Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 305 of 344
Found at i:100893613 original size:20 final size:20
Alignment explanation
Indices: 100893590--100893627 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
100893580 ACTTTTTCGT
100893590 TTTTTATA-AGATTTTTTATA
1 TTTTTATAGA-ATTTTTTATA
*
100893610 TTTTTCTAGAATTTTTTA
1 TTTTTATAGAATTTTTTA
100893628 ATAATATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTTATAGAATTTTTTATA
Found at i:100894067 original size:23 final size:22
Alignment explanation
Indices: 100894037--100894084 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 22
100894027 AGGTATTTTT
100894037 CATTCATATTTTATGATCCATG
1 CATTCATATTTTATGATCCATG
100894059 CATTGCATATTTTATGATCCATG
1 CATT-CATATTTTATGATCCATG
100894082 CAT
1 CAT
100894085 ACTAATCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (22 bp):
CATTCATATTTTATGATCCATG
Found at i:100894521 original size:30 final size:30
Alignment explanation
Indices: 100894485--100894541 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
100894475 TTTTTTATTT
100894485 AACAAACATATTTTTAATATTATAAAATTC
1 AACAAACATATTTTTAATATTATAAAATTC
*
100894515 AACAAACATGTTTTTAATATTATAAAA
1 AACAAACATATTTTTAATATTATAAAA
100894542 ATTGAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.39
Consensus pattern (30 bp):
AACAAACATATTTTTAATATTATAAAATTC
Found at i:100902099 original size:51 final size:51
Alignment explanation
Indices: 100902023--100902149 Score: 159
Period size: 51 Copynumber: 2.5 Consensus size: 51
100902013 AAAACATAAC
*
100902023 TAAGTTATT-CGGATAAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAG
1 TAAG-TATTCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAG
* * * * *
100902074 TAAGTATTCCGGATGAAATATGAAGCTCTTGTTGAAGTTAGAGTAATAAGG
1 TAAGTATTCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAG
*
100902125 TAA-TAATTCCGGATGAAGTATGAAG
1 TAAGT-ATTCCGGATGAAATATGAAG
100902150 TAAGTTTGAG
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
50 5 0.07
51 62 0.93
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (51 bp):
TAAGTATTCCGGATGAAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAG
Found at i:100907542 original size:44 final size:44
Alignment explanation
Indices: 100907494--100907690 Score: 118
Period size: 44 Copynumber: 4.5 Consensus size: 44
100907484 TAGAGAAGGC
100907494 TGAAGATGACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGAT
1 TGAAGATGACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGAT
* ** * * * *
100907538 TGAAGAAG-GTGAATCTTATCTTCCCGAGGTAGT-AGGGAAGCAGAT
1 TGAAGATGACAG-ATCTTATC-TCCCTAAGCAGTAATGG-AGCAGAT
* ** * * * * * *
100907583 TTAAG-CCACTAG-CCTTATCTCTCC-GAGCAGCAGTGGAGAAGGT
1 TGAAGATGAC-AGATCTTATCTC-CCTAAGCAGTAATGGAGCAGAT
* * *
100907626 TGAAGATGACAAATCTTATCTCCCTAAACAGTAGTGGAGCAGAT
1 TGAAGATGACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGAT
*
100907670 CGAAGATGAC-GAATCTTATCT
1 TGAAGATGACAG-ATCTTATCT
100907691 TCCCGAGGTA
Statistics
Matches: 109, Mismatches: 33, Indels: 22
0.66 0.20 0.13
Matches are distributed among these distances:
43 18 0.17
44 70 0.64
45 20 0.18
46 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (44 bp):
TGAAGATGACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGAT
Found at i:100907622 original size:132 final size:132
Alignment explanation
Indices: 100907370--100907783 Score: 546
Period size: 132 Copynumber: 3.1 Consensus size: 132
100907360 CGGTGAATTC
* * * * *
100907370 ACAGATTTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGACGAATCTTATCTTCTCGAGG
1 ACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCGAAGAAGACGAATCTTATCTTCCCGAGG
* * * * ** *
100907435 TAGTAGGAAAGCATATTTAAGCTACTAGCCTTATCTCCCTGAACAAAAGTAGAGAAGGCTGAAGA
66 TAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGAAGGCTGAAGA
100907500 TG
131 TG
* **
100907502 ACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATTGAAGAAGGTGAATCTTATCTTCCCGAGG
1 ACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCGAAGAAGACGAATCTTATCTTCCCGAGG
*
100907567 TAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCTCC-GAGCAGCAGTGGAGAAGGTTGAAG
66 TAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTC-CCTGAGCAGCAGTGGAGAAGGCTGAAG
100907631 ATG
130 ATG
* * * *
100907634 ACAAATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGATGACGAATCTTATCTTCCCGAGG
1 ACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCGAAGAAGACGAATCTTATCTTCCCGAGG
* * * * * *
100907699 TAGTAGGGAAGTAGATTTAAGCCATTAGCCTTATCACCCTAAGCGGCAGTGGAGAAGGCTTAAGA
66 TAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGAAGGCTGAAGA
100907764 T-
131 TG
*
100907765 ACA-AACATTATCTCCCTAA
1 ACAGATC-TTATCTCCCTAA
100907784 AGTTACAGTG
Statistics
Matches: 248, Mismatches: 31, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
