Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 42 of 117
Found at i:10089792 original size:18 final size:18
Alignment explanation
Indices: 10089765--10089805 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
10089755 AGTAACATTA
10089765 AAATTAAAATCAAAATTC
1 AAATTAAAATCAAAATTC
* **
10089783 AAATTCAAATTTAAATTC
1 AAATTAAAATCAAAATTC
10089801 AAATT
1 AAATT
10089806 TTTGAGCTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATTAAAATCAAAATTC
Found at i:10090095 original size:43 final size:43
Alignment explanation
Indices: 10090041--10090523 Score: 387
Period size: 43 Copynumber: 11.2 Consensus size: 43
10090031 AACAAATGTA
* * *
10090041 TTGAAATTTTTGAAAAATAAAGTGCTCTTCCACAACTGAGGTT
1 TTGAAACTTTTGAAAAATAAAATGCTCTTCCACAACTGAGGCT
* * *
10090084 TTTAAACTTTTGAAAAATAAAATGCT-TTCCCATAACTGAGGCA
1 TTGAAACTTTTGAAAAATAAAATGCTCTT-CCACAACTGAGGCT
* *
10090127 TTGAAACTTTT-AGAAAATAAAATGCT-TCCCCACAACTAAGGCT
1 TTGAAACTTTTGA-AAAATAAAATGCTCT-TCCACAACTGAGGCT
* *
10090170 TTGAAACTTTTGAAAAATAAAATGCTCCTCCACAACTAAGGCT
1 TTGAAACTTTTGAAAAATAAAATGCTCTTCCACAACTGAGGCT
* * * * * *
10090213 TTGAAACATGTGAAAGATAAAATGTTCCTT-AACAACTAAGGCT
1 TTGAAACTTTTGAAAAATAAAATGCT-CTTCCACAACTGAGGCT
* * * *
10090256 TTGAAA-TTTTGGAAAGATAAAATGCT-TTCTCACTATTGAGGTT
1 TTGAAACTTTT-GAAAAATAAAATGCTCTTC-CACAACTGAGGCT
* * ** * *
10090299 TTGAAACTTTTGAAAGATAAAACGCTCCCCCATAATTGAGGCT
1 TTGAAACTTTTGAAAAATAAAATGCTCTTCCACAACTGAGGCT
* * * * * * *
10090342 TTGAAACTATTGAAAGATAAACTGTTTTTCCATAATTGAGG-T
1 TTGAAACTTTTGAAAAATAAAATGCTCTTCCACAACTGAGGCT
* * *
10090384 ATTGAAACATTTGAAAAATAACATGCT-TCCCTCACAACTGAGG-T
1 -TTGAAACTTTTGAAAAATAAAATGCTCT-TC-CACAACTGAGGCT
* * *
10090428 ATTGAAACTTTTGAAAAATAAAATGATC--CCTTACAATTGAGGCA
1 -TTGAAACTTTTGAAAAATAAAATGCTCTTCC--ACAACTGAGGCT
* * *
10090472 TTGAAACTTTTGAAAAATAAAATACTCATT-CACAACTAAGGCA
1 TTGAAACTTTTGAAAAATAAAATGCTC-TTCCACAACTGAGGCT
10090515 TTGAAACTT
1 TTGAAACTT
10090524 AAAACAATCT
Statistics
Matches: 361, Mismatches: 58, Indels: 42
0.78 0.13 0.09
Matches are distributed among these distances:
41 3 0.01
42 8 0.02
43 307 0.85
44 42 0.12
45 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (43 bp):
TTGAAACTTTTGAAAAATAAAATGCTCTTCCACAACTGAGGCT
Found at i:10090276 original size:129 final size:127
Alignment explanation
Indices: 10090041--10090523 Score: 447
Period size: 129 Copynumber: 3.7 Consensus size: 127
10090031 AACAAATGTA
* * * * * *
10090041 TTGAAATTTTTGAAAAATAAAGTGCTCTTCCACAACTGAGGTTTTTAAACTTTTGAAAAATAAAA
1 TTGAAACTTTTGAAAAATAAAATGCTCCTCCACAACTGAGGCTTTGAAACATTTGAAAAATAAAA
* * *
10090106 TGCTTTCC--CATAACTGAGGCATTGAAACTTTTAGAAAATAAAATGCTTCCCCACAACTAAGGC
66 TG--TTCCTTCACAACTAAGGCATTGAAACTTTT-GAAAATAAAATGCTTCCCCACAACTGAGG-
10090169 T
127 T
* * *
10090170 TTGAAACTTTTGAAAAATAAAATGCTCCTCCACAACTAAGGCTTTGAAACATGTGAAAGATAAAA
1 TTGAAACTTTTGAAAAATAAAATGCTCCTCCACAACTGAGGCTTTGAAACATTTGAAAAATAAAA
* * * * * *
10090235 TGTTCCTTAACAACTAAGGCTTTGAAA-TTTTGGAAAGATAAAATGCTTTCTCACTATTGAGGTT
66 TGTTCCTTCACAACTAAGGCATTGAAACTTTT-GAAA-ATAAAATGCTTCCCCACAACTGAGG-T
* * * * * *
10090299 TTGAAACTTTTGAAAGATAAAACGCTCCCCCATAATTGAGGCTTTGAAAC-TATTGAAAGATAAA
1 TTGAAACTTTTGAAAAATAAAATGCTCCTCCACAACTGAGGCTTTGAAACAT-TTGAAAAATAAA
* * * * * * * *
10090363 CTGTT-TTTCCATAATTGAGGTATTGAAACATTTGAAAAATAACATGCTTCCCTCACAACTGAGG
65 ATGTTCCTT-CACAACTAAGGCATTGAAACTTTTG-AAAATAAAATGCTTCCC-CACAACTGAGG
10090427 T
127 T
* * * * *
10090428 ATTGAAACTTTTGAAAAATAAAATGATCC-CTTACAATTGAGGCATTGAAACTTTTGAAAAATAA
1 -TTGAAACTTTTGAAAAATAAAATGCTCCTC-CACAACTGAGGCTTTGAAACATTTGAAAAATAA
** *
10090492 AATACTCATTCACAACTAAGGCATTGAAACTT
64 AATGTTCCTTCACAACTAAGGCATTGAAACTT
10090524 AAAACAATCT
Statistics
Matches: 285, Mismatches: 57, Indels: 23
0.78 0.16 0.06
Matches are distributed among these distances:
127 4 0.01
128 11 0.04
129 180 0.63
130 87 0.31
131 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (127 bp):
TTGAAACTTTTGAAAAATAAAATGCTCCTCCACAACTGAGGCTTTGAAACATTTGAAAAATAAAA
TGTTCCTTCACAACTAAGGCATTGAAACTTTTGAAAATAAAATGCTTCCCCACAACTGAGGT
Found at i:10095339 original size:30 final size:30
Alignment explanation
Indices: 10095298--10095354 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10095288 CTTCTTCCTA
10095298 ATAAAAAAATCATGCAATAAAT-TAAATTT
1 ATAAAAAAATCATGCAATAAATATAAATTT
*
10095327 ATAAAAGAAATCATGCTATAAATATAAA
1 ATAAAA-AAATCATGCAATAAATATAAA
10095355 ATATCATGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 6 0.24
30 15 0.60
31 4 0.16
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (30 bp):
ATAAAAAAATCATGCAATAAATATAAATTT
Found at i:10096932 original size:18 final size:18
Alignment explanation
Indices: 10096909--10096943 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10096899 AATTACATTA
*
10096909 AAATTCAAATCAAAATTC
1 AAATTCAAATAAAAATTC
10096927 AAATTCAAATAAAAATT
1 AAATTCAAATAAAAATT
10096944 AATATTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATTCAAATAAAAATTC
Found at i:10100328 original size:2 final size:2
Alignment explanation
Indices: 10100321--10100354 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10100311 AACAATCTCT
10100321 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10100355 GAATTATCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10100596 original size:3 final size:3
Alignment explanation
Indices: 10100584--10100613 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
10100574 TTCTGCTGCA
*
10100584 ATT ATG ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10100614 TGACTCCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:10101058 original size:25 final size:24
Alignment explanation
Indices: 10101030--10101084 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 24
10101020 TAAAAAACGG
10101030 ATAATTTTTAATTCT-TTAAAAATAA
1 ATAATTTTT-A-TCTATTAAAAATAA
*
10101055 ATAATTTTTATCTATTCAAAATAA
1 ATAATTTTTATCTATTAAAAATAA
10101079 ATAATT
1 ATAATT
10101085 ATGTTAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 3 0.11
24 16 0.57
25 9 0.32
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (24 bp):
ATAATTTTTATCTATTAAAAATAA
Found at i:10101633 original size:26 final size:26
Alignment explanation
Indices: 10101597--10101650 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
10101587 TCAGAAAAGT
10101597 TGTTTTCCGAATATGCGAATCCAGCG
1 TGTTTTCCGAATATGCGAATCCAGCG
*
10101623 TGTTTTCCGAATATGCTAATCCAGCG
1 TGTTTTCCGAATATGCGAATCCAGCG
10101649 TG
1 TG
10101651 GACAAACTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (26 bp):
TGTTTTCCGAATATGCGAATCCAGCG
Found at i:10103864 original size:22 final size:22
Alignment explanation
Indices: 10103822--10103871 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
10103812 AATTATAAGA
*
10103822 ATAATATTATTTAAAATTTTAAT
1 ATAA-ATTATATAAAATTTTAAT
10103845 ATAAATTATATACAAA-TTTAAT
1 ATAAATTATATA-AAATTTTAAT
10103867 A-AAAT
1 ATAAAT
10103872 AAAAAAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 4 0.16
22 14 0.56
23 7 0.28
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATAAATTATATAAAATTTTAAT
Found at i:10105586 original size:21 final size:22
Alignment explanation
Indices: 10105562--10105605 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
10105552 TTTTATATCT
*
10105562 AATC-TATTTAAAT-TTATTAAA
1 AATCATATTAAAATATTA-TAAA
10105583 AATCATATTAAAATATTATAAA
1 AATCATATTAAAATATTATAAA
10105605 A
1 A
10105606 TTTTTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 13 0.65
23 3 0.15
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
AATCATATTAAAATATTATAAA
Found at i:10106469 original size:97 final size:96
Alignment explanation
Indices: 10106288--10106462 Score: 239
Period size: 97 Copynumber: 1.8 Consensus size: 96
10106278 AATTTGTTTA
* *
10106288 AAAAAATCATTAAATCTTTTAATAGTTTAATAAGATTTAACTTTGAAATTTAAATCTTCTAATAG
1 AAAAAATCATTAAATCTTTCAATAGTTTAATAAGATTTAACTTTGAAATTT-AATCTTCAAATAG
*
10106353 TTGGTAAGATTAATTAAAATTTTATTTTCTTT
65 TTGGTAAGAATAATTAAAATTTTATTTTCTTT
* * *
10106385 AAAAAATCATTAAA-CATTTCAATAGTTTAGTAAGTTTTAA-TTTGAGATTT-ATCTTCAAATAG
1 AAAAAATCATTAAATC-TTTCAATAGTTTAATAAGATTTAACTTTGAAATTTAATCTTCAAATAG
*
10106447 TTTGGTAGGAATAATT
65 -TTGGTAAGAATAATT
10106463 TTAAAATATT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
94 11 0.16
95 13 0.19
96 10 0.14
97 35 0.51
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (96 bp):
AAAAAATCATTAAATCTTTCAATAGTTTAATAAGATTTAACTTTGAAATTTAATCTTCAAATAGT
TGGTAAGAATAATTAAAATTTTATTTTCTTT
Found at i:10109340 original size:17 final size:18
Alignment explanation
Indices: 10109300--10109342 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
10109290 TATGGATTGA
*
10109300 AATAGAAAAGAAAAGTAG
1 AATAGAAAAGAAAAGAAG
*
10109318 CA-AGAAAAGAAAA-AAG
1 AATAGAAAAGAAAAGAAG
10109334 AATAGAAAA
1 AATAGAAAA
10109343 TAATAATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 3 0.14
17 17 0.81
18 1 0.05
ACGTcount: A:0.72, C:0.02, G:0.19, T:0.07
Consensus pattern (18 bp):
AATAGAAAAGAAAAGAAG
Found at i:10109349 original size:3 final size:3
Alignment explanation
Indices: 10109341--10109406 Score: 87
Period size: 3 Copynumber: 22.0 Consensus size: 3
10109331 AAGAATAGAA
** * *
10109341 AAT AAT AAT AAT AAT AAT GGT ATT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
10109389 AAT AAT AAT GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
10109407 GAACAAGCTT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:10110086 original size:117 final size:117
Alignment explanation
Indices: 10109930--10110308 Score: 345
Period size: 117 Copynumber: 3.2 Consensus size: 117
10109920 ATGATTGAAC
* * ** * * *
10109930 TGATGTCGTGAGTCAAAATAAAGCGACCATA-ACCTAGTCAAGATCGAAAAGAAATGACCGGATT
1 TGATGTCGCGAGTTAAAATAAAATGACCA-AGACCGAGTCAAGATCGAAAAGAAATGATCGGACT
** * ** *
10109994 GATGTCGCGGGTCTGAAGATGATCTGACCTGAGTTGAGATCAAATGATTAGGA
65 GATGTCATGAGTCTGAAGATGATCTGACCTGAGTCAAGATCAAATGACTAGGA
* * * * * * * *
10110047 TGATGTCACGAGTTAAAATAAAATGACCAGGACCGAGTCATGGT-TAAAAAAAATGATCAGACTA
1 TGATGTCGCGAGTTAAAATAAAATGACCAAGACCGAGTCAAGATCGAAAAGAAATGATCGGACTG
* * * * * * *
10110111 ATGTCATGAATC-CAACAATAATCTGACTTGAGTCAAGATTAAATGACTAGAA
66 ATGTCATGAGTCTGAA-GATGATCTGACCTGAGTCAAGATCAAATGACTAGGA
* ** ** *
10110163 TGATG-CTGCGAGTCAAAATAAAATGACCAAGATTGAGTTGAGTTCGAAAAGAAATGATCGGACT
1 TGATGTC-GCGAGTTAAAATAAAATGACCAAGACCGAGTCAAGATCGAAAAGAAATGATCGGACT
* *
10110227 GATGTCATGAGTTTGAAGATGATCTGACCTGAGTCAAAATCAAATGACT-GAGA
65 GATGTCATGAGTCTGAAGATGATCTGACCTGAGTCAAGATCAAATGACTAG-GA
* *
