 bp):
ATTATAAAAAAATATAATAAATAATTA
Found at i:22831031 original size:21 final size:21
Alignment explanation
Indices: 22831006--22831046 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
22830996 AAATCTAATT
22831006 AATT-ATAAAAATATATAAAAA
1 AATTAATAAAAATAT-TAAAAA
*
22831027 AATTAATAAACATATTAAAA
1 AATTAATAAAAATATTAAAA
22831047 TATTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
AATTAATAAAAATATTAAAAA
Found at i:22832050 original size:28 final size:26
Alignment explanation
Indices: 22832002--22832061 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
22831992 TTTCATATTT
**
22832002 TTTTTATAATTTATTAGATTTTTTTA
1 TTTTTATAATTTATTAGATTTTAATA
22832028 TTTTTATAAGTTTGTATTA-ATTTTAATA
1 TTTTTATAA--TT-TATTAGATTTTAATA
22832056 TTTTTA
1 TTTTTA
22832062 ATTTTTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 9 0.31
28 15 0.52
29 5 0.17
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (26 bp):
TTTTTATAATTTATTAGATTTTAATA
Found at i:22832078 original size:18 final size:16
Alignment explanation
Indices: 22832044--22832095 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 16
22832034 TAAGTTTGTA
22832044 TTAA-TTTTAATATTT
1 TTAATTTTTAATATTT
22832059 TTAATTTTTAATAAATTT
1 TTAATTTTTAAT--ATTT
*
22832077 TTAATTTTTTATGATTT
1 TTAATTTTTAAT-ATTT
22832094 TT
1 TT
22832096 TTATATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 4 0.12
16 7 0.22
17 6 0.19
18 15 0.47
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTAATTTTTAATATTT
Found at i:22832098 original size:19 final size:18
Alignment explanation
Indices: 22832044--22832085 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
22832034 TAAGTTTGTA
22832044 TTAA-TTTTAAT--ATTT
1 TTAATTTTTAATAAATTT
22832059 TTAATTTTTAATAAATTT
1 TTAATTTTTAATAAATTT
22832077 TTAATTTTT
1 TTAATTTTT
22832086 TATGATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.17
16 7 0.29
18 13 0.54
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTAATTTTTAATAAATTT
Found at i:22832104 original size:18 final size:18
Alignment explanation
Indices: 22832000--22832105 Score: 60
Period size: 18 Copynumber: 5.8 Consensus size: 18
22831990 AATTTCATAT
*
22832000 TTTTTTTATAATTTATTAGA
1 TTTTTTTATATTTTA-TA-A
22832020 TTTTTTTAT-TTTTATAA
1 TTTTTTTATATTTTATAA
*
22832037 GTTTGTATTA-A-TTT-TAA
1 -TTT-TTTTATATTTTATAA
*
22832054 TATTTTTA-ATTTTTAATAA
1 TTTTTTTATA-TTTT-ATAA
* * * *
22832073 ATTTTTAATTTTTTATGA
1 TTTTTTTATATTTTATAA
22832091 TTTTTTTATATTTTA
1 TTTTTTTATATTTTA
22832106 AAAAAAAGAC
Statistics
Matches: 66, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
15 5 0.08
16 2 0.03
17 7 0.11
18 23 0.35
19 20 0.30
20 9 0.14
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (18 bp):
TTTTTTTATATTTTATAA
Found at i:22832320 original size:37 final size:37
Alignment explanation
Indices: 22832270--22832341 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
22832260 ATGCATGGGC
*
22832270 TGTTAAAATTAAGTGACCCGAATCCTTATTTAAATAT
1 TGTTAAAATTAAGTGACCCAAATCCTTATTTAAATAT
* *
22832307 TGTTAGAATTAAGTGACCCAAATTCTTATTTAAAT
1 TGTTAAAATTAAGTGACCCAAATCCTTATTTAAAT
22832342 CAAATACAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (37 bp):
TGTTAAAATTAAGTGACCCAAATCCTTATTTAAATAT
Found at i:22839177 original size:33 final size:34
Alignment explanation
Indices: 22839105--22839189 Score: 127
Period size: 33 Copynumber: 2.5 Consensus size: 34
22839095 AATTTTTTTT
*
22839105 AAAATTAATTAAATTAGGTTTTAGGGGTTTTAAG
1 AAAATTAATTAAATTAGGGTTTAGGGGTTTTAAG
* *
22839139 TAAATTAATTAAATTAGGGTTTA-GTGTTTTAAG
1 AAAATTAATTAAATTAGGGTTTAGGGGTTTTAAG
*
22839172 AAAATTAACTAAATTAGG
1 AAAATTAATTAAATTAGG
22839190 TTTTTGTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 25 0.54
34 21 0.46
ACGTcount: A:0.41, C:0.01, G:0.18, T:0.40
Consensus pattern (34 bp):
AAAATTAATTAAATTAGGGTTTAGGGGTTTTAAG
Found at i:22839503 original size:124 final size:125
Alignment explanation
Indices: 22839252--22839516 Score: 367
Period size: 124 Copynumber: 2.1 Consensus size: 125
22839242 GATTTTGTGT
* *
22839252 TTTTTCTACTGTAGTTTCTGAAAAAATAAATTTGAGAAGACGGTTTTGAAAAAATAGTGACAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAAATTTGAGAAGACGGTTCTGAAAAAATAGTGACAAAA
* * * * *
22839317 ATGCTTCAAGCAGGATGCACTGTCAGCTAAAGTACTAAAAAAGCTCCTACATTGACGCTC
66 ACGCTTCAAACAGGATGCACTGTCAACAAAAGTACTAAAAAAGCTCCTACATGGACGCTC
*
22839377 TTTTTCTACAGTAGTTTCTG-AAAAATAATTTTGAGAAGACGGTTCT-AAAAAATAGTGTA-AAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAAATTTGAGAAGACGGTTCTGAAAAAATAGTG-ACAAA
* * *
22839439 AACGCTTCAAACAGGATGCACTGTCAACAAAATTATTGAAAAAAGCTCGC-ACGTGGACGCTC
65 AACGCTTCAAACAGGATGCACTGTCAACAAAAGTACT-AAAAAAGCTC-CTACATGGACGCTC
*
22839501 TTTTTCTATAGTAGTT
1 TTTTTCTACAGTAGTT
22839517 CTTGCTTCGC
Statistics
Matches: 125, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
123 45 0.36
124 60 0.48
125 20 0.16
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTTCTGAAAAAATAAATTTGAGAAGACGGTTCTGAAAAAATAGTGACAAAA
ACGCTTCAAACAGGATGCACTGTCAACAAAAGTACTAAAAAAGCTCCTACATGGACGCTC
Found at i:22845131 original size:51 final size:51
Alignment explanation
Indices: 22845058--22845276 Score: 192
Period size: 51 Copynumber: 4.3 Consensus size: 51
22845048 TATGAACATG
* * * *
22845058 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-GATAGATAATGGTCACA
1 TGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAT-GACAATGGTCACA
* * ** *
22845109 TGTGTAGTACTATGTGTAGGCTACCATGTGTACCGGATGACCTTGGTCACG
1 TGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGATGACAATGGTCACA
* * * * * * *
22845160 TGTGTAGTACTATGCGTAGGCTACTACGTGAACCAGA-AAGC-TTGATCACG
1 TGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGATGA-CAATGGTCACA
* * ** *
22845210 TGTGTAGTACTATATGTAGGCTACTGCGTGTTTCGGATGACAATAGTCACA
1 TGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGATGACAATGGTCACA
* *
22845261 TGGGTGGTACTATGTG
1 TGTGTAGTACTATGTG
22845277 CAAACCACTG
Statistics
Matches: 133, Mismatches: 31, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
50 40 0.30
51 90 0.68
52 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGATGACAATGGTCACA
Found at i:22847970 original size:25 final size:24
Alignment explanation
Indices: 22847933--22847984 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
22847923 ATTGTTATAA
* *
22847933 AAAATTATAAAAT-AAAAATTAATT
1 AAAATTACAAAATGAAAAAAT-ATT
22847957 AAAATTACATAAATGAAAAAATATT
1 AAAATTACA-AAATGAAAAAATATT
22847982 AAA
1 AAA
22847985 TAATATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.33
25 10 0.42
26 6 0.25
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAATTACAAAATGAAAAAATATT
Found at i:22852516 original size:19 final size:21
Alignment explanation
Indices: 22852492--22852536 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
22852482 ACATCGTTTC
22852492 CAGAAGC-C-TGAAAGCTAAA
1 CAGAAGCTCATGAAAGCTAAA
*
22852511 CAGAAGCTCATGAGAGCTAAA
1 CAGAAGCTCATGAAAGCTAAA
22852532 CAGAA
1 CAGAA
22852537 ACCCATATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.30
20 1 0.04
21 15 0.65
ACGTcount: A:0.47, C:0.20, G:0.22, T:0.11
Consensus pattern (21 bp):
CAGAAGCTCATGAAAGCTAAA