10110280 TGATGTTGCAAGTTAAAATAAAATGACCA
1 TGATGTCGCGAGTTAAAATAAAATGACCA
10110309 TGATAGAGTT
Statistics
Matches: 202, Mismatches: 53, Indels: 14
0.75 0.20 0.05
Matches are distributed among these distances:
115 3 0.01
116 84 0.42
117 113 0.56
118 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (117 bp):
TGATGTCGCGAGTTAAAATAAAATGACCAAGACCGAGTCAAGATCGAAAAGAAATGATCGGACTG
ATGTCATGAGTCTGAAGATGATCTGACCTGAGTCAAGATCAAATGACTAGGA
Found at i:10110318 original size:117 final size:114
Alignment explanation
Indices: 10109975--10110390 Score: 370
Period size: 117 Copynumber: 3.6 Consensus size: 114
10109965 AGTCAAGATC
* * * ** * * * ** *
10109975 GAAAAGAAATGACCGGATTGATGTCGCGGGTCTGAAGATGATCTGACCTGAGTTGAGATCAAATG
1 GAAAAGAAATGATCGGACTAATGTCATGAGTTTGAAAATGATCTGACCTGAGTCAAAATCAAATG
* ** * **
10110040 ATTAGGATGATGTCACGAGTTAAAATAAAATGACCAGGACCGAGTCATGGTT
66 ACTA-GATGATGTTGCGAGTTAAAATAAAATGACCAAGATAGAGT--TGGTT
* * * ** * * * *
10110092 -AAAAAAAATGATCAGACTAATGTCATGA-ATCCAACAATAATCTGACTTGAGTCAAGATTAAAT
1 GAAAAGAAATGATCGGACTAATGTCATGAGTTTGAA-AATGATCTGACCTGAGTCAAAATCAAAT
* * *
10110155 GACTAGAATGATGCTGCGAGTCAAAATAAAATGACCAAGATTGAGTTGAGTT
65 GACTAG-ATGATGTTGCGAGTTAAAATAAAATGACCAAGATAGAGTTG-GTT
* *
10110207 CGAAAAGAAATGATCGGACTGATGTCATGAGTTTGAAGATGATCTGACCTGAGTCAAAATCAAAT
1 -GAAAAGAAATGATCGGACTAATGTCATGAGTTTGAAAATGATCTGACCTGAGTCAAAATCAAAT
* *
10110272 GACTGAGATGATGTTGCAAGTTAAAATAAAATGACCATGATAGAGTTGGGGTT
65 GACT-AGATGATGTTGCGAGTTAAAATAAAATGACCAAGATAGAGTT--GGTT
* * * * *
10110325 AAAAAGAAATGATCTGACTAATGTCGT-AGGTTTGAAAATGATCTGACCTAAGTCGAAATCAAAT
1 GAAAAGAAATGATCGGACTAATGTCATGA-GTTTGAAAATGATCTGACCTGAGTCAAAATCAAAT
10110389 GA
65 GA
10110391 GTGGATAGTG
Statistics
Matches: 240, Mismatches: 49, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
114 2 0.01
115 6 0.03
116 79 0.33
117 144 0.60
118 8 0.03
119 1 0.00
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.25
Consensus pattern (114 bp):
GAAAAGAAATGATCGGACTAATGTCATGAGTTTGAAAATGATCTGACCTGAGTCAAAATCAAATG
ACTAGATGATGTTGCGAGTTAAAATAAAATGACCAAGATAGAGTTGGTT
Found at i:10110645 original size:41 final size:41
Alignment explanation
Indices: 10110557--10110645 Score: 124
Period size: 41 Copynumber: 2.2 Consensus size: 41
10110547 AATACATATA
* * *
10110557 TTTGGTAAAGAAACTATTTTTCATCAACTTGAAGGCACATC
1 TTTGGCAAAGAAACCATCTTTCATCAACTTGAAGGCACATC
* * *
10110598 TCTGGCAAAGAAACCATCTTTCATCAACTTGGAGGCACATT
1 TTTGGCAAAGAAACCATCTTTCATCAACTTGAAGGCACATC
10110639 TTTGGCA
1 TTTGGCA
10110646 TTAGCCTGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (41 bp):
TTTGGCAAAGAAACCATCTTTCATCAACTTGAAGGCACATC
Found at i:10117070 original size:59 final size:58
Alignment explanation
Indices: 10116930--10117134 Score: 277
Period size: 59 Copynumber: 3.5 Consensus size: 58
10116920 GCTCGAAGAA
* *
10116930 TGAGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAGTTTTTTCTAAAAAAATATTT
1 TGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAG--TTTTCAAAAAAAATATTT
* *
10116990 TAGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAGCTTTCAAAAAAAATATCTT
1 T-GAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAGTTTTCAAAAAAAATAT-TT
* * * **
10117050 TGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAATGGAT-TTT
1 TGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAGTTTTCAAAAA-AAATATTT
10117108 TGAGGAAAAGTTAAAAGTATCAATTTT
1 TGAGGAAAAGTTAAAAGTATCAATTTT
10117135 TTCTGTACAG
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
58 28 0.22
59 59 0.45
60 6 0.05
61 37 0.28
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.36
Consensus pattern (58 bp):
TGAGGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAGTTTTCAAAAAAAATATTT
Found at i:10121919 original size:62 final size:63
Alignment explanation
Indices: 10121852--10121970 Score: 177
Period size: 62 Copynumber: 1.9 Consensus size: 63
10121842 TGGTGCTAAA
* * **
10121852 AAGCTTATGAACGATGACCAAGTGACAGATGATGAAATTT-TTTTGAAATGGCTAGTATTGAG
1 AAGCTTATGAACGATAACCAAGTGACAAAACATGAAATTTATTTTGAAATGGCTAGTATTGAG
* *
10121914 AAGCTTATGAACGATAACTAAGTGACAAAACATGAAATTTATTTTGAAATGGTTAGT
1 AAGCTTATGAACGATAACCAAGTGACAAAACATGAAATTTATTTTGAAATGGCTAGT
10121971 GCTGATAAGC
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
62 35 0.70
63 15 0.30
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (63 bp):
AAGCTTATGAACGATAACCAAGTGACAAAACATGAAATTTATTTTGAAATGGCTAGTATTGAG
Found at i:10123069 original size:42 final size:41
Alignment explanation
Indices: 10123010--10123320 Score: 261
Period size: 42 Copynumber: 7.4 Consensus size: 41
10123000 ATTGTTAAGA
*
10123010 AGCAATTTATTTTTCAAAGTCGGGGTTGCTTCTATTTAGAGG
1 AGCAATTTACTTTTCAAAGTCGGGG-TGCTTCTATTTAGAGG
* *
10123052 AGCAATTTATTTTTCAAAGTCGTGGTTG-TCTCTATTTAGAGG
1 AGCAATTTACTTTTCAAAGTCG-GGGTGCT-TCTATTTAGAGG
***
10123094 AGCAATTCGTTTTTCAAAGTCGTGGGTGCCTT-TATTTAGAGG
1 AGCAATTTACTTTTCAAAGTCG-GGGTG-CTTCTATTTAGAGG
* * * ** * *
10123136 ATCAATTTACTTTCCAAAAGTTGAAGTGCCTT-TGTTTAAAGG
1 AGCAATTTACTTTTC-AAAGTCGGGGTG-CTTCTATTTAGAGG
* *
10123178 AGCAATTTACTTTTCAAAGTCGTGGGTGCCTCTATTTAAAGG
1 AGCAATTTACTTTTCAAAGTCG-GGGTGCTTCTATTTAGAGG
* * * * * *
10123220 AGCAATTTACTTTCCAAAAGTTGAGGTGCCTCTGTTTAGAAG
1 AGCAATTTACTTTTC-AAAGTCGGGGTGCTTCTATTTAGAGG
* ** *
10123262 AGCAATTTACTTTTCAAAGTTGTAGTGCCTT-TATTTAGAGA
1 AGCAATTTACTTTTCAAAGTCGGGGTG-CTTCTATTTAGAGG
* *
10123303 AGCAATTGACTTTCCAAA
1 AGCAATTTACTTTTCAAA
10123321 AATTATTGAG
Statistics
Matches: 224, Mismatches: 36, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
41 42 0.19
42 166 0.74
43 15 0.07
44 1 0.00
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (41 bp):
AGCAATTTACTTTTCAAAGTCGGGGTGCTTCTATTTAGAGG
Found at i:10123179 original size:84 final size:84
Alignment explanation
Indices: 10123010--10123321 Score: 373
Period size: 84 Copynumber: 3.7 Consensus size: 84
10123000 ATTGTTAAGA
* * *
10123010 AGCAATTTATTTTTCAAAGTCG-GGGTTG-CTTCTATTTAGAGGAGCAATTTATTTTTC-AAAGT
1 AGCAATTTACTTTTCAAAGTCGTGGG-TGCCTT-TATTTAGAGGAGCAATTTACTTTCCAAAAGT
* * * * *
10123072 CGTGGTTGTCTCTATTTAGAGG
64 TGAGG-TGCCTCTGTTTAAAGG
*** *
10123094 AGCAATTCGTTTTTCAAAGTCGTGGGTGCCTTTATTTAGAGGATCAATTTACTTTCCAAAAGTTG
1 AGCAATTTACTTTTCAAAGTCGTGGGTGCCTTTATTTAGAGGAGCAATTTACTTTCCAAAAGTTG
* *
10123159 AAGTGCCTTTGTTTAAAGG
66 AGGTGCCTCTGTTTAAAGG
* *
10123178 AGCAATTTACTTTTCAAAGTCGTGGGTGCCTCTATTTAAAGGAGCAATTTACTTTCCAAAAGTTG
1 AGCAATTTACTTTTCAAAGTCGTGGGTGCCTTTATTTAGAGGAGCAATTTACTTTCCAAAAGTTG
10123243 AGGTGCCTCTGTTTAGAA-G
66 AGGTGCCTCTGTTTA-AAGG
* * * *
10123262 AGCAATTTACTTTTCAAAGTTGT-AGTGCCTTTATTTAGAGAAGCAATTGACTTTCCAAAA
1 AGCAATTTACTTTTCAAAGTCGTGGGTGCCTTTATTTAGAGGAGCAATTTACTTTCCAAAA
10123322 ATTATTGAGC
Statistics
Matches: 198, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
83 32 0.16
84 151 0.76
85 15 0.08
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (84 bp):
AGCAATTTACTTTTCAAAGTCGTGGGTGCCTTTATTTAGAGGAGCAATTTACTTTCCAAAAGTTG
AGGTGCCTCTGTTTAAAGG
Found at i:10123248 original size:126 final size:124
Alignment explanation
Indices: 10123042--10123320 Score: 344
Period size: 126 Copynumber: 2.2 Consensus size: 124
10123032 GGGTTGCTTC
* * * * **
10123042 TATTTAGAGGAGCAATTTATTTTTCAAAGTCGTGGTTGTCTCTATTTAGAGGAGCAATTCGTTTT
1 TATTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGGTGCCTCTATTTAAAGGAGCAATTCACTTT
* * * *
10123107 TCAAAGTCGTGGGTGCCTTTATTTAGAGGATCAATTTACTTTCCAAAAGTTGAAGTGCCTT
66 CCAAAGTC-TGGGTGCCTCTATTTAGAAGAGCAATTTACTTTCC-AAAGTTGAAGTGCCTT
* * *
10123168 TGTTTAAAGGAGCAATTTACTTTTCAAAGTCGTGGGTGCCTCTATTTAAAGGAGCAATTTACTTT
1 TATTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGGTGCCTCTATTTAAAGGAGCAATTCACTTT
* * *
10123233 CCAAAAGT-TGAGGTGCCTCTGTTTAGAAGAGCAATTTACTTTTCAAAGTTGTAGTGCCTT
66 CC-AAAGTCTG-GGTGCCTCTATTTAGAAGAGCAATTTACTTTCCAAAGTTGAAGTGCCTT
* * *
10123293 TATTTAGAGAAGCAATTGACTTTCCAAA
1 TATTTAGAGGAGCAATTTACTTTTCAAA
10123321 AATTATTGAG
Statistics
Matches: 130, Mismatches: 21, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
125 40 0.31
126 85 0.65
127 5 0.04
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (124 bp):
TATTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGGTGCCTCTATTTAAAGGAGCAATTCACTTT
CCAAAGTCTGGGTGCCTCTATTTAGAAGAGCAATTTACTTTCCAAAGTTGAAGTGCCTT
Found at i:10123377 original size:44 final size:44
Alignment explanation
Indices: 10123317--10123658 Score: 429
Period size: 44 Copynumber: 7.7 Consensus size: 44
10123307 ATTGACTTTC
* * *
10123317 CAAAAATTATTGAGCCTTTGATTAGAGGAGCCTTGTTTATTTTT
1 CAAAAGTTGTTGAGCCTCTGATTAGAGGAGCCTTGTTTATTTTT
* * *
10123361 TAAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTGTTTGTGTTTGT
1 CAAAAGTTGTTGAGCCTCTGATTAGAGGAGCCTTGTTTAT-TTT-T
* *
10123407 -TAAAGTCGTTTGAGCCTCTGATTAGAGGAGCCTTGTTTATTTTT
1 CAAAAGTTG-TTGAGCCTCTGATTAGAGGAGCCTTGTTTATTTTT
*
10123451 CAAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTT
1 CAAAAGTTGTTGAGCCTCTGATTAGAGGAGCCTTGTTTATTTTT
** * *
10123495 CAAAAGTCATTGAGCCTCTAATTAGATGG-GCCTTGTTTATTTTC
1 CAAAAGTTGTTGAGCCTCTGATTAGA-GGAGCCTTGTTTATTTTT
10123539 CAAAAGTTGTTGAGCCTCTGATTAGAGGAGCCTTGTTTATTTTT
1 CAAAAGTTGTTGAGCCTCTGATTAGAGGAGCCTTGTTTATTTTT
* **
10123583 CAAAAGTTGTTGAGCCTCTGATTAGAAGAGTTTTGTTTATGTTTCT
1 CAAAAGTTGTTGAGCCTCTGATTAGAGGAGCCTTGTTTAT-TTT-T
** * *
10123629 C-AAAGTCATTAAGCCTCTGCTTAGAGGAGC
1 CAAAAGTTGTTGAGCCTCTGATTAGAGGAGC
10123659 TTTGATCAAA
Statistics
Matches: 259, Mismatches: 31, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.01
44 179 0.69
45 46 0.18
46 32 0.12
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.41
Consensus pattern (44 bp):
CAAAAGTTGTTGAGCCTCTGATTAGAGGAGCCTTGTTTATTTTT
Found at i:10127273 original size:59 final size:56
Alignment explanation
Indices: 10127206--10127347 Score: 187
Period size: 59 Copynumber: 2.5 Consensus size: 56
10127196 GCTCGAAGAA
* *
10127206 TGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAT-AAGCTTTCAAAAAAAATATCTT
1 TGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAG-TTTC--AAAAAATAT-TT
* * *
10127265 TTAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCTAAAAATATTT
1 TGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAGTTTCAAAAAATATTT
*
10127321 TGGGGAAAAGTTGAAAGTATCAATTTT
1 TGAGGAAAAGTTGAAAGTATCAATTTT
10127348 TCCTGTACAA
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
56 27 0.36
57 8 0.11
59 37 0.49
60 3 0.04
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (56 bp):
TGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAGTTTCAAAAAATATTT
Found at i:10136567 original size:10 final size:10
Alignment explanation
Indices: 10136519--10136565 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
10136509 AAAGTTCTTC
10136519 AAAAAA-CCTA
1 AAAAAATCC-A
10136529 AAAAAATCCA
1 AAAAAATCCA
10136539 AAAAAATCCA
1 AAAAAATCCA
*
10136549 AAAAAATTCA
1 AAAAAATCCA
10136559 AAAAAAT
1 AAAAAAT
10136566 TCCTAAATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
10 33 0.94
11 2 0.06
ACGTcount: A:0.72, C:0.15, G:0.00, T:0.13
Consensus pattern (10 bp):
AAAAAATCCA
Found at i:10136985 original size:3 final size:3
Alignment explanation
Indices: 10136977--10137027 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
10136967 GGAAAAATAG
10136977 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10137025 AAT
1 AAT
10137028 GAACAAGCTC
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10138124 original size:4 final size:4
Alignment explanation
Indices: 10138115--10138141 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
10138105 TAACCTAATC
10138115 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
10138142 GATTGTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:10139636 original size:18 final size:18
Alignment explanation
Indices: 10139613--10139650 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
10139603 CGATTATATG
10139613 ATAAAAAAT-TAATATAA
1 ATAAAAAATATAATATAA
*
10139630 ATAAAAAATATAATATTA
1 ATAAAAAATATAATATAA
10139648 ATA
1 ATA
10139651 TGATTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAAAAATATAATATAA
Found at i:10139803 original size:41 final size:39
Alignment explanation
Indices: 10139739--10139816 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 39
10139729 TTACAAAATA
*
10139739 TAATTTTTATATAAAATATTATATAAATAAATAAATTAC
1 TAATTTTTATATAAAATAATATATAAATAAATAAATTAC
* *
10139778 TAATATTTTATATGAAATAAATATATAAATATATAAATT
1 TAAT-TTTTATATAAAAT-AATATATAAATAAATAAATT
10139817 TATTTGAAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 4 0.12
40 12 0.35
41 18 0.53
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (39 bp):
TAATTTTTATATAAAATAATATATAAATAAATAAATTAC
Found at i:10139808 original size:26 final size:25
Alignment explanation
Indices: 10139746--10139811 Score: 71
Period size: 28 Copynumber: 2.5 Consensus size: 25
10139736 ATATAATTTT
10139746 TATATAAA-ATATTATATAAATAAA
1 TATATAAATATATTATATAAATAAA
* *
10139770 TAAATTACTAATATTTTATATGAAATAAA
1 TATA-TA--AATATATTATAT-AAATAAA
10139799 TATATAAATATAT
1 TATATAAATATAT
10139812 AAATTTATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
24 3 0.09
25 2 0.06
26 6 0.18
27 2 0.06
28 10 0.30
29 10 0.30
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (25 bp):
TATATAAATATATTATATAAATAAA
Found at i:10140186 original size:21 final size:21
Alignment explanation
Indices: 10140145--10140186 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10140135 CTAATTATTA
* *
10140145 TTATGAATTTAAGAATTAAAT
1 TTATAAATTTAAGAATAAAAT
10140166 TTATAAATTTATA-AATAAAAT
1 TTATAAATTTA-AGAATAAAAT
10140187 AAAATACCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (21 bp):
TTATAAATTTAAGAATAAAAT
Found at i:10144702 original size:3 final size:3
Alignment explanation
Indices: 10144694--10144722 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10144684 TTCAATAGTT
10144694 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10144723 TCTTGTAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10145323 original size:19 final size:20
Alignment explanation
Indices: 10145286--10145323 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
10145276 ATTAGAAAAG
* *
10145286 TTTGAATTTTTTTGGTGACC
1 TTTGAATTTTTCTGATGACC
10145306 TTTGAA-TTTTCTGATGAC
1 TTTGAATTTTTCTGATGAC
10145324 TAAAATCCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.53
Consensus pattern (20 bp):
TTTGAATTTTTCTGATGACC
Found at i:10145659 original size:19 final size:18
Alignment explanation
Indices: 10145631--10145671 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
10145621 TTTGGTAGGT
**
10145631 TTTTCTTTTTTCTTTTTA
1 TTTTCTTTTTGATTTTTA
10145649 TTTTCTGTTTTGATTTTTA
1 TTTTCT-TTTTGATTTTTA
10145668 TTTT
1 TTTT
10145672 ACTTATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.07, C:0.07, G:0.05, T:0.80
Consensus pattern (18 bp):
TTTTCTTTTTGATTTTTA
Found at i:10145692 original size:20 final size:19
Alignment explanation
Indices: 10145667--10145712 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
10145657 TTTGATTTTT
10145667 ATTTTACTTATTTTGTGTTG
1 ATTTTACTTATTTTGT-TTG
*
10145687 ATTTTAATTTATTTTGTTTG
1 ATTTT-ACTTATTTTGTTTG
*
10145707 TTTTTA
1 ATTTTA
10145713 TTTTTTATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 12 0.52
21 10 0.43
ACGTcount: A:0.17, C:0.02, G:0.11, T:0.70
Consensus pattern (19 bp):
ATTTTACTTATTTTGTTTG
Found at i:10145698 original size:21 final size:20
Alignment explanation
Indices: 10145674--10145712 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10145664 TTTATTTTAC
10145674 TTATTTTGTGTTGATTTTAAT
1 TTATTTTGT-TTGATTTTAAT
*
10145695 TTATTTTGTTTGTTTTTA
1 TTATTTTGTTTGATTTTA
10145713 TTTTTTATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.00, G:0.13, T:0.72
Consensus pattern (20 bp):
TTATTTTGTTTGATTTTAAT
Found at i:10145717 original size:26 final size:26
Alignment explanation
Indices: 10145654--10145717 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
10145644 TTTTATTTTC
*
10145654 TGTTTTGATTTTTATTTTACTTATTT
1 TGTTTTGATTTTTAATTTACTTATTT
* *
10145680 TGTGTTGA-TTTTAATTTA-TTTTGTT
1 TGTTTTGATTTTTAATTTACTTAT-TT
*
10145705 TGTTTTTATTTTT
1 TGTTTTGATTTTT
10145718 TATGATATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 3 0.10
25 17 0.55
26 11 0.35
ACGTcount: A:0.14, C:0.02, G:0.11, T:0.73
Consensus pattern (26 bp):
TGTTTTGATTTTTAATTTACTTATTT
Found at i:10146309 original size:14 final size:13
Alignment explanation
Indices: 10146286--10146315 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
10146276 TAAATTTTTT
10146286 TAAAAATAATAAA
1 TAAAAATAATAAA
10146299 TAAATAATAATAAA
1 TAAA-AATAATAAA
10146313 TAA
1 TAA
10146316 TAACAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
TAAAAATAATAAA
Found at i:10149304 original size:33 final size:33
Alignment explanation
Indices: 10149259--10149331 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
10149249 ATCTGTTATC
* *
10149259 AAAGAAATAAGAGGTTAGTTTATCTATGAAAGA
1 AAAGAAAGAAGAGCTTAGTTTATCTATGAAAGA
* *
10149292 AAAGAAAGAAGAGCTTAGTTTGTCTATGGAAGA
1 AAAGAAAGAAGAGCTTAGTTTATCTATGAAAGA
10149325 AAA-AAAG
1 AAAGAAAG
10149332 CTACTACAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 4 0.11
33 32 0.89
ACGTcount: A:0.49, C:0.04, G:0.23, T:0.23
Consensus pattern (33 bp):
AAAGAAAGAAGAGCTTAGTTTATCTATGAAAGA
Found at i:10158274 original size:39 final size:40
Alignment explanation
Indices: 10158230--10158305 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
10158220 ACCTCTTAGA
10158230 TTTTTAA-TTAAAGTTTCATTACCTCTGGTCAGAGGAACC
1 TTTTTAATTTAAAGTTTCATTACCTCTGGTCAGAGGAACC
* * *
10158269 TTTTTAATTTAAAGTTTTATTGCCTCTGGTGAGAGGA
1 TTTTTAATTTAAAGTTTCATTACCTCTGGTCAGAGGA
10158306 GTTTTCTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 7 0.21
40 26 0.79
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.42
Consensus pattern (40 bp):
TTTTTAATTTAAAGTTTCATTACCTCTGGTCAGAGGAACC
Found at i:10158530 original size:40 final size:41
Alignment explanation
Indices: 10158473--10158576 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 41
10158463 CTCTCAGATT
* *
10158473 TAAAATTTAAAGTTTCATTGCTTCTGGTCAGAGGAACCTAC
1 TAAAATTTAAAGTTTCATTGCCTCTAGTCAGAGGAACCTAC
* * **
10158514 T-AAATTTAAAGTTTCATTGCCTCTAGTTAGAGGAGCCTTT
1 TAAAATTTAAAGTTTCATTGCCTCTAGTCAGAGGAACCTAC
* *
10158554 TAAAATTTAAAATTTCATAGCCT
1 TAAAATTTAAAGTTTCATTGCCT
10158577 TTGGTTAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
40 34 0.63
41 20 0.37
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (41 bp):
TAAAATTTAAAGTTTCATTGCCTCTAGTCAGAGGAACCTAC
Found at i:10158584 original size:41 final size:41
Alignment explanation
Indices: 10158471--10158599 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 41
10158461 ACCTCTCAGA
* *
10158471 TTTAAAATTTAAAGTTTCATTG-CTTCTGGTCAGAGGAACCT
1 TTTAAAATTTAAAGTTTCATTGCCTT-TGGTTAGAGGAGCCT
** * *
10158512 ACT-AAATTTAAAGTTTCATTGCCTCTAGTTAGAGGAGCCT
1 TTTAAAATTTAAAGTTTCATTGCCTTTGGTTAGAGGAGCCT
* * *
10158552 TTTAAAATTTAAAATTTCATAGCCTTTGGTTAGATGAGCCT
1 TTTAAAATTTAAAGTTTCATTGCCTTTGGTTAGAGGAGCCT
10158593 TTCTAAA
1 TT-TAAA
10158600 TTTTTAAGAG
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
40 31 0.43
41 37 0.51
42 4 0.06
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.39
Consensus pattern (41 bp):
TTTAAAATTTAAAGTTTCATTGCCTTTGGTTAGAGGAGCCT
Found at i:10158839 original size:3 final size:3
Alignment explanation
Indices: 10158833--10158870 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10158823 TATTATTATT
10158833 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
10158871 TATATTTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:10159186 original size:21 final size:21
Alignment explanation
Indices: 10159160--10159199 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10159150 AAGAGAACCT
*
10159160 AGGGGA-ATGCTATAAAAAATA
1 AGGGGAGA-GCTAAAAAAAATA
10159181 AGGGGAGAGCTAAAAAAAA
1 AGGGGAGAGCTAAAAAAAA
10159200 AAAAACACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.55, C:0.05, G:0.28, T:0.12
Consensus pattern (21 bp):
AGGGGAGAGCTAAAAAAAATA
Found at i:10159808 original size:17 final size:18
Alignment explanation
Indices: 10159788--10159828 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
10159778 TAGGTTTTCC
*
10159788 TATTTCTTTTTTC-TTTT
1 TATTTCTTGTTTCATTTT
10159805 TATTTCTTGTTTCGATTTT
1 TATTTCTTGTTTC-ATTTT
10159824 TATTT
1 TATTT
10159829 TATTTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
19 9 0.43
ACGTcount: A:0.10, C:0.10, G:0.05, T:0.76
Consensus pattern (18 bp):
TATTTCTTGTTTCATTTT
Found at i:10159864 original size:26 final size:26
Alignment explanation
Indices: 10159801--10159864 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 26
10159791 TTCTTTTTTC
10159801 TTTTTATTTCTTGTTTCGATTTTTATT
1 TTTTTATTT-TTGTTTCGATTTTTATT
10159828 TTATTTA-TTTTGTGTT-GATTTTTATT
1 TT-TTTATTTTTGT-TTCGATTTTTATT
10159854 TTTTTATTTTT
1 TTTTTATTTTT
10159865 TTATGATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