Found at i:22852561 original size:42 final size:42
Alignment explanation
Indices: 22852509--22852609 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
22852499 CTGAAAGCTA
* * * *
22852509 AACAGAAGCTCATGAGAGCTAAACAGAAACCCATATGGGTTG
1 AACAAAAGCTCATAAGAGCTAAACAGAAACCCATAAGAGTTG
* * *
22852551 AACAAAAGCTCGTAAGAGCTGAACAGAAACTCATAAGAGTTG
1 AACAAAAGCTCATAAGAGCTAAACAGAAACCCATAAGAGTTG
*
22852593 AACAAAAGCTCAAAAGA
1 AACAAAAGCTCATAAGA
22852610 ACTGGGCAGA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (42 bp):
AACAAAAGCTCATAAGAGCTAAACAGAAACCCATAAGAGTTG
Found at i:22852573 original size:21 final size:21
Alignment explanation
Indices: 22852504--22852609 Score: 81
Period size: 21 Copynumber: 5.0 Consensus size: 21
22852494 GAAGCCTGAA
* * *
22852504 AGCTAAACAGAAGCTCATGAG
1 AGCTGAACAAAAGCTCATAAG
* * *
22852525 AGCTAAACAGAAA-CCCATATG
1 AGCTGAACA-AAAGCTCATAAG
* * *
22852546 GGTTGAACAAAAGCTCGTAAG
1 AGCTGAACAAAAGCTCATAAG
22852567 AGCTGAACAGAAA-CTCATAAG
1 AGCTGAACA-AAAGCTCATAAG
* *
22852588 AGTTGAACAAAAGCTCAAAAG
1 AGCTGAACAAAAGCTCATAAG
22852609 A
1 A
22852610 ACTGGGCAGA
Statistics
Matches: 66, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
20 6 0.09
21 55 0.83
22 5 0.08
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (21 bp):
AGCTGAACAAAAGCTCATAAG
Found at i:22860174 original size:21 final size:21
Alignment explanation
Indices: 22860150--22860248 Score: 74
Period size: 21 Copynumber: 4.7 Consensus size: 21
22860140 AAAGCTGAAC
*
22860150 AGAAGCTCATGAGAGCTAAAA
1 AGAAGCTCATAAGAGCTAAAA
*
22860171 AGAAGCTCATAAGAGCTAAAC
1 AGAAGCTCATAAGAGCTAAAA
* * * * *
22860192 AGAAACCCATAAGGGTTGAACA
1 AGAAGCTCATAAGAGCT-AAAA
* * * *
22860214 A-AAGCTCGTACGAGCTGAAC
1 AGAAGCTCATAAGAGCTAAAA
*
22860234 AGAAACTCATAAGAG
1 AGAAGCTCATAAGAG
22860249 TTCTCAACAA
Statistics
Matches: 56, Mismatches: 20, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
20 2 0.04
21 51 0.91
22 3 0.05
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.14
Consensus pattern (21 bp):
AGAAGCTCATAAGAGCTAAAA
Found at i:22863023 original size:57 final size:58
Alignment explanation
Indices: 22862956--22863070 Score: 160
Period size: 57 Copynumber: 2.0 Consensus size: 58
22862946 ATTTTTACAT
**
22862956 TTTTCATTTTGGAGAAAACCACCTTCACTTCCAAATGAGTC-CATTTCTCCATTTTCA
1 TTTTCATTTTGGAGAAAACCACAATCACTTCCAAATGAGTCTCATTTCTCCATTTTCA
* * * **
22863013 TTTTCATTTTGGAGAAAATCATAATCATTTCCAAATGTTTCTCATTTCTCCATTTTCA
1 TTTTCATTTTGGAGAAAACCACAATCACTTCCAAATGAGTCTCATTTCTCCATTTTCA
22863071 CTATTTTTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
57 34 0.68
58 16 0.32
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.43
Consensus pattern (58 bp):
TTTTCATTTTGGAGAAAACCACAATCACTTCCAAATGAGTCTCATTTCTCCATTTTCA
Found at i:22866192 original size:34 final size:34
Alignment explanation
Indices: 22866148--22866224 Score: 127
Period size: 34 Copynumber: 2.3 Consensus size: 34
22866138 TATTGGGCCA
22866148 GGCTGTGTGATCCACACGACCAAGGCCATTTTAG
1 GGCTGTGTGATCCACACGACCAAGGCCATTTTAG
* * *
22866182 TGCTGTGTGATCTACACGGCCAAGGCCATTTTAG
1 GGCTGTGTGATCCACACGACCAAGGCCATTTTAG
22866216 GGCTGTGTG
1 GGCTGTGTG
22866225 GGCCACACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.27
Consensus pattern (34 bp):
GGCTGTGTGATCCACACGACCAAGGCCATTTTAG
Found at i:22867599 original size:25 final size:25
Alignment explanation
Indices: 22867560--22867649 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
22867550 AATTGTTTTT
* *
22867560 GATAGTATATCCTGAAACTGCTATA
1 GATAGTATATACTGAAACTACTATA
* *