25 4 0.12
26 20 0.59
27 6 0.18
28 4 0.12
ACGTcount: A:0.12, C:0.03, G:0.08, T:0.77
Consensus pattern (26 bp):
TTTTTATTTTTGTTTCGATTTTTATT
Found at i:10159871 original size:25 final size:24
Alignment explanation
Indices: 10159801--10159871 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 24
10159791 TTCTTTTTTC
10159801 TTTTTATTTCTTGTTTCGATTTTTATT
1 TTTTTATTT-TT-TTT-GATTTTTATT
*
10159828 TTATTTATTTTGTGTTGATTTTTATT
1 TT-TTTATTTT-TTTTGATTTTTATT
10159854 TTTTTATTTTTTTATGAT
1 TTTTTATTTTTTT-TGAT
10159872 ATTATTGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
24 2 0.05
25 12 0.31
26 12 0.31
27 5 0.13
28 8 0.21
ACGTcount: A:0.14, C:0.03, G:0.08, T:0.75
Consensus pattern (24 bp):
TTTTTATTTTTTTTGATTTTTATT
Found at i:10160447 original size:17 final size:17
Alignment explanation
Indices: 10160425--10160470 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
10160415 TTTTTTAAAA
10160425 AATAATAAAAAAGAAAT
1 AATAATAAAAAAGAAAT
* *
10160442 AATAATAAACAATAAAT
1 AATAATAAAAAAGAAAT
*
10160459 AATAACAAAAAA
1 AATAATAAAAAA
10160471 ATCACACTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.17
Consensus pattern (17 bp):
AATAATAAAAAAGAAAT
Found at i:10160607 original size:29 final size:30
Alignment explanation
Indices: 10160546--10160608 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
10160536 GATCTCATCA
*
10160546 AAAAGTTAGGATGATCCTAAAAATTTATCT
1 AAAAGTCAGGATGATCCTAAAAATTTATCT
*
10160576 AAAAGTCAGGATGATCCT-AAAATTTGTCT
1 AAAAGTCAGGATGATCCTAAAAATTTATCT
10160605 AAAA
1 AAAA
10160609 TTTTTAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 14 0.45
30 17 0.55
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.30
Consensus pattern (30 bp):
AAAAGTCAGGATGATCCTAAAAATTTATCT
Found at i:10160793 original size:3 final size:3
Alignment explanation
Indices: 10160785--10160842 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
10160775 TATAATATGA
*
10160785 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10160833 AAT AAT AAT A
1 AAT AAT AAT A
10160843 CTGATTGCAC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10163684 original size:115 final size:115
Alignment explanation
Indices: 10163559--10163788 Score: 433
Period size: 115 Copynumber: 2.0 Consensus size: 115
10163549 TTCTCTTCGT
10163559 TCTTTTCTTACTGGTGGCTTTCAATGGGTAGATACTGTTACATAGAAGTGAGGAGGAGATCTTAG
1 TCTTTTCTTACTGGTGGCTTTCAATGGGTAGATACTGTTACATAGAAGTGAGGAGGAGATCTTAG
* * *
10163624 CTAATTTATATTAGAAGCCTATAAACCTTTCCATCAAAGGTTTGCTAGGC
66 CCAATTTATATTAGAAGCCTATAAACCTCTCCATCAAAGGTTTACTAGGC
10163674 TCTTTTCTTACTGGTGGCTTTCAATGGGTAGATACTGTTACATAGAAGTGAGGAGGAGATCTTAG
1 TCTTTTCTTACTGGTGGCTTTCAATGGGTAGATACTGTTACATAGAAGTGAGGAGGAGATCTTAG
10163739 CCAATTTATATTAGAAGCCTATAAACCTCTCCATCAAAGGTTTACTAGGC
66 CCAATTTATATTAGAAGCCTATAAACCTCTCCATCAAAGGTTTACTAGGC
10163789 CAAAGGTTTA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 112 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (115 bp):
TCTTTTCTTACTGGTGGCTTTCAATGGGTAGATACTGTTACATAGAAGTGAGGAGGAGATCTTAG
CCAATTTATATTAGAAGCCTATAAACCTCTCCATCAAAGGTTTACTAGGC
Found at i:10167573 original size:4 final size:4
Alignment explanation
Indices: 10167564--10167591 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
10167554 TGCATGGATA
10167564 AATG AATG AATG AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG
10167592 TGCAAATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:10168599 original size:16 final size:16
Alignment explanation
Indices: 10168578--10168612 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10168568 ATTAATCAAA
10168578 ATATCACAAACAAATC
1 ATATCACAAACAAATC
* *
10168594 ATATCATAAATAAATC
1 ATATCACAAACAAATC
10168610 ATA
1 ATA
10168613 AGCACAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.26
Consensus pattern (16 bp):
ATATCACAAACAAATC
Found at i:10171446 original size:24 final size:23
Alignment explanation
Indices: 10171385--10171446 Score: 54
Period size: 24 Copynumber: 2.6 Consensus size: 23
10171375 TTTTGCACCC
10171385 TTATTATTTTTTTTCTTTGCTTCT
1 TTATT-TTTTTTTTCTTTGCTTCT
** * *
10171409 TT-TCCCTTTGTTTCTTGTTCTTCT
1 TTAT-TTTTTTTTTCTT-TGCTTCT
10171433 TTATTTTTTTTTTC
1 TTATTTTTTTTTTC
10171447 AAAACCAGAA
Statistics
Matches: 28, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
23 10 0.36
24 17 0.61
25 1 0.04
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.74
Consensus pattern (23 bp):
TTATTTTTTTTTTCTTTGCTTCT
Found at i:10173436 original size:22 final size:22
Alignment explanation
Indices: 10173411--10173457 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
10173401 AGTTTGAGTC
*
10173411 TTTTATTTTTTTTTCTTCTTTT
1 TTTTATTTTGTTTTCTTCTTTT
* *
10173433 TTTTGTTTTGTTTTCTTGTTTT
1 TTTTATTTTGTTTTCTTCTTTT
10173455 TTT
1 TTT
10173458 AAACTACTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.02, C:0.06, G:0.06, T:0.85
Consensus pattern (22 bp):
TTTTATTTTGTTTTCTTCTTTT
Found at i:10173441 original size:19 final size:18
Alignment explanation
Indices: 10173409--10173457 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
10173399 TCAGTTTGAG
*
10173409 TCTTTTATTTTTTTT-TCT
1 TCTTTT-TTTTTTTTGTTT
10173427 TCTTTTTTTTGTTTTGTTT
1 TCTTTTTTTT-TTTTGTTT
10173446 TCTTGTTTTTTT
1 TCTT-TTTTTTT
10173458 AAACTACTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 4 0.15
18 10 0.37
19 7 0.26
20 6 0.22
ACGTcount: A:0.02, C:0.08, G:0.06, T:0.84
Consensus pattern (18 bp):
TCTTTTTTTTTTTTGTTT
Found at i:10174024 original size:3 final size:3
Alignment explanation
Indices: 10174016--10174056 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
10174006 CATAATGACA
10174016 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
10174057 AATCTACACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:10179519 original size:16 final size:16
Alignment explanation
Indices: 10179490--10179524 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10179480 ATACAAGCTC
* *
10179490 ATACCGATTGTTAAAG
1 ATACCAATTATTAAAG
10179506 ATACCAATTATTAAAG
1 ATACCAATTATTAAAG
10179522 ATA
1 ATA
10179525 TGTTATCACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.31
Consensus pattern (16 bp):
ATACCAATTATTAAAG
Found at i:10181351 original size:41 final size:39
Alignment explanation
Indices: 10181256--10181468 Score: 221
Period size: 41 Copynumber: 5.2 Consensus size: 39
10181246 TTTGATCAAA
* * *
10181256 GCTCCTCTAAGCAGAGGCTTAACGACTTTGAGAAACATAAATG
1 GCTCCTCTAAACAGAGGC--AACGACTTTGA-AAA-GTAAATT
10181299 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAGTAAATT
* * *
10181340 GCTCCTATAAACAGAGTCAATGAAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG--ACTTTGAAAAGTAAATT
*
10181381 GCTCCTCTAAACAGAGGCACCACAACTTTGGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCA--ACGACTTT-GAAAAGTAAATT
*
10181422 GATCCTCTAAACAGAGGCAACGAAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG--ACTTTGAAAAGTAAATT
*
10181463 ACTCCT
1 GCTCCT
10181469 TGACAATCAT
Statistics
Matches: 146, Mismatches: 14, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
39 4 0.03
40 5 0.03
41 101 0.69
42 8 0.05
43 28 0.19
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.23
Consensus pattern (39 bp):
GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATT
Found at i:10181395 original size:82 final size:82
Alignment explanation
Indices: 10181293--10181468 Score: 273
Period size: 82 Copynumber: 2.1 Consensus size: 82
10181283 TTGAGAAACA
* * * *
10181293 TAAATGGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTATAAACAGAGT
1 TAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAAAA-TAAATTGATCCTATAAACAGAGG
*
10181357 CAATGAAACTTTGAAAAG
65 CAACGAAACTTTGAAAAG
*
10181375 TAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAAAATAAATTGATCCTCTAAACAGAGGC
1 TAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAAAATAAATTGATCCTATAAACAGAGGC
10181440 AACGAAACTTTGAAAAG
66 AACGAAACTTTGAAAAG
*
10181457 TAAATTACTCCT
1 TAAATTGCTCCT
10181469 TGACAATCAT
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
82 81 0.94
83 5 0.06
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.24
Consensus pattern (82 bp):
TAAATTGCTCCTCTAAACAGAGGCACCACAACTTTGGAAAATAAATTGATCCTATAAACAGAGGC
AACGAAACTTTGAAAAG
Found at i:10182495 original size:7 final size:7
Alignment explanation
Indices: 10182479--10182538 Score: 59
Period size: 7 Copynumber: 8.1 Consensus size: 7
10182469 TTCATTCATG
10182479 TTTT-TT
1 TTTTCTT
10182485 TTTTCTT
1 TTTTCTT
10182492 TTTTCATT
1 TTTTC-TT
*
10182500 TTTTATT
1 TTTTCTT
*
10182507 TTTTATT
1 TTTTCTT
10182514 TTTTCATT
1 TTTTC-TT
10182522 TTTTCATGT
1 TTTTC-T-T
10182531 TTTTCTT
1 TTTTCTT
10182538 T
1 T
10182539 AAGCATAGTA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
6 4 0.08
7 22 0.46
8 16 0.33
9 6 0.12
ACGTcount: A:0.08, C:0.08, G:0.02, T:0.82
Consensus pattern (7 bp):
TTTTCTT
Found at i:10182495 original size:8 final size:8
Alignment explanation
Indices: 10182483--10182535 Score: 76
Period size: 7 Copynumber: 6.9 Consensus size: 8
10182473 TTCATGTTTT
10182483 TTTTTTC-
1 TTTTTTCA
10182490 TTTTTTCA
1 TTTTTTCA
10182498 TTTTTT-A
1 TTTTTTCA
10182505 TTTTTT-A
1 TTTTTTCA
10182512 TTTTTTCA
1 TTTTTTCA
10182520 TTTTTTCA
1 TTTTTTCA
10182528 TGTTTTTC
1 T-TTTTTC
10182536 TTTAAGCATA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
7 21 0.49
8 16 0.37
9 6 0.14
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTTTCA
Found at i:10193010 original size:57 final size:57
Alignment explanation
Indices: 10192924--10193252 Score: 306
Period size: 57 Copynumber: 5.7 Consensus size: 57
10192914 TTGTGCAGGA
* * * * * *
10192924 AAAATTGATACTTTTAACTTTTTCTCAAAATATTTTTTAGAAATTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTGGAAAATTTATTTTCAAGG
* * * * * *
10192981 AAAATTGATACTTTTAACTTTTCCCCAAAATA-TTTTTGGAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTGGAAAATTTATTTTCAAGG
* * * * *
10193037 AAAATTTATACTTTTAACTTTTCCTTAAAA-ACCTTTTTT-GAAAATTTATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAATA--TTTTTTGGAAAATTTATTTTCAAGG
* * ** *
10193094 AAAATTGATACTTTCAACTTTTCCTAAAAAAAAACCTTTTTTTCAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCT--CAAAATA--TTTTTTGGAAAATTTATTTTCAAGG
* **
10193155 AAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTGGAAAGCTTATTTTCAA-G
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAATATTTTTTGGAAAATTTATTTTCAAGG
*
10193212 AAAATTTGATACTTTCAACTTTTCCCCAAAAATATATTTTT
1 AAAA-TTGATACTTTCAACTTTTCCTC-AAAATAT-TTTTT
10193253 TTGGATTTTA
Statistics
Matches: 234, Mismatches: 27, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
55 1 0.00
56 48 0.21
57 76 0.32
58 44 0.19
59 9 0.04
60 15 0.06
61 34 0.15
62 7 0.03
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTGGAAAATTTATTTTCAAGG
Found at i:10193278 original size:5 final size:5
Alignment explanation
Indices: 10193270--10193345 Score: 68
Period size: 5 Copynumber: 14.6 Consensus size: 5
10193260 TTATTTAAAG
10193270 AAAAT AAAAT --AAT AAAAT AAAAT AAAAGT GAAAAT AAAAAT AAAGA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT -AAAAT AAA-AT
*
10193316 AAAGT AAAAT AAAAAT AAAAAT AAAAT AAA
1 AAAAT AAAAT -AAAAT -AAAAT AAAAT AAA
10193346 GATTAAAATG
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
3 3 0.05
5 35 0.57
6 19 0.31
7 4 0.07
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:10193303 original size:17 final size:16
Alignment explanation
Indices: 10193269--10193345 Score: 74
Period size: 17 Copynumber: 4.9 Consensus size: 16
10193259 TTTATTTAAA
10193269 GAAAATAAAAT--AAT
1 GAAAATAAAATAAAAT
10193283 -AAAATAAAATAAAAGT
1 GAAAATAAAATAAAA-T
10193299 GAAAATAAAA-ATAAA-
1 GAAAATAAAATA-AAAT
10193314 GAAAAGTAAAATAAAAAT
1 GAAAA-TAAAAT-AAAAT
*
10193332 AAAAATAAAATAAA
1 GAAAATAAAATAAA
10193346 GATTAAAATG
Statistics
Matches: 53, Mismatches: 1, Indels: 16
0.76 0.01 0.23
Matches are distributed among these distances:
13 10 0.19
15 7 0.13
16 10 0.19
17 21 0.40
18 5 0.09
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (16 bp):
GAAAATAAAATAAAAT
Found at i:10193311 original size:6 final size:6
Alignment explanation
Indices: 10193270--10193345 Score: 59
Period size: 6 Copynumber: 12.3 Consensus size: 6
10193260 TTATTTAAAG
* * *
10193270 AAAAT- AAAATA ATAAA-A TAAAATA AAAGTG AAAATA AAAATA AAGAAAA
1 AAAATA AAAATA A-AAATA -AAAATA AAAATA AAAATA AAAATA AA-AATA
10193319 GTAAAATA AAAATA AAAAT- AAAATA AA
1 --AAAATA AAAATA AAAATA AAAATA AA
10193346 GATTAAAATG
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
5 10 0.18
6 34 0.60
7 8 0.14
8 3 0.05
9 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:10193353 original size:17 final size:17
Alignment explanation
Indices: 10193282--10193354 Score: 71
Period size: 17 Copynumber: 4.4 Consensus size: 17
10193272 AATAAAATAA
10193282 TAAAATAAAATAAA-AGT
1 TAAAATAAAATAAAGA-T
*
10193299 GAAAATAAAAATAAAGA-
1 TAAAAT-AAAATAAAGAT
* *
10193316 -AAAGTAAAATAAAAAT
1 TAAAATAAAATAAAGAT
*
10193332 AAAAATAAAATAAAGAT
1 TAAAATAAAATAAAGAT
10193349 TAAAAT
1 TAAAAT
10193355 GAAAGAATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
15 9 0.20
16 4 0.09
17 24 0.52
18 8 0.17
19 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (17 bp):
TAAAATAAAATAAAGAT
Found at i:10193462 original size:18 final size:18
Alignment explanation
Indices: 10193436--10193476 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
10193426 GAACGACTCG
*
10193436 GCTTAGTGGCTCGGCTCA
1 GCTTGGTGGCTCGGCTCA
*
10193454 GCTTGGTGGCTCGGCTCG
1 GCTTGGTGGCTCGGCTCA
10193472 GCTTG
1 GCTTG
10193477 AGGAAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.27, G:0.39, T:0.29
Consensus pattern (18 bp):
GCTTGGTGGCTCGGCTCA
Found at i:10193836 original size:22 final size:23
Alignment explanation
Indices: 10193784--10193841 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
10193774 AAAAAATTAA
* *
10193784 CAGATAAATTAAAATTAAATAAT
1 CAGATAAATTATAATCAAATAAT
* *
10193807 -AGAAAAATTATAA-CATATAAT
1 CAGATAAATTATAATCAAATAAT
10193828 CAGATAAATATATA
1 CAGATAAAT-TATA
10193842 TAAATATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 6 0.21
22 18 0.64
23 4 0.14
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.29
Consensus pattern (23 bp):
CAGATAAATTATAATCAAATAAT
Found at i:10194002 original size:7 final size:7
Alignment explanation
Indices: 10193990--10194020 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
10193980 TGTATAAAAT
10193990 AAAATAC
1 AAAATAC
10193997 AAAATAC
1 AAAATAC
10194004 -AAATAC
1 AAAATAC
10194010 AAAATAC
1 AAAATAC
10194017 AAAA
1 AAAA
10194021 ATAAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAATAC
Found at i:10194026 original size:13 final size:13
Alignment explanation
Indices: 10193985--10194019 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
10193975 TAAAATGTAT
10193985 AAAATA-AAATAC
1 AAAATACAAATAC
10193997 AAAATACAAATAC
1 AAAATACAAATAC
10194010 AAAATACAAA
1 AAAATACAAA
10194020 AATAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAATACAAATAC
Found at i:10195297 original size:14 final size:15
Alignment explanation
Indices: 10195267--10195300 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10195257 GTAGTTCTTA
10195267 TTCTTCTTTAGCTTT
1 TTCTTCTTTAGCTTT
10195282 TTCTT-TTTAAGCTTT
1 TTCTTCTTT-AGCTTT
10195297 TTCT
1 TTCT
10195301 AGCAACTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.09, C:0.18, G:0.06, T:0.68
Consensus pattern (15 bp):
TTCTTCTTTAGCTTT
Found at i:10201652 original size:20 final size:21
Alignment explanation
Indices: 10201619--10201658 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
10201609 TACCCCTGGA
10201619 TCAAACTTGATCAAA-TAAAG
1 TCAAACTTGATCAAACTAAAG
10201639 TCAAACTT-AGTCAAACTAAA
1 TCAAACTTGA-TCAAACTAAA
10201659 TTAAAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.06
20 13 0.72
21 4 0.22
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.25
Consensus pattern (21 bp):
TCAAACTTGATCAAACTAAAG
Found at i:10202270 original size:143 final size:145
Alignment explanation
Indices: 10201998--10202270 Score: 304
Period size: 144 Copynumber: 1.9 Consensus size: 145
10201988 TAGGTTATGA
* * *
10201998 TTTGATATCATTTTATAATTTTTAATGCATTAGAAAACCTTCATCGCACCTTAAAAGGTGTGTAA
1 TTTGAAATCATTTTATAATTTTTAATGCATTAGAAAACCTTCATCGCACCTTAAAAGATGTGAAA
* *** *** *
10202063 TTACTAAAATACCCTTTAGTAGTATTTTTGTAATTTGACCTTCCCGAGGTTGGGTTTTTGCAAAA
66 TTACTAAAATACCCTTTAGCAGTATTTCCATAATTTGACCTTCCCGAGGTTCAATTTTTACAAAA
10202128 TGATCCAAATCATGT
131 TGATCCAAATCATGT
* * * * * *
10202143 TTTGAAATTATTTTATGATTTTTGATGCATTA-AAAACC-TCGATCGTACTTTGAAAGATGTGAA
1 TTTGAAATCATTTTATAATTTTTAATGCATTAGAAAACCTTC-ATCGCACCTTAAAAGATGTGAA
* * *
10202206 ATTACTAAAAT-CCTTTTAAGCA-TATTTCCATAATTTGACCTTTCTGAGG-TCAATTTTTCACA
65 ATTACTAAAATACCCTTT-AGCAGTATTTCCATAATTTGACCTTCCCGAGGTTCAATTTTT-ACA
10202268 AAA
128 AAA
10202271 CTTTTAGATT
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
142 6 0.06
143 34 0.32
144 37 0.35
145 28 0.27
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (145 bp):
TTTGAAATCATTTTATAATTTTTAATGCATTAGAAAACCTTCATCGCACCTTAAAAGATGTGAAA
TTACTAAAATACCCTTTAGCAGTATTTCCATAATTTGACCTTCCCGAGGTTCAATTTTTACAAAA
TGATCCAAATCATGT
Found at i:10202761 original size:22 final size:24
Alignment explanation
Indices: 10202711--10202761 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 24
10202701 ATTTCTAATA
10202711 TATTTTT-CATACATTTTCATATC
1 TATTTTTCCATACATTTTCATATC
*
10202734 CA--TTTCCATACA-TTTCATAT-
1 TATTTTTCCATACATTTTCATATC
10202754 TATTTTTC
1 TATTTTTC
10202762 TTTGATTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 7
0.72 0.06 0.22
Matches are distributed among these distances:
20 1 0.04
21 11 0.48
22 10 0.43
23 1 0.04
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (24 bp):
TATTTTTCCATACATTTTCATATC
Found at i:10203353 original size:16 final size:16
Alignment explanation
Indices: 10203332--10203363 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10203322 TATATCCTTG
10203332 GTTATTCTTCTATGTT
1 GTTATTCTTCTATGTT
10203348 GTTATTCTTCTATGTT
1 GTTATTCTTCTATGTT
10203364 TACAATGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.62
Consensus pattern (16 bp):
GTTATTCTTCTATGTT
Found at i:10203546 original size:19 final size:20
Alignment explanation
Indices: 10203522--10203560 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
10203512 AATGGCCTTC
10203522 GAGTTTCGATCAAG-CTTTG
1 GAGTTTCGATCAAGCCTTTG
*
10203541 GAGTTTCGGTCAAGCCTTTG
1 GAGTTTCGATCAAGCCTTTG
10203561 ATCATGGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (20 bp):
GAGTTTCGATCAAGCCTTTG
Found at i:10214756 original size:12 final size:12
Alignment explanation
Indices: 10214734--10214780 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
10214724 TTAAACAAAA
10214734 AATAA-AAATAT
1 AATAATAAATAT
*
10214745 AATAGTAAATAT
1 AATAATAAATAT
10214757 AATAATAAAATATT
1 AATAAT-AAATA-T
10214771 AAATAATAAA
1 -AATAATAAA
10214781 AAAGAAATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 4 0.13
12 11 0.37
13 5 0.17
14 4 0.13
15 6 0.20
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (12 bp):
AATAATAAATAT
Found at i:10214763 original size:20 final size:20
Alignment explanation
Indices: 10214735--10214782 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
10214725 TAAACAAAAA
*
10214735 ATAAAAATATAATAGTAAAT
1 ATAAAAATAAAATAGTAAAT
* *
10214755 ATAATAATAAAATATTAAAT
1 ATAAAAATAAAATAGTAAAT
10214775 AATAAAAA
1 -ATAAAAA
10214783 AGAAATACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
ATAAAAATAAAATAGTAAAT
Found at i:10214829 original size:3 final size:3
Alignment explanation
Indices: 10214821--10214850 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
10214811 CTAGAACAAG
*
10214821 TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10214851 AGATTTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:10222093 original size:52 final size:52
Alignment explanation
Indices: 10221985--10222093 Score: 125
Period size: 52 Copynumber: 2.1 Consensus size: 52
10221975 TAGATCCATT
* * * **
10221985 AAAAAATAGGAAAAGAAGAAGTGAAAGAAGAAAAAAAGAAAAATATGAAGAG
1 AAAAAAAAAGAAAAGAAGAAGTAAAAGAAGAAAAAAAGAAAAATAAAAAGAG
*
10222037 AAAAAAAAAGAAAAGAA-AAGTAAAAGAAAGAATAAAAGATAAAA-AAAAAG-G
1 AAAAAAAAAGAAAAGAAGAAGTAAAAG-AAGAAAAAAAGA-AAAATAAAAAGAG
10222088 AAAAAA
1 AAAAAA
10222094 TGAAATAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
51 15 0.31
52 30 0.61
53 4 0.08
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.06
Consensus pattern (52 bp):
AAAAAAAAAGAAAAGAAGAAGTAAAAGAAGAAAAAAAGAAAAATAAAAAGAG
Found at i:10225561 original size:37 final size:37
Alignment explanation
Indices: 10225482--10225592 Score: 141
Period size: 37 Copynumber: 3.0 Consensus size: 37
10225472 GATTAAGGTA
* * * *
10225482 AAAAAGTCAAGAAAATGATCTGGACTGAGTCGAGATC
1 AAAAAGTCAAGAAAATGATCTAGACTAAGCCGAGATT
* * * *
10225519 GAAAAGTCAGGAAGATGATCTAGACTAAGCCAAGATT