22867585 GGTAGTATATACTGAGACTACTATA
1 GATAGTATATACTGAAACTACTATA
*
22867610 GATAG-ACTATACTGAAAATACTCA-A
1 GATAGTA-TATACTGAAACTACT-ATA
* *
22867635 GTTAGTGTATACTGA
1 GATAGTATATACTGA
22867650 TACTGTAGTA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
24 1 0.02
25 51 0.96
26 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (25 bp):
GATAGTATATACTGAAACTACTATA
Found at i:22874719 original size:73 final size:73
Alignment explanation
Indices: 22874595--22874736 Score: 221
Period size: 73 Copynumber: 1.9 Consensus size: 73
22874585 AGAGAATATT
* * *
22874595 TACTATTCATGCGTCTTTTCGTGCAGGGAATATTTACTGTTTACGCCAGAGAATTTTTCCTGTTC
1 TACTATTCATGCGTCTTTTCGTGCAGGGAATATCTACTGTTTACGCCAGAGAATATTTCATGTTC
22874660 ACTTTTCA
66 ACTTTTCA
* * **
22874668 TACTATTCATGCGTCTTTTCTTGTAGGGAATATCTACTGTTTACGTTAGAGAATATTTCATGTTC
1 TACTATTCATGCGTCTTTTCGTGCAGGGAATATCTACTGTTTACGCCAGAGAATATTTCATGTTC
22874733 ACTT
66 ACTT
22874737 GTCTTTTTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.44
Consensus pattern (73 bp):
TACTATTCATGCGTCTTTTCGTGCAGGGAATATCTACTGTTTACGCCAGAGAATATTTCATGTTC
ACTTTTCA
Found at i:22880097 original size:100 final size:100
Alignment explanation
Indices: 22879924--22880130 Score: 396
Period size: 100 Copynumber: 2.1 Consensus size: 100
22879914 CATCTTTTGA
22879924 TGAGATTTGTTCTCTTGCATCAAGAGCTCTCATTCTTAAAAGATTTACTTTTATTCCAGTATTTT
1 TGAGATTTGTTCTCTTGCATCAAGAGCTCTCATTCTTAAAAGATTTACTTTTATTCCAGTATTTT
*
22879989 TGTGAAGATATTGAATCTCCATTAAAGGGGCATGT
66 TGTGAAGATATTGAACCTCCATTAAAGGGGCATGT
*
22880024 TGAGATTTGTTCTCTTGCATCAGGAGCTCTCATTCTTAAAAGATTTACTTTTATTCCAGTATTTT
1 TGAGATTTGTTCTCTTGCATCAAGAGCTCTCATTCTTAAAAGATTTACTTTTATTCCAGTATTTT
22880089 TGTGAAGATATTGAACCTCCATTAAAGGGGCATGT
66 TGTGAAGATATTGAACCTCCATTAAAGGGGCATGT
22880124 TGAGATT
1 TGAGATT
22880131 CAACTTCTCC
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 105 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.41
Consensus pattern (100 bp):
TGAGATTTGTTCTCTTGCATCAAGAGCTCTCATTCTTAAAAGATTTACTTTTATTCCAGTATTTT
TGTGAAGATATTGAACCTCCATTAAAGGGGCATGT
Found at i:22883631 original size:11 final size:11
Alignment explanation
Indices: 22883558--22883632 Score: 50
Period size: 11 Copynumber: 6.7 Consensus size: 11
22883548 ATTCCAAAAA
22883558 TAATATTATTT
1 TAATATTATTT
*
22883569 TAATAGTTTAATAT
1 TAATA--TT-ATTT
*
22883583 TAA-ATTAAATT
1 TAATATT-ATTT
22883594 TAATACTTATTT
1 TAATA-TTATTT
*
22883606 TAATAGTA-TT
1 TAATATTATTT
22883616 T--TATTATTT
1 TAATATTATTT
22883625 TAATATTA
1 TAATATTA
22883633 AAGTGATTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 3 0.06
11 20 0.40
12 9 0.18
13 5 0.10
14 6 0.12
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (11 bp):
TAATATTATTT
Found at i:22884417 original size:5 final size:5
Alignment explanation
Indices: 22884407--22884452 Score: 74
Period size: 5 Copynumber: 9.2 Consensus size: 5
22884397 CATTTTTTTA
* *
22884407 TCTTT TCTTT TCTCT TCTTT TCTTT TCTTT CCTTT TCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT T
22884453 TTGTTTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (5 bp):
TCTTT
Found at i:22886251 original size:26 final size:26
Alignment explanation
Indices: 22886222--22886298 Score: 109
Period size: 26 Copynumber: 2.9 Consensus size: 26
22886212 TTTTTGATGT
*
22886222 AATATGAAAGAAAGCCTTTGTGGTGG
1 AATATGAAAGAAAGCCTTTGTGGCGG
*
22886248 AATATGAAAGAAAACCTTTGTGGCGG
1 AATATGAAAGAAAGCCTTTGTGGCGG
* *
22886274 AATATGAAAGGAATGTCTTTGTGGC
1 AATATGAAA-GAAAGCCTTTGTGGC
22886299 AAACTCCGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 33 0.73
27 12 0.27
ACGTcount: A:0.35, C:0.09, G:0.29, T:0.27
Consensus pattern (26 bp):
AATATGAAAGAAAGCCTTTGTGGCGG
Found at i:22904405 original size:331 final size:331
Alignment explanation
Indices: 22903803--22904414 Score: 1161
Period size: 331 Copynumber: 1.8 Consensus size: 331
22903793 TGCAAAAACT
* * *
22903803 AAATCAAATCGGCAAAACACGATCTTAATCTTAGACATAAATTATGCAACAAATCGCCGAAAAAA
1 AAATCAAATCGGCAAAACACGATCGTAATCTTAGACATAAATTATGCAAAAAATCACCGAAAAAA
*
22903868 TTGAAGAGCTAGGCAGGTCATGTTTGCATCTAAAAATATCCAACTCTAAGAGCTCAAATAATTGA
66 TTGAAGAGCTAGGCAGGTCATGTTTACATCTAAAAATATCCAACTCTAAGAGCTCAAATAATTGA
22903933 AATCAATGAGCCGACCAAGAAAGGTCAACGAATAAAGAAGATGAGGAAAAAAAACGAAAGAAACA
131 AATCAATGAGCCGACCAAGAAAGGTCAACGAATAAAGAAGATGAGGAAAAAAAACGAAAGAAACA
22903998 TTTAAAGCGATAAAAATCATGAGCCAAAACAATCAATGAAATGAAATGAATTTTCAAGAAAAAAA
196 TTTAAAGCGATAAAAATCATGAGCCAAAACAATCAATGAAATGAAATGAATTTTCAAGAAAAAAA
22904063 GATCAAGCAGTTTCGTAAATTATGCAAAAATCGTAGACATAAATTGAAATAAAAAAAAGCTCAAA
261 GATCAAGCAGTTTCGTAAATTATGCAAAAATCGTAGACATAAATTGAAATAAAAAAAAGCTCAAA
22904128 TAATTG
326 TAATTG
* *
22904134 AAATCAAATCGGCAAAACACGATCGTAATCTTTGACATAAATTATGCAAAAAATCACCGAAAACA
1 AAATCAAATCGGCAAAACACGATCGTAATCTTAGACATAAATTATGCAAAAAATCACCGAAAAAA
22904199 TTGAAGAGCTAGGCAGGTCATGTTTACATCTAAAAATATCCAACTCTAAGAGCTCAAATAATTGA
66 TTGAAGAGCTAGGCAGGTCATGTTTACATCTAAAAATATCCAACTCTAAGAGCTCAAATAATTGA
*
22904264 AATCAATGAGCCGACCAAGAAAGGTCAACGGATAAAGAAGATGAGGAAAAAAAACGAAAGAAACA
131 AATCAATGAGCCGACCAAGAAAGGTCAACGAATAAAGAAGATGAGGAAAAAAAACGAAAGAAACA
22904329 TTTAAAGCGATAAAAATCATGAGCCAAAACAATCAATGAAATGAAATGAATTTTCAAGAAAAAAA
196 TTTAAAGCGATAAAAATCATGAGCCAAAACAATCAATGAAATGAAATGAATTTTCAAGAAAAAAA
22904394 GATCAAGCAGTTTCGTAAATT
261 GATCAAGCAGTTTCGTAAATT
22904415 CATAAATAGG
Statistics
Matches: 274, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
331 274 1.00
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (331 bp):
AAATCAAATCGGCAAAACACGATCGTAATCTTAGACATAAATTATGCAAAAAATCACCGAAAAAA
TTGAAGAGCTAGGCAGGTCATGTTTACATCTAAAAATATCCAACTCTAAGAGCTCAAATAATTGA
AATCAATGAGCCGACCAAGAAAGGTCAACGAATAAAGAAGATGAGGAAAAAAAACGAAAGAAACA
TTTAAAGCGATAAAAATCATGAGCCAAAACAATCAATGAAATGAAATGAATTTTCAAGAAAAAAA
GATCAAGCAGTTTCGTAAATTATGCAAAAATCGTAGACATAAATTGAAATAAAAAAAAGCTCAAA
TAATTG
Found at i:22904949 original size:3 final size:3
Alignment explanation
Indices: 22904941--22904979 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
22904931 GTCGAGAAAG
* * *
22904941 TGA TGA TGA TGA CGA TGA CGA TGA TGA TGG TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
22904980 CGGTGAATCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.05, G:0.36, T:0.28
Consensus pattern (3 bp):
TGA
Found at i:22905629 original size:13 final size:13
Alignment explanation
Indices: 22905566--22905627 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
22905556 ACACTCAAAT
22905566 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
**
22905579 TCCTCAAAAGCAC
1 TTTTCAAAAGCAC
*
22905592 TTTTTC-ACAGCAC
1 -TTTTCAAAAGCAC
*
22905605 TTTTCAAAAGTAC
1 TTTTCAAAAGCAC
22905618 TTTTCAAAAG
1 TTTTCAAAAG
22905628 TAATGAAGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
12 5 0.12
13 32 0.80
14 3 0.08
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:22906880 original size:59 final size:59
Alignment explanation
Indices: 22906807--22906924 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
22906797 CAAAAGATAC
22906807 CCAACACATTCCTAACTTATACCAACATGATATCAATTCATCATTCATCAAATTAACCT
1 CCAACACATTCCTAACTTATACCAACATGATATCAATTCATCATTCATCAAATTAACCT