1 AAAAAGTCAAGAAAATGATCTAGACTAAGCCGAGATT
*
10225556 AAAAAGTTAAGAAAATGATCTAGACTAAGCCGAGATT
1 AAAAAGTCAAGAAAATGATCTAGACTAAGCCGAGATT
10225593 GAATGGCTAA
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.20
Consensus pattern (37 bp):
AAAAAGTCAAGAAAATGATCTAGACTAAGCCGAGATT
Found at i:10226093 original size:114 final size:114
Alignment explanation
Indices: 10225822--10226097 Score: 263
Period size: 114 Copynumber: 2.4 Consensus size: 114
10225812 GACTGAGTTG
* * * *
10225822 AGGTCAAAGATGAATGATTGAGATGAAA-TCATGAGTCAAAAAAATGATTTAAATTGAGCCAAGA
1 AGGTCGAAGATGAATGATCGAGATGAAACT-ATGAGTCAAGAAAATGATTTAAACTGAGCCAAGA
* *
10225886 TCAAATGATCAAAATAAACCACGAGTCTGAAAGCAAACAAGATCGAGTCG
65 TCAAATGATCAAAATAAACCACGAGTCTAAAAGCAAACAAGATCGAGTCA
* ** * ** * * ** *
10225936 AGGTTGAAGATGAATGATC-ATGACAAAACCACAAGTTAGGAAAATGATTTGGACTGAGCTAAGA
1 AGGTCGAAGATGAATGATCGA-GATGAAACTATGAGTCAAGAAAATGATTTAAACTGAGCCAAGA
* ** * ** * *
10226000 TCAAATGATCGAGACA-AAATTATGAGTC-AAAAGTGACCAAGATTGAGTCA
65 TCAAATGATC-A-AAATAAACCACGAGTCTAAAAGCAAACAAGATCGAGTCA
10226050 AGGTCGAAGATGAATGATCGAGATGAAACTATGAGTCAAGAAAATGAT
1 AGGTCGAAGATGAATGATCGAGATGAAACTATGAGTCAAGAAAATGAT
10226098 CTAGCTTAAG
Statistics
Matches: 124, Mismatches: 33, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
113 1 0.01
114 110 0.89
115 11 0.09
116 2 0.02
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.21
Consensus pattern (114 bp):
AGGTCGAAGATGAATGATCGAGATGAAACTATGAGTCAAGAAAATGATTTAAACTGAGCCAAGAT
CAAATGATCAAAATAAACCACGAGTCTAAAAGCAAACAAGATCGAGTCA
Found at i:10226990 original size:13 final size:12
Alignment explanation
Indices: 10226945--10226992 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
10226935 TTTTTCCTCA
*
10226945 TTTACTTTTCTT
1 TTTACTTTTTTT
*
10226957 TTTATTTTTTATT
1 TTTACTTTTT-TT
*
10226970 TTTTCTTTTTTT
1 TTTACTTTTTTT
10226982 TTTACCTTTTT
1 TTTA-CTTTTT
10226993 CTCATTTTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
12 13 0.45
13 16 0.55
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTACTTTTTTT
Found at i:10226991 original size:19 final size:19
Alignment explanation
Indices: 10226945--10226994 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
10226935 TTTTTCCTCA
10226945 TTTAC-TTTTCTTTTTATTT
1 TTTACTTTTTC-TTTTATTT
*
10226964 TTTATTTTTTCTTTT-TTT
1 TTTACTTTTTCTTTTATTT
10226982 TTTACCTTTTTCT
1 TTTA-CTTTTTCT
10226995 CATTTTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 7 0.26
19 15 0.56
20 5 0.19
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTACTTTTTCTTTTATTT
Found at i:10227241 original size:14 final size:13
Alignment explanation
Indices: 10227224--10227259 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
10227214 ACCCCATCAA
*
10227224 TTTTCTTTTTCTT
1 TTTTTTTTTTCTT
10227237 TTTTTTTCTTTCTT
1 TTTTTTT-TTTCTT
10227251 TTTTTTTTT
1 TTTTTTTTT
10227260 GGTGGAGCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (13 bp):
TTTTTTTTTTCTT
Found at i:10227245 original size:16 final size:16
Alignment explanation
Indices: 10227224--10227259 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
10227214 ACCCCATCAA
10227224 TTTTCTTT-TTCTTTTT
1 TTTTCTTTCTT-TTTTT
10227240 TTTTCTTTCTTTTTTT
1 TTTTCTTTCTTTTTTT
10227256 TTTT
1 TTTT
10227260 GGTGGAGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.89
17 2 0.11
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (16 bp):
TTTTCTTTCTTTTTTT
Found at i:10227293 original size:67 final size:68
Alignment explanation
Indices: 10227194--10227327 Score: 175
Period size: 67 Copynumber: 2.0 Consensus size: 68
10227184 ATTTTTTCAT
* * *
10227194 GTGGAGCACTTTGACATTTTACCCCATCAATTTTCTTT-TTCTTT-TTTTTTCTTT-CTTTTTTT
1 GTGGAGCACATTGACATTTTACCCAATCAATTTTCTTTATT-TTTCTTTTTT-TTTCCCTTTTTT
10227256 TTTTG
64 TTTTG
* **
10227261 GTGGAGCACATTGGCATTTTGTCCAATCAATTTTCTTTATTTTTCTTTTTTTTTCCCTTTTTTTT
1 GTGGAGCACATTGACATTTTACCCAATCAATTTTCTTTATTTTTCTTTTTTTTTCCCTTTTTTTT
10227326 TT
66 TT
10227328 CATTTATCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
67 39 0.67
68 19 0.33
ACGTcount: A:0.13, C:0.17, G:0.10, T:0.60
Consensus pattern (68 bp):
GTGGAGCACATTGACATTTTACCCAATCAATTTTCTTTATTTTTCTTTTTTTTTCCCTTTTTTTT
TTG
Found at i:10231024 original size:11 final size:11
Alignment explanation
Indices: 10231008--10231036 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
10230998 CCTATTTGAA
10231008 AATATTTTTTT
1 AATATTTTTTT
10231019 AATA-TTTTTT
1 AATATTTTTTT
10231029 AATATTTT
1 AATATTTT
10231037 ATCTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
AATATTTTTTT
Found at i:10231138 original size:16 final size:15
Alignment explanation
Indices: 10231113--10231154 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
10231103 AAAATCAGTA
10231113 AAAT-AAATAAAA-G
1 AAATGAAATAAAATG
10231126 AAATTGAAAATAAAATG
1 AAA-TG-AAATAAAATG
10231143 AAATGAAATAAA
1 AAATGAAATAAA
10231155 TTAAAAGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.12
14 1 0.04
15 7 0.28
16 10 0.40
17 4 0.16
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (15 bp):
AAATGAAATAAAATG
Found at i:10231155 original size:26 final size:24
Alignment explanation
Indices: 10231111--10231177 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 24
10231101 TAAAAATCAG
10231111 TAAAATAAATAAAAGAAATTGAAAA
1 TAAAATAAATAAAAGAAATT-AAAA
* *
10231136 TAAAATGAAATGAAATAAATTAAAA
1 TAAAAT-AAATAAAAGAAATTAAAA
10231161 GTGTAAAATAAATAAAA
1 ---TAAAATAAATAAAA
10231178 TCATAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
25 10 0.29
26 12 0.34
27 7 0.20
28 6 0.17
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (24 bp):
TAAAATAAATAAAAGAAATTAAAA
Found at i:10232387 original size:30 final size:30
Alignment explanation
Indices: 10232298--10232394 Score: 90
Period size: 30 Copynumber: 3.1 Consensus size: 30
10232288 CACCCATTCA
* *
10232298 TTTCATTTTT-TCATTTTCTTTCCTTTTGTT
1 TTTC-TTTTTCTCTTTTTCTTTCCTTTTCTT
* **
10232328 TTTCTTCCTTTCACTTTCACTTTCACTTTT-TT
1 TTTCTT--TTTCTCTTTTTCTTTC-CTTTTCTT
10232360 TTTCTTTTTCTCTTTTTCTTTGCCTTTTCTT
1 TTTCTTTTTCTCTTTTTCTTT-CCTTTTCTT
10232391 TTTC
1 TTTC
10232395 ATTATTTCAC
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
29 2 0.04
30 21 0.39
31 10 0.19
32 16 0.30
33 5 0.09
ACGTcount: A:0.05, C:0.23, G:0.02, T:0.70
Consensus pattern (30 bp):
TTTCTTTTTCTCTTTTTCTTTCCTTTTCTT
Found at i:10235115 original size:25 final size:26
Alignment explanation
Indices: 10235078--10235129 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
10235068 AATAATCCAA
*
10235078 AACAAATAAATAATAGAA-ATAATAT
1 AACAAATAAATAATACAATATAATAT
* *
10235103 AACAACTATATAATACAATATAATAT
1 AACAAATAAATAATACAATATAATAT
10235129 A
1 A
10235130 TACAGTGTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (26 bp):
AACAAATAAATAATACAATATAATAT
Found at i:10235231 original size:102 final size:102
Alignment explanation
Indices: 10235104--10235304 Score: 339
Period size: 102 Copynumber: 2.0 Consensus size: 102
10235094 AAATAATATA
* *
10235104 ACAACTATATAATACAATATAATATATACAGTGTCTTAACATTTGGTGATTTTCTGAAAAGGCAA
1 ACAACCATATAATACAATATAATATATACAGTATCTTAACATTTGGTGATTTTCTGAAAAGGCAA
*
10235169 CATGGCTTTACCCTAAACAGGCTTCCCATGGCTTATG
66 CATGGCTCTACCCTAAACAGGCTTCCCATGGCTTATG
*
10235206 ACAACCATATAATACAATATAATATATACAGTATCTTAACATTTGGTGATTTTCTGAAAAGGCAG
1 ACAACCATATAATACAATATAATATATACAGTATCTTAACATTTGGTGATTTTCTGAAAAGGCAA
** *
10235271 CATGGCTCTACCCTATGCAGGCTTCCTATGGCTT
66 CATGGCTCTACCCTAAACAGGCTTCCCATGGCTT
10235305 GCGATATGCT
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 92 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.32
Consensus pattern (102 bp):
ACAACCATATAATACAATATAATATATACAGTATCTTAACATTTGGTGATTTTCTGAAAAGGCAA
CATGGCTCTACCCTAAACAGGCTTCCCATGGCTTATG
Found at i:10236901 original size:20 final size:20
Alignment explanation
Indices: 10236834--10236946 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 20
10236824 TGGATTAAGA
10236834 TTTAGGGTTTCACCTAAA-G
1 TTTAGGGTTTCACCTAAAGG
*
10236853 TTTAAGGTTTCACCT--AGG
1 TTTAGGGTTTCACCTAAAGG
* **
10236871 ATTTAGAGTTTCATTTAAAGG
1 -TTTAGGGTTTCACCTAAAGG
** * *
10236892 TTTAGGGTTTCATTTTAGGG
1 TTTAGGGTTTCACCTAAAGG
* * *
10236912 TTTTGGGCTTAACCT-AAGG
1 TTTAGGGTTTCACCTAAAGG
*
10236931 TTTAAGGTTTCACCTA
1 TTTAGGGTTTCACCTA
10236947 GGGTTTTGAA
Statistics
Matches: 71, Mismatches: 18, Indels: 9
0.72 0.18 0.09
Matches are distributed among these distances:
17 1 0.01
18 1 0.01
19 39 0.55
20 27 0.38
21 3 0.04
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.42
Consensus pattern (20 bp):
TTTAGGGTTTCACCTAAAGG
Found at i:10236970 original size:39 final size:38
Alignment explanation
Indices: 10236852--10236972 Score: 116
Period size: 39 Copynumber: 3.1 Consensus size: 38
10236842 TTCACCTAAA
* *
10236852 GTTTAAGGTTTCACCTAGGATTTAGAGTTTCATTTAAAG
1 GTTTAAGGTTTCACCTAGGGTTTTGAGTTTCATTT-AAG
* ** * * * **
10236891 GTTTAGGGTTTCATTTTAGGGTTTTGGGCTTAACCTAAG
1 GTTTAAGGTTTCA-CCTAGGGTTTTGAGTTTCATTTAAG
*
10236930 GTTTAAGGTTTCACCTAGGGTTTTGAATTTCATTTCAAG
1 GTTTAAGGTTTCACCTAGGGTTTTGAGTTTCATTT-AAG
10236969 GTTT
1 GTTT
10236973 TGAGTTTTAC
Statistics
Matches: 61, Mismatches: 19, Indels: 4
0.73 0.23 0.05
Matches are distributed among these distances:
38 14 0.23
39 34 0.56
40 13 0.21
ACGTcount: A:0.22, C:0.11, G:0.23, T:0.44
Consensus pattern (38 bp):
GTTTAAGGTTTCACCTAGGGTTTTGAGTTTCATTTAAG
Found at i:10237257 original size:16 final size:17
Alignment explanation
Indices: 10237217--10237259 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
10237207 TTAAAAAATT
*
10237217 TTTATTATTATTATTCA
1 TTTATTTTTATTATTCA
*
10237234 -TTACTTTTATTATT-A
1 TTTATTTTTATTATTCA
10237249 TTTATTTTTAT
1 TTTATTTTTAT
10237260 GATTTAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 1 0.05
16 21 0.95
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTATTTTTATTATTCA
Found at i:10237644 original size:13 final size:13
Alignment explanation
Indices: 10237626--10237650 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10237616 CTTTTAATGT
10237626 TTATTATTATTTA
1 TTATTATTATTTA
10237639 TTATTATTATTT
1 TTATTATTATTT
10237651 TAGAAAAAAA
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTATTATTTA
Found at i:10239054 original size:2 final size:2
Alignment explanation
Indices: 10239049--10239075 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10239039 ATATATTGTG
10239049 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
10239076 TTGTCAAGCT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10239480 original size:20 final size:20