22906866 CCAACACATTCCTAACTTATACCAACATGATATCAATTCATCATTCATCAAATTAACCT
1 CCAACACATTCCTAACTTATACCAACATGATATCAATTCATCATTCATCAAATTAACCT
22906925 TCCTAAACAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.39, C:0.29, G:0.02, T:0.31
Consensus pattern (59 bp):
CCAACACATTCCTAACTTATACCAACATGATATCAATTCATCATTCATCAAATTAACCT
Found at i:22914125 original size:7 final size:7
Alignment explanation
Indices: 22914115--22914140 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
22914105 TCCTTGCAAA
22914115 AAAAAAG
1 AAAAAAG
22914122 AAAAAAG
1 AAAAAAG
22914129 AAAAAAG
1 AAAAAAG
22914136 AAAAA
1 AAAAA
22914141 TAATGACCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:22917055 original size:20 final size:21
Alignment explanation
Indices: 22917013--22917056 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
22917003 TGAATTGATT
*
22917013 ATTAATCGGATAGAAATTGTA
1 ATTAATCGGATAGAAATTCTA
22917034 ATTAAT-GGATA-AAATATCTA
1 ATTAATCGGATAGAAAT-TCTA
22917054 ATT
1 ATT
22917057 GGTGCATGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 11 0.52
21 6 0.29
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (21 bp):
ATTAATCGGATAGAAATTCTA
Found at i:22924425 original size:37 final size:37
Alignment explanation
Indices: 22924375--22924451 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
22924365 TAATAGAAAG
* *
22924375 TATGGTGATGAATTTCTGGCAGTGGCCAACTGAATGA
1 TATGGTGATGAATTCCTGCCAGTGGCCAACTGAATGA
22924412 TATGGTGATGAATTCCTGCCAGTGGCCAACTGAATGA
1 TATGGTGATGAATTCCTGCCAGTGGCCAACTGAATGA
22924449 TAT
1 TAT
22924452 TCATATAGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (37 bp):
TATGGTGATGAATTCCTGCCAGTGGCCAACTGAATGA
Found at i:22925556 original size:33 final size:33
Alignment explanation
Indices: 22925514--22925577 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
22925504 CTTACCGAAC
22925514 TTTGAATGTTAATTTACAAATATGTAATTCAAA
1 TTTGAATGTTAATTTACAAATATGTAATTCAAA
22925547 TTTGAATGTTAATTTACAAATATGTAATTCA
1 TTTGAATGTTAATTTACAAATATGTAATTCA
22925578 CTAACACTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (33 bp):
TTTGAATGTTAATTTACAAATATGTAATTCAAA
Found at i:22927235 original size:45 final size:44
Alignment explanation
Indices: 22927168--22927254 Score: 129
Period size: 45 Copynumber: 2.0 Consensus size: 44
22927158 TAATAGATAC
* * * *
22927168 TCGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGT
1 TCGGTGGAATCAACACAGAGCAACCACCTTA-TAATAAATGATGT
22927213 TCGGTGGAATCAACACAGAGCAACCACCTTATAATAAATGAT
1 TCGGTGGAATCAACACAGAGCAACCACCTTATAATAAATGAT
22927255 ACCCGATTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
44 10 0.26
45 28 0.74
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (44 bp):
TCGGTGGAATCAACACAGAGCAACCACCTTATAATAAATGATGT
Found at i:22931239 original size:21 final size:21
Alignment explanation
Indices: 22931205--22931245 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22931195 GCGTGAAAGC
* *
22931205 AAAGAGGAAGGAGAGGATGAT
1 AAAGAAGAAAGAGAGGATGAT
*
22931226 AAAGAAGAAAGAGATGATGA
1 AAAGAAGAAAGAGAGGATGA
22931246 AATGGATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.37, T:0.10
Consensus pattern (21 bp):
AAAGAAGAAAGAGAGGATGAT
Found at i:22936086 original size:5 final size:5
Alignment explanation
Indices: 22936076--22936104 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
22936066 TTACTAACAG
22936076 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
22936105 TCACAACAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:22936602 original size:18 final size:19
Alignment explanation
Indices: 22936581--22936621 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
22936571 ATTAAATGTT
*
22936581 ATAAGTTATAAT-TAATAA
1 ATAAGTTATAATATAAAAA
*
22936599 ATAATTTATAATATAAAAA
1 ATAAGTTATAATATAAAAA
22936618 ATAA
1 ATAA
22936622 AAAAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
ATAAGTTATAATATAAAAA
Found at i:22938902 original size:54 final size:54
Alignment explanation
Indices: 22938833--22938971 Score: 181
Period size: 54 Copynumber: 2.6 Consensus size: 54
22938823 ACGGTTTGGC
* *
22938833 ACACGGCCTGCGACACGGCTGTGTGACCCAAGTTAGTAAGTTACAC-AGGTAGAG
1 ACACGGCCTGGGACACGGCTGTGTGTCCCAAGTTAGTAAGTTACACTA-GTAGAG
* * * * *
22938887 ACACGGGCTGGGACACGACTGTGTGTCTCAAGTTTGTGAGTTACACTAGTAGAG
1 ACACGGCCTGGGACACGGCTGTGTGTCCCAAGTTAGTAAGTTACACTAGTAGAG
* *
22938941 ACGCGGCCTGGGACACGGCCGTGTGTCCCAA
1 ACACGGCCTGGGACACGGCTGTGTGTCCCAA
22938972 CTTCGAAAGC
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 71 0.99
55 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (54 bp):
ACACGGCCTGGGACACGGCTGTGTGTCCCAAGTTAGTAAGTTACACTAGTAGAG
Found at i:22942201 original size:50 final size:50
Alignment explanation
Indices: 22942094--22942334 Score: 211
Period size: 50 Copynumber: 4.7 Consensus size: 50
22942084 GGTAAATAGA
* *
22942094 TCCCATGTAAGATCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATGAGAGG
*
22942150 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * * **
22942200 TCCCCCGTAAGACCATGTCTGGGATATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * * * **
22942250 TCCCATGTAAGACCATATCTGGGATATGGGATTGGTA--GTACA-GAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGG
*
22942298 TCTCATGTAAGACCATGTCTGGGACATGG-ATTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCA
22942335 TGTTATTATC
Statistics
Matches: 158, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
47 1 0.01
48 35 0.22
49 2 0.01
50 81 0.51
52 1 0.01
53 2 0.01
55 1 0.01
56 35 0.22
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:22944561 original size:16 final size:17
Alignment explanation
Indices: 22944536--22944569 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
22944526 ATAAATTAAC
*
22944536 TAAAATAAAT-AAAAAA
1 TAAAAAAAATGAAAAAA
22944552 TAAAAAAAATGAAAAAA
1 TAAAAAAAATGAAAAAA
22944569 T
1 T
22944570 CGACAAAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (17 bp):
TAAAAAAAATGAAAAAA
Found at i:22945594 original size:8 final size:8
Alignment explanation
Indices: 22945581--22945625 Score: 81
Period size: 8 Copynumber: 5.6 Consensus size: 8
22945571 TCACAATAGT
22945581 TATCGAGA
1 TATCGAGA
22945589 TATCGAGA
1 TATCGAGA
22945597 TATCGAGA
1 TATCGAGA
22945605 TATCGAGA
1 TATCGAGA
*
22945613 TATCAAGA
1 TATCGAGA
22945621 TATCG
1 TATCG
22945626 TCGTTTGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (8 bp):
TATCGAGA
Found at i:22950380 original size:24 final size:24
Alignment explanation
Indices: 22950344--22950481 Score: 168
Period size: 24 Copynumber: 5.8 Consensus size: 24
22950334 TAACACACCA
*
22950344 CGTTGTGGACAAGCCACTGTATAT
1 CGTTGTGGTCAAGCCACTGTATAT
* * *
22950368 CGTTGTAGTCAAGCCACTGGATAA
1 CGTTGTGGTCAAGCCACTGTATAT
* *
22950392 CGTTGTGGTTAAGCCATTGTATAT
1 CGTTGTGGTCAAGCCACTGTATAT
* *
22950416 CATTGTGGTCAAGCCACTATATAT
1 CGTTGTGGTCAAGCCACTGTATAT
* * * *
22950440 CATTGTGGTCAAGTCACTGAATAA
1 CGTTGTGGTCAAGCCACTGTATAT
22950464 CGTTGTGGTCAAGCCACT
1 CGTTGTGGTCAAGCCACT
22950482 TTCTATTGCA
Statistics
Matches: 95, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 95 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (24 bp):