Alignment explanation
Indices: 10239452--10239500 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
10239442 AACCCTAAAT
* * *
10239452 TAAACCCAAAACCTAAACTC
1 TAAAACCAAAACATAAACCC
10239472 TAAAACCAAAACATAAACCC
1 TAAAACCAAAACATAAACCC
10239492 T-AAACCAAA
1 TAAAACCAAA
10239501 CCTTAGACCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.57, C:0.31, G:0.00, T:0.12
Consensus pattern (20 bp):
TAAAACCAAAACATAAACCC
Found at i:10239527 original size:31 final size:31
Alignment explanation
Indices: 10239398--10239559 Score: 128
Period size: 31 Copynumber: 5.2 Consensus size: 31
10239388 ACCACCATGC
* * * *
10239398 AAACCAAACCTTAAACCATAAA-TCAAACCTT
1 AAACCAAACCCTAGACCCTAAACT-AAACCCT
* * * * *
10239429 AAGCTAAACCCTAAACCCTAAATTAAACCCA
1 AAACCAAACCCTAGACCCTAAACTAAACCCT
* * * *
10239460 AAACCTAAACTCTAAAACCAAAACATAAACCCT
1 AAACC-AAACCCTAGACCCTAAAC-TAAACCCT
* * * *
10239493 AAACCAAACCTTAGACCTTTAACTAAACCTT
1 AAACCAAACCCTAGACCCTAAACTAAACCCT
*
10239524 AAACAAAACCCTAGACCCTAAACTAAACCCT
1 AAACCAAACCCTAGACCCTAAACTAAACCCT
10239555 AAACC
1 AAACC
10239560 CTAAAACCCA
Statistics
Matches: 101, Mismatches: 27, Indels: 6
0.75 0.20 0.04
Matches are distributed among these distances:
31 63 0.62
32 26 0.26
33 12 0.12
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.17
Consensus pattern (31 bp):
AAACCAAACCCTAGACCCTAAACTAAACCCT
Found at i:10239568 original size:8 final size:7
Alignment explanation
Indices: 10239432--10239644 Score: 93
Period size: 7 Copynumber: 32.7 Consensus size: 7
10239422 AAACCTTAAG
10239432 CTAAACC
1 CTAAACC
10239439 CTAAACC
1 CTAAACC
10239446 CTAAA--
1 CTAAACC
*
10239451 TTAAACC
1 CTAAACC
*
10239458 C-AAAAC
1 CTAAACC
*
10239464 CTAAACT
1 CTAAACC
*
10239471 CTAAAAC
1 CTAAACC
*
10239478 C-AAAAC
1 CTAAACC
*
10239484 ATAAACC
1 CTAAACC
10239491 CTAAA-C
1 CTAAACC
10239497 C-AAACC
1 CTAAACC
* *
10239503 TTAGACC
1 CTAAACC
* *
10239510 TTTAA--
1 CTAAACC
10239515 CTAAACC
1 CTAAACC
*
10239522 TTAAA--
1 CTAAACC
*
10239527 CAAAACC
1 CTAAACC
*
10239534 CTAGACC
1 CTAAACC
10239541 CTAAA--
1 CTAAACC
10239546 CTAAACC
1 CTAAACC
10239553 CTAAACC
1 CTAAACC
10239560 CTAAAACC
1 CT-AAACC
10239568 C-AAA-C
1 CTAAACC
*
10239573 CTCAAATC
1 CT-AAACC
*
10239581 CTAAACT
1 CTAAACC
10239588 CTAAACC
1 CTAAACC
* *
10239595 TTAAACA
1 CTAAACC
10239602 CTAAACC
1 CTAAACC
*
10239609 CTCAACC
1 CTAAACC
10239616 C--AACC
1 CTAAACC
*
10239621 TTAAA--
1 CTAAACC
*
10239626 CTAATCC
1 CTAAACC
10239633 CTAAACC
1 CTAAACC
*
10239640 TTAAA
1 CTAAA
10239645 ACCAACACTT
Statistics
Matches: 151, Mismatches: 35, Indels: 40
0.67 0.15 0.18
Matches are distributed among these distances:
5 27 0.18
6 16 0.11
7 99 0.66
8 9 0.06
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:10239605 original size:21 final size:19
Alignment explanation
Indices: 10239398--10239644 Score: 90
Period size: 19 Copynumber: 12.8 Consensus size: 19
10239388 ACCACCATGC
10239398 AAACC-AAACCTTAAACCAT
1 AAACCTAAACCTTAAACC-T
* *
10239417 AAATC-AAACCTT-AAGCT
1 AAACCTAAACCTTAAACCT
* *
10239434 AAACCCTAAACCCTAAA-TT
1 AAA-CCTAAACCTTAAACCT
*
10239453 AAACCCAAAACC-TAAACTCT
1 AAA-CCTAAACCTTAAAC-CT
* *
10239473 AAAACC-AAAACATAAACCCT
1 -AAACCTAAACCTTAAA-CCT
*
10239493 AAACC-AAACCTTAGACCTT
1 AAACCTAAACCTTAAACC-T
* *
10239512 TAA-CTAAACCTTAAA-CA
1 AAACCTAAACCTTAAACCT
* *
10239529 AAACCCTAGACCCTAAA-CT
1 AAA-CCTAAACCTTAAACCT
* *
10239548 AAACCCTAAACCCTAAAACCC
1 AAA-CCTAAA-CCTTAAACCT
10239569 AAACCTCAAATCC-TAAACTCT
1 AAACCT-AAA-CCTTAAAC-CT
10239590 AAACCTTAAACAC-TAAACCCT
1 AAACC-TAAAC-CTTAAA-CCT
* *
10239611 CAACC-CAACCTTAAA-CT
1 AAACCTAAACCTTAAACCT
*
10239628 AATCCCTAAACCTTAAA
1 AA-ACCTAAACCTTAAA
10239645 ACCAACACTT
Statistics
Matches: 176, Mismatches: 30, Indels: 44
0.70 0.12 0.18
Matches are distributed among these distances:
17 9 0.05
18 15 0.09
19 93 0.53
20 24 0.14
21 33 0.19
22 2 0.01
ACGTcount: A:0.48, C:0.33, G:0.01, T:0.18
Consensus pattern (19 bp):
AAACCTAAACCTTAAACCT
Found at i:10239634 original size:24 final size:26
Alignment explanation
Indices: 10239591--10239639 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
10239581 CTAAACTCTA
*
10239591 AACCTTAAACACTAAACCCTCAACCC
1 AACCTTAAACACTAAACCCTAAACCC
*
10239617 AACCTT-AA-ACTAATCCCTAAACC
1 AACCTTAAACACTAAACCCTAAACC
10239640 TTAAAACCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.62
25 2 0.10
26 6 0.29
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (26 bp):
AACCTTAAACACTAAACCCTAAACCC
Found at i:10251183 original size:21 final size:20
Alignment explanation
Indices: 10251158--10251234 Score: 73
Period size: 21 Copynumber: 3.8 Consensus size: 20
10251148 TGGGTCTCAG
*
10251158 GGGGATCGATCCCTTGCTTGA
1 GGGGATCAATCCCTT-CTTGA
** *
10251179 GGGGATCAATCTTTTCTTTA
1 GGGGATCAATCCCTTCTTGA
* *
10251199 GGTGATCAATCCCTTATGTGA
1 GGGGATCAATCCCTTCT-TGA
*
10251220 GGGGATCGATCCCTT
1 GGGGATCAATCCCTT
10251235 TTGCTTGTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 17 0.39
21 27 0.61
ACGTcount: A:0.18, C:0.21, G:0.27, T:0.34
Consensus pattern (20 bp):
GGGGATCAATCCCTTCTTGA
Found at i:10254590 original size:3 final size:3
Alignment explanation
Indices: 10254582--10254609 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
10254572 GATTAAGCAA
10254582 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
10254610 GTAAAAGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10255126 original size:119 final size:119
Alignment explanation
Indices: 10254910--10256278 Score: 1291
Period size: 119 Copynumber: 11.6 Consensus size: 119
10254900 GACCAAATCA
* * * ** * *
10254910 AGGTAAAAAATGAATGATCGAGATAGAACCACAAATTATACA-AAACAATCTGGATTGAGCCAAA
1 AGGTAAAAAATGAATGATCGAGATGGAACCACGAATCATA-AGAAATGATCTGGACTGAGCCAAG
** * * * * *
10254974 ATCAAAAAACTGAGATGAAACCACAAGTTAAAATAAGACGACCAGGACCGAGTCG
65 ATCAAACGACTGGGATGAAACCACGAGTCAAAATAAAATGACCAGGACCGAGTCG
** ** * *
10255029 ACATAAAAAATGAATGATTAAGATAGAACCACGAATCATATA-AAATGATTTGGACTGAGCCAAG
1 AGGTAAAAAATGAATGATCGAGATGGAACCACGAATCATA-AGAAATGATCTGGACTGAGCCAAG
* * * * * *
10255093 ATCAAACGATTGGGATTAAATCACGAGTCAAAATAAAATAACCAAGACTGAGTCG
65 ATCAAACGACTGGGATGAAACCACGAGTCAAAATAAAATGACCAGGACCGAGTCG
* * * * * *
10255148 AGGTCGAAAAATGAATGATCGAAACGGAACCACGAATCATAAGAAATGGTCTAGACTTAGCCAAG
1 AGGT-AAAAAATGAATGATCGAGATGGAACCACGAATCATAAGAAATGATCTGGACTGAGCCAAG
* * * * *
10255213 ATCAAACGACCGGGATGAAACTATGAGTCAAAATAAAATGACCAGGATCGAGTCA
65 ATCAAACGACTGGGATGAAACCACGAGTCAAAATAAAATGACCAGGACCGAGTCG
** * * * * *
10255268 AGGTTGAAAATGAATGATTGGGATGAAAGCACGAATCATAAGAAATGATATGGACTGAGCCAAGA
1 AGGTAAAAAATGAATGATCGAGATGGAACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGA
* * ** * * * *
10255333 TTAAAC-AATCAAGATAAAATCACGAGTCAAAATAAAATGACTAGGACCGAGTTG
66 TCAAACGACT-GGGATGAAACCACGAGTCAAAATAAAATGACCAGGACCGAGTCG
* *
10255387 AGGTAAAAAATGAATGATCGGGATGGAACCACGAATCATAAGAAATGATCTGGACTGAGCTAAGA
1 AGGTAAAAAATGAATGATCGAGATGGAACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGA
* * * * * * *
10255452 TCAAACGACTAGAATGAAACCATGAGTCAAAATAAAATAACTAGGACTGAGTCA
66 TCAAACGACTGGGATGAAACCACGAGTCAAAATAAAATGACCAGGACCGAGTCG
* * *
10255506 AGGTAAAAAATGAATGATCAAAATGGAACCACGAATCATAAGAAATGATTTGGACTGAGCCAAGA
1 AGGTAAAAAATGAATGATCGAGATGGAACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGA
* * * * * * *
10255571 TCAAACGACTAGGATGAAACTATGAGTCAAAATAAAATAACCAAGATCGAGTTG
66 TCAAACGACTGGGATGAAACCACGAGTCAAAATAAAATGACCAGGACCGAGTCG
* * * * * *
10255625 AGGTCAAAAATGAATGATCGAGATGGAACCACGAATCATAAAAAATGATATGTATTGAGCTAAGA
1 AGGTAAAAAATGAATGATCGAGATGGAACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGA
* * * * * * *
10255690 TCAAATGA-TCGGAATGAAACCACTAGTTAAAATAAAATGATCAGGATCGAGTCA
66 TCAAACGACT-GGGATGAAACCACGAGTCAAAATAAAATGACCAGGACCGAGTCG
* ** * * *
10255744 AGTTCGAAAA--CA--A---A-ATGGAACCACGAATCATAAGAAATGATCTGGACTAAACCAAGA
1 AGGTAAAAAATGAATGATCGAGATGGAACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGA
* * * * * * *
10255801 TCAAATGACTAGGATGAAACTATGAGTCAAAATAAAATAACTAGGATCGAGTCG
66 TCAAACGACTGGGATGAAACCACGAGTCAAAATAAAATGACCAGGACCGAGTCG
* * *
10255855 AGATAAAAAATGAATGATCGAGATGGAACCACGAATCATAAAAAATGATCTGGACTGAGCTAAGA
1 AGGTAAAAAATGAATGATCGAGATGGAACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGA
* * **
10255920 TC-AACTGA-TCGGGATGAAACCACTAGTTAAAATAAAATGATTAGGACCGAGTCG
66 TCAAAC-GACT-GGGATGAAACCACGAGTCAAAATAAAATGACCAGGACCGAGTCG
** * * *
10255974 A-GTTCAAAATGAATGATC-AGGATGAAACCACGAATCATAAGAAATGATATGGACTGAGCGAAG
1 AGGTAAAAAATGAATGATCGA-GATGGAACCACGAATCATAAGAAATGATCTGGACTGAGCCAAG
* ** * * *
10256037 ATCAAATGA-TCGAAATAAAACCACAAGTTAAAATAAAATGACCAGGACCGAGTCG
65 ATCAAACGACT-GGGATGAAACCACGAGTCAAAATAAAATGACCAGGACCGAGTCG
* * * * ** *
10256092 AGGTTAAAAATGAATGATCG-GATGAAACCGCGAGTCATAAGAAATGATCAAGACTAAGCCAAGA
1 AGGTAAAAAATGAATGATCGAGATGGAACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGA
* * * * *
10256156 TCAAACAACTGGGATAAAACCATGAGTCAAAATAAAATGACCAGGATCGAGTCA
66 TCAAACGACTGGGATGAAACCACGAGTCAAAATAAAATGACCAGGACCGAGTCG
* * *** * * * *
10256210 AGGTCAAAAATGAATAATCGAGACAAAACCACGAATCATATGAAATAATAT-GACCGGAGCCAAG
1 AGGTAAAAAATGAATGATCGAGATGGAACCACGAATCATAAGAAATGATCTGGA-CTGAGCCAAG
10256274 ATCAA
65 ATCAA
10256279 GTGAGTGAGA
Statistics
Matches: 1023, Mismatches: 204, Indels: 46
0.80 0.16 0.04
Matches are distributed among these distances:
111 85 0.08
112 2 0.00
113 1 0.00
115 2 0.00
117 2 0.00
118 205 0.20
119 628 0.61
120 98 0.10
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (119 bp):
AGGTAAAAAATGAATGATCGAGATGGAACCACGAATCATAAGAAATGATCTGGACTGAGCCAAGA
TCAAACGACTGGGATGAAACCACGAGTCAAAATAAAATGACCAGGACCGAGTCG
Found at i:10255941 original size:56 final size:54
Alignment explanation
Indices: 10255867--10256048 Score: 148
Period size: 56 Copynumber: 3.1 Consensus size: 54
10255857 ATAAAAAATG
* *
10255867 AATGATCGAGATGGAACCACGAATCATAAAAAATGATCTGGACTGAGCTAAGATC
1 AATGATCGGGATGAAACCACGAATCATAAAAAATGAT-TGGACTGAGCTAAGATC
* * * * * * *
10255922 AACTGATCGGGATGAAACCACTAGTTAAAATAAAATGATTAGGACCGAGTCGAGTTCAAAATG
1 AA-TGATCGGGATGAAACCACGAATCATAA-AAAATGATT-GGA-C---T-GAGCT-AAGATC
* * *
10255985 AATGATCAGGATGAAACCACGAATCATAAGAAATGATATGGACTGAGCGAAGATC
1 AATGATCGGGATGAAACCACGAATCATAAAAAATGAT-TGGACTGAGCTAAGATC
10256040 AAATGATCG
1 -AATGATCG
10256049 AAATAAAACC
Statistics
Matches: 96, Mismatches: 20, Indels: 21
0.70 0.15 0.15
Matches are distributed among these distances:
55 6 0.06
56 32 0.33
57 12 0.12