CGTTGTGGTCAAGCCACTGTATAT
Found at i:22950464 original size:72 final size:72
Alignment explanation
Indices: 22950346--22950479 Score: 205
Period size: 72 Copynumber: 1.9 Consensus size: 72
22950336 ACACACCACG
* * * *
22950346 TTGTGGACAAGCCACTGTATATCGTTGTAGTCAAGCCACTGGATAACGTTGTGGTTAAGCCATTG
1 TTGTGGACAAGCCACTATATATCATTGTAGTCAAGCCACTGAATAACGTTGTGGTCAAGCCATTG
22950411 TATATCA
66 TATATCA
* * *
22950418 TTGTGGTCAAGCCACTATATATCATTGTGGTCAAGTCACTGAATAACGTTGTGGTCAAGCCA
1 TTGTGGACAAGCCACTATATATCATTGTAGTCAAGCCACTGAATAACGTTGTGGTCAAGCCA
22950480 CTTTCTATTG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 55 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (72 bp):
TTGTGGACAAGCCACTATATATCATTGTAGTCAAGCCACTGAATAACGTTGTGGTCAAGCCATTG
TATATCA
Found at i:22958726 original size:16 final size:15
Alignment explanation
Indices: 22958705--22958747 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
22958695 TTATTTCTTT
22958705 TTATTTTATATTTTGA
1 TTATTTTAT-TTTTGA
*
22958721 TTATTTTATTTTTGG
1 TTATTTTATTTTTGA
22958736 TT-TGTTTATTTT
1 TTAT-TTTATTTT
22958748 GTTTTTCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 1 0.04
15 15 0.60
16 9 0.36
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.74
Consensus pattern (15 bp):
TTATTTTATTTTTGA
Found at i:22958744 original size:20 final size:20
Alignment explanation
Indices: 22958716--22958753 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22958706 TATTTTATAT
22958716 TTTGATTATTTTATTTTTGG
1 TTTGATTATTTTATTTTTGG
* *
22958736 TTTGTTTATTTTGTTTTT
1 TTTGATTATTTTATTTTT
22958754 CTATGCAAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.00, G:0.13, T:0.76
Consensus pattern (20 bp):
TTTGATTATTTTATTTTTGG
Found at i:22969918 original size:98 final size:98
Alignment explanation
Indices: 22969749--22969943 Score: 338
Period size: 98 Copynumber: 2.0 Consensus size: 98
22969739 ATACAATAAA
*
22969749 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
22969814 CATTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CATTTAGAATCCCAAACTCGGAATATTTCCTTT
* *
22969847 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATGCGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAA-T
*
22969912 CC-TTTAGAATCTCAAACTCGGAATATTTCCTT
65 CCATTTAGAATCCCAAACTCGGAATATTTCCTT
22969944 CATGATTTTT
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
98 89 0.97
99 3 0.03
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CATTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:22974563 original size:30 final size:30
Alignment explanation
Indices: 22974527--22974590 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
22974517 TTGGAATTGG
22974527 TGTAAATTGCATTTTCTCTGTATTTTGTCT
1 TGTAAATTGCATTTTCTCTGTATTTTGTCT
22974557 TGTAAATTGCATTTTCTCTGTATTTTGTCT
1 TGTAAATTGCATTTTCTCTGTATTTTGTCT
22974587 TGTA
1 TGTA
22974591 TCAAATCTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.17, C:0.12, G:0.14, T:0.56
Consensus pattern (30 bp):
TGTAAATTGCATTTTCTCTGTATTTTGTCT
Found at i:22981094 original size:20 final size:18
Alignment explanation
Indices: 22981044--22981095 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
22981034 GTACAAGATA
22981044 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
*
22981061 AATATTAGGA-TAATCACTTT
1 AATATTA-AATTAAT-A-TTT
22981081 AATATTAAATTAATA
1 AATATTAAATTAATA
22981096 AAATATTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 10 0.36
18 1 0.04
19 3 0.11
20 14 0.50
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Done.