58 1 0.01
60 1 0.01
61 11 0.11
62 27 0.28
63 6 0.06
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (54 bp):
AATGATCGGGATGAAACCACGAATCATAAAAAATGATTGGACTGAGCTAAGATC
Found at i:10255997 original size:62 final size:61
Alignment explanation
Indices: 10255925--10256120 Score: 169
Period size: 62 Copynumber: 3.3 Consensus size: 61
10255915 TAAGATCAAC
* *
10255925 TGATCGGGATGAAACCACTAGTTAAAATAAAATGATTAGGACCGAGTCGAGTTCAAAATGAA
1 TGATCAGGATGAAACCACAAGTTAAAATAAAATGA-TAGGACCGAGTCGAGTTCAAAATGAA
* * * * *
10255987 TGATCAGGATGAAACCACGAA-TCATAA-GAAATGATATGGACTGAG-CGAAGATC-AAATG-A
1 TGATCAGGATGAAACCAC-AAGTTAAAATAAAATGATA-GGACCGAGTCG-AGTTCAAAATGAA
* * *
10256046 TCGA--A--ATAAAACCACAAGTTAAAATAAAATGACCAGGACCGAGTCGAGGTTAAAAATGAA
1 T-GATCAGGATGAAACCACAAGTTAAAATAAAATGA-TAGGACCGAGTCGA-GTTCAAAATGAA
10256106 TGATC-GGATGAAACC
1 TGATCAGGATGAAACC
10256121 GCGAGTCATA
Statistics
Matches: 103, Mismatches: 16, Indels: 30
0.69 0.11 0.20
Matches are distributed among these distances:
55 2 0.02
56 13 0.13
57 14 0.14
58 6 0.06
59 9 0.09
60 13 0.13
61 17 0.17
62 28 0.27
63 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.19
Consensus pattern (61 bp):
TGATCAGGATGAAACCACAAGTTAAAATAAAATGATAGGACCGAGTCGAGTTCAAAATGAA
Found at i:10260851 original size:14 final size:15
Alignment explanation
Indices: 10260832--10260860 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10260822 GGGTAAACCA
10260832 TGGCTTCC-TCATTC
1 TGGCTTCCATCATTC
10260846 TGGCTTCCATCATTC
1 TGGCTTCCATCATTC
10260861 ACTATGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.10, C:0.34, G:0.14, T:0.41
Consensus pattern (15 bp):
TGGCTTCCATCATTC
Found at i:10268303 original size:26 final size:26
Alignment explanation
Indices: 10268273--10268348 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
10268263 GTTTGGGTTT
*
10268273 AACCAGAATGGACCCAATTGGGCCTG
1 AACCAGAATGGGCCCAATTGGGCCTG
* *
10268299 AACCAAAATGGGCCTAATTGGGCCTG
1 AACCAGAATGGGCCCAATTGGGCCTG
* *
10268325 AGCCAGAATGGGCCCAATTAGGCC
1 AACCAGAATGGGCCCAATTGGGCC
10268349 CAAACAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.30, C:0.26, G:0.28, T:0.16
Consensus pattern (26 bp):
AACCAGAATGGGCCCAATTGGGCCTG
Found at i:10270339 original size:57 final size:57
Alignment explanation
Indices: 10270261--10270380 Score: 197
Period size: 57 Copynumber: 2.1 Consensus size: 57
10270251 TAAATGAAGG
* * *
10270261 TGAT-AGGTGCAGGTTAGATGTGATCAATCAACTTTGGCATGGAATTGTTCTCTCCT
1 TGATGAGGTGCAGGTCAAATGTGATCAATCAACTTTGGCATGGAATTGCTCTCTCCT
*
10270317 TGATGAGGTGTAGGTCAAATGTGATCAATCAACTTTGGCATGGAATTGCTCTCTCCT
1 TGATGAGGTGCAGGTCAAATGTGATCAATCAACTTTGGCATGGAATTGCTCTCTCCT
10270374 TGATGAG
1 TGATGAG
10270381 TTTTTGCCTT
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
56 4 0.07
57 55 0.93
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (57 bp):
TGATGAGGTGCAGGTCAAATGTGATCAATCAACTTTGGCATGGAATTGCTCTCTCCT
Found at i:10270629 original size:138 final size:138
Alignment explanation
Indices: 10270381--10270654 Score: 476
Period size: 138 Copynumber: 2.0 Consensus size: 138
10270371 CCTTGATGAG
*
10270381 TTTTTGCCTTCTTTTCATTCTAAATCCTTAATTTTACTTGTTTACTTGTTGATTCTTTGATCCAT
1 TTTTTGCCTTCTTTTCATTCTAAATCCTTAATTTTACTTGTTTACTTGTTGATTCTTTGATCCAG
10270446 TTTATTTCTTTACATTTGATTACTGTTTGGATTACATTTGTAATGCATACTCAATTTGCTATATA
66 TTTATTTCTTTACATTTGATTACTGTTTGGATTACATTTGTAATGCATACTCAATTTGCTATATA
10270511 ATTGTAAT
131 ATTGTAAT
* * *
10270519 TTTTTGCCTTTTTTTCATTCTAGATCCTTAGTTTTACTTGTTTACTTGTTGATTCTTTGATCCAG
1 TTTTTGCCTTCTTTTCATTCTAAATCCTTAATTTTACTTGTTTACTTGTTGATTCTTTGATCCAG
* ** *
10270584 TTTATTTCTTTTCATTTGATTGTTGTTTGGATTACATTTGTAATGCATACTCAGTTTGCTATATA
66 TTTATTTCTTTACATTTGATTACTGTTTGGATTACATTTGTAATGCATACTCAATTTGCTATATA
10270649 ATTGTA
131 ATTGTA
10270655 CACTATTTGG
Statistics
Matches: 128, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
138 128 1.00
ACGTcount: A:0.20, C:0.14, G:0.11, T:0.54
Consensus pattern (138 bp):
TTTTTGCCTTCTTTTCATTCTAAATCCTTAATTTTACTTGTTTACTTGTTGATTCTTTGATCCAG
TTTATTTCTTTACATTTGATTACTGTTTGGATTACATTTGTAATGCATACTCAATTTGCTATATA
ATTGTAAT
Found at i:10271515 original size:176 final size:177
Alignment explanation
Indices: 10271221--10271583 Score: 638
Period size: 176 Copynumber: 2.1 Consensus size: 177
10271211 TTCATGTTAA
* *
10271221 ATCTTGCATTTTTTTTATTATTTGAATTTCATACTTGTCTTTACTATGGTCCTTTACTTGATTTT
1 ATCTTGCATTCTTTTTATTATTTGAATTTCATACTTGTCTTTACTATGGTCCTTTACTTGATTCT
* * *
10271286 GAAATTTTTGAGCTTTAGTTTATTACCTTGTTGCCATTTATATTCCATATTATGTTGCAAGTTAT
66 GAAATTCTTGAGCTTTAGTTCATTACCTTGTTGCCATTTAGATTCCATATTATGTTGCAAGTTAT
* *
10271351 GGTTTAGTCTCGGTTAGTTGAG-ATTAGGTTTTGCAATGTTATTTGT
131 GGTTTAATCTAGGTTAGTTGAGAATTAGGTTTTGCAATGTTATTTGT
10271397 ATCTTGCATTCTTTTTATTATTTGAATTTCATACTTGTCTTTACTATGGTCCTTTACTTGATTCT
1 ATCTTGCATTCTTTTTATTATTTGAATTTCATACTTGTCTTTACTATGGTCCTTTACTTGATTCT
* *
10271462 GAAATTCTTGAGCTTTGGTTCATTACCTTGTTGTCATTTAGATTCCATATTATGTTGCAAGTTAT
66 GAAATTCTTGAGCTTTAGTTCATTACCTTGTTGCCATTTAGATTCCATATTATGTTGCAAGTTAT
10271527 GGTTTAATCTAGGTTAGTTGAGAATTAGGTTTTGCAATGTTATTTGT
131 GGTTTAATCTAGGTTAGTTGAGAATTAGGTTTTGCAATGTTATTTGT
10271574 ATCTTGCATT
1 ATCTTGCATT
10271584 TTTATCACTT
Statistics
Matches: 177, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
176 143 0.81
177 34 0.19
ACGTcount: A:0.21, C:0.12, G:0.16, T:0.51
Consensus pattern (177 bp):
ATCTTGCATTCTTTTTATTATTTGAATTTCATACTTGTCTTTACTATGGTCCTTTACTTGATTCT
GAAATTCTTGAGCTTTAGTTCATTACCTTGTTGCCATTTAGATTCCATATTATGTTGCAAGTTAT
GGTTTAATCTAGGTTAGTTGAGAATTAGGTTTTGCAATGTTATTTGT
Found at i:10273979 original size:23 final size:23
Alignment explanation
Indices: 10273953--10273999 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
10273943 GGAAAGTAAG
*
10273953 TATGTATGGATGAAGAAAAAGAT
1 TATGTATAGATGAAGAAAAAGAT
* *
10273976 TATGTCTAGATGGAGAAAAAGAT
1 TATGTATAGATGAAGAAAAAGAT
10273999 T
1 T
10274000 TGTTAGTGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.02, G:0.26, T:0.28
Consensus pattern (23 bp):
TATGTATAGATGAAGAAAAAGAT
Found at i:10279597 original size:49 final size:48
Alignment explanation
Indices: 10279373--10279779 Score: 263
Period size: 49 Copynumber: 8.2 Consensus size: 48
10279363 ATTTGAGATT
* * * *
10279373 TTTTTAAAATTTCCTAACCTCTCTTTAGAGGAACTTTTCACAAA-TAAGA
1 TTTTTAAAGTTTCCTAGCCTCTATTTAGA-GAAGTTTTCA-AAATTAAGA
* * * *
10279422 TTTTTTAAAGATTCCCAGCCTTTATTTAGATG-AGCTTTTCATAAA-TGAGA
1 -TTTTTAAAGTTTCCTAGCCTCTATTTAGA-GAAG-TTTTCA-AAATTAAGA
* * * * * * *
10279472 TTTTAAAAGTTTCCTAGCCTTTCTTTAAATAAGCTTCTCATAAATGAA-A
1 TTTTTAAAGTTTCCTAGCCTCTATTTAGAGAAG-TTTTCA-AAATTAAGA
* *
10279521 ATTTTAAAGTTTCCTAGCCT-AACTTTAGAGAAGTTGTTCAAAATTAAGA
1 TTTTTAAAGTTTCCTAGCCTCTA-TTTAGAGAAGTT-TTCAAAATTAAGA
*
10279570 TTTTTAAAGTTTCCTAGCCTCTATTTAGAGGAA-TTTTTAAAATTTAAGA
1 TTTTTAAAGTTTCCTAGCCTCTATTTAGA-GAAGTTTTCAAAA-TTAAGA
* ** * *
10279619 TTTTTTAAGTTTTATAGCCTCAATTTAGAGGAGTTTTC-AAATCTAAGA
1 TTTTTAAAGTTTCCTAGCCTCTATTTAGAGAAGTTTTCAAAAT-TAAGA
* * * * * *
10279667 CTTTTAAAGTTTCATAGCCTTTATTTAAAGGAGTTATTCAAAGTTGAAGGCA
1 TTTTTAAAGTTTCCTAGCCTCTATTTAGAGAAGTT-TTCAAAATT-AA-G-A
** * * * **
10279719 TTTTTAAAGTTTCAAAGCTTCTCTTTAGAGGAGTTTTTCAAAATCCA-A
1 TTTTTAAAGTTTCCTAGCCTCTATTTAGAGAAG-TTTTCAAAATTAAGA
10279767 TATTTTAAAGTTT
1 T-TTTTAAAGTTT
10279780 TCAAAACCTT
Statistics
Matches: 287, Mismatches: 52, Indels: 37
0.76 0.14 0.10
Matches are distributed among these distances:
47 1 0.00
48 55 0.19
49 145 0.51
50 47 0.16
51 2 0.01
52 35 0.12
53 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.42
Consensus pattern (48 bp):
TTTTTAAAGTTTCCTAGCCTCTATTTAGAGAAGTTTTCAAAATTAAGA
Found at i:10281693 original size:27 final size:27
Alignment explanation
Indices: 10281652--10281739 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
10281642 TGCAACCACG
*
10281652 ATGCAAAACCCTAAACCTTAAACTCCC
1 ATGCAAAACCTTAAACCTTAAACTCCC
*
10281679 ATGCAAAACCTTAAACCTTAAACTCCA
1 ATGCAAAACCTTAAACCTTAAACTCCC
**
10281706 ATGCAAAACCTTAAACCCCAAAC-CACC
1 ATGCAAAACCTTAAACCTTAAACTC-CC
10281733 ATGCAAA
1 ATGCAAA
10281740 CCAAACCCTA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 1 0.02
27 54 0.98
ACGTcount: A:0.44, C:0.34, G:0.05, T:0.17
Consensus pattern (27 bp):
ATGCAAAACCTTAAACCTTAAACTCCC
Found at i:10281752 original size:12 final size:12
Alignment explanation
Indices: 10281737--10281846 Score: 51
Period size: 12 Copynumber: 8.4 Consensus size: 12
10281727 ACCACCATGC
10281737 AAACCAAACCCT
1 AAACCAAACCCT
*
10281749 AAACTAAACCCT
1 AAACCAAACCCT
*
10281761 AAA-CATAACCTT
1 AAACCA-AACCCT
*
10281773 AGAGCCTAAACCAAACCTT
1 A-AACC-AAA-C---CC-T
* *
10281792 AAACTAAACCTT
1 AAACCAAACCCT
*
10281804 AAACTAAACCCT
1 AAACCAAACCCT
10281816 AAACCAAAACCCT
1 AAACC-AAACCCT
* *
10281829 AACCCTAAACTCT
1 AAACC-AAACCCT
10281842 AAACC
1 AAACC
10281847 CTAAAATCCT
Statistics
Matches: 74, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
11 1 0.01
12 36 0.49
13 23 0.31
14 3 0.04
15 2 0.03
16 1 0.01
17 3 0.04
18 3 0.04
19 2 0.03
ACGTcount: A:0.48, C:0.34, G:0.02, T:0.16
Consensus pattern (12 bp):
AAACCAAACCCT
Found at i:10281781 original size:31 final size:31
Alignment explanation
Indices: 10281746--10281804 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
10281736 CAAACCAAAC
*
10281746 CCTAAACTAAACCCTAAAC-ATAACCTTAGAG
1 CCTAAACCAAACCCTAAACTA-AACCTTAGAG
*
10281777 CCTAAACCAAACCTTAAACTAAACCTTA
1 CCTAAACCAAACCCTAAACTAAACCTTA
10281805 AACTAAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.46, C:0.31, G:0.03, T:0.20
Consensus pattern (31 bp):
CCTAAACCAAACCCTAAACTAAACCTTAGAG
Found at i:10281784 original size:43 final size:42
Alignment explanation
Indices: 10281737--10281889 Score: 128
Period size: 43 Copynumber: 3.4 Consensus size: 42
10281727 ACCACCATGC
* * *
10281737 AAACCAAACCCTAAACTAAACCCTAAAC-ATAACCTTAGAGCCT
1 AAACCAAACCCTAAACTAAACCCTAAACTA-AACCCTA-AACCA
* *
10281780 AAACCAAACCTTAAACTAAACCTTAAACTAAACCCTAAACCA
1 AAACCAAACCCTAAACTAAACCCTAAACTAAACCCTAAACCA
* *
10281822 AAACCCTAACCCTAAACTCTAAACCCTAAAATCCTAAACCATAAACCA
1 AAA-CCAAACCCTAAA--CTAAACCCT-AAA--CTAAACCCTAAACCA
*
10281870 TAAACCCTAAACCATAAACT
1 -AAA-CC-AAACCCTAAACT
10281890 TTAAACCCAC
Statistics
Matches: 90, Mismatches: 11, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
42 6 0.07
43 42 0.47
44 1 0.01
45 8 0.09
46 3 0.03
48 16 0.18
49 6 0.07
50 8 0.09
ACGTcount: A:0.49, C:0.33, G:0.01, T:0.17
Consensus pattern (42 bp):
AAACCAAACCCTAAACTAAACCCTAAACTAAACCCTAAACCA
Done.