130 2 0.01
131 17 0.07
132 227 0.92
133 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (132 bp):
ACAGATCTTATCTCCCTAAGCAGTAATGGAGCAGATCGAAGAAGACGAATCTTATCTTCCCGAGG
TAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGCAGTGGAGAAGGCTGAAGA
TG
Found at i:100908036 original size:46 final size:46
Alignment explanation
Indices: 100907937--100908043 Score: 135
Period size: 46 Copynumber: 2.3 Consensus size: 46
100907927 ACTTGCAGTG
* * *
100907937 GGATGGATTGAAGAAAATGCAAATCCTATACTCCTAAGATGTGGTG
1 GGATGGATTGAAGAAAATGCAAATCCTATACTCCTAAGACGTAGTA
* **
100907983 GGATGGATTGAAGAAAATGCAGATCCTATAC-CCTTGGGACGTAGTA
1 GGATGGATTGAAGAAAATGCAAATCCTATACTCC-TAAGACGTAGTA
*
100908029 GGTTGGATTGAAGAA
1 GGATGGATTGAAGAA
100908044 GACAATGAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
45 2 0.04
46 51 0.96
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (46 bp):
GGATGGATTGAAGAAAATGCAAATCCTATACTCCTAAGACGTAGTA
Found at i:100909481 original size:20 final size:20
Alignment explanation
Indices: 100909458--100909495 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
100909448 TATTAAATGG
100909458 ATTAATTTAACATTATTATC
1 ATTAATTTAACATTATTATC
* *
100909478 ATTATTTTAATATTATTA
1 ATTAATTTAACATTATTA
100909496 CTATTGTTAT
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:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTAATTTAACATTATTATC
Found at i:100909494 original size:3 final size:3
Alignment explanation
Indices: 100909469--100909775 Score: 118
Period size: 3 Copynumber: 102.7 Consensus size: 3
100909459 TTAATTTAAC
* * * * * * *
100909469 ATT ATT ATC ATT ATT -TT AAT ATT ATT ACT ATT GTT ATT -TA AAT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
100909515 GTT ATT ATT ATAT ATT ATAT ATT ATT ACTT ATT ATT ATT TTT ATT ATT
1 ATT ATT ATT AT-T ATT AT-T ATT ATT A-TT ATT ATT ATT ATT ATT ATT
* ** * *
100909563 AGT AAC A-T GTT ATT ATT ATT ATT ATT ATT A-C ATTT ATT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
* *
100909606 A-T ATTT ATT -TT ATT ACT GTT ATT ATT ATT -TT A-T ATAT ATTT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T A-TT ATT
** * * ** ** * *
100909650 ACCA ATT TTT ATTT ATT ATC ATT AGA AAC A-T ATT GTT ATT TTT ATT
1 A-TT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
100909696 -TT ATT ATT ATT ATT CTT ATT ATT ATC ATG A-T ACT A-T ATT AACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
* *
100909739 AGTT TTGT ACT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 A-TT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
100909776 ATTTTCATTC
Statistics
Matches: 223, Mismatches: 56, Indels: 50
0.68 0.17 0.15
Matches are distributed among these distances:
2 20 0.09
3 178 0.80
4 24 0.11
5 1 0.00
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:100909614 original size:14 final size:14
Alignment explanation
Indices: 100909581--100909630 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
100909571 GTTATTATTA
100909581 TTATTATTATTACAT
1 TTATTA-TATTACAT
*
100909596 TTATTATATTATAT
1 TTATTATATTACAT
*
100909610 TTATTTTATTAC-T
1 TTATTATATTACAT
100909623 GTTATTAT
1 -TTATTAT
100909631 TATTTTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 1 0.03
14 23 0.77
15 6 0.20
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (14 bp):
TTATTATATTACAT
Found at i:100909662 original size:31 final size:31
Alignment explanation
Indices: 100909595--100909668 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
100909585 TATTATTACA
* **
100909595 TTTATTATATTATATTTATTTTATTACTGTT
1 TTTATTATATTATATATATTTTATTACAATT
* *
100909626 ATTATTATTTTATATATA-TTTATTACCAATT
1 TTTATTATATTATATATATTTTATTA-CAATT
100909657 TTTATT-TATTAT
1 TTTATTATATTAT
100909669 CATTAGAAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
30 12 0.34
31 23 0.66
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (31 bp):
TTTATTATATTATATATATTTTATTACAATT
Found at i:100910684 original size:19 final size:19
Alignment explanation
Indices: 100910660--100910696 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
100910650 TCGTAGACCA
100910660 AAATCGTTT-TTAATAAATC
1 AAATCGTTTATTAA-AAATC
100910679 AAATCGTTTATTAAAAAT
1 AAATCGTTTATTAAAAAT
100910697 AACCACTTTT
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:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (19 bp):
AAATCGTTTATTAAAAATC
Found at i:100911465 original size:8 final size:9
Alignment explanation
Indices: 100911454--100911502 Score: 57
Period size: 8 Copynumber: 5.4 Consensus size: 9
100911444 AAAATTAAAT
100911454 TTTTTAT-A
1 TTTTTATAA
100911462 TTTTTATAA
1 TTTTTATAA
100911471 TTTTTTAATAA
1 -TTTTT-ATAA
*
100911482 TTTTAATAA
1 TTTTTATAA
100911491 TTTTTA-AA
1 TTTTTATAA
100911499 TTTT
1 TTTT
100911503 AAATAATAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
8 13 0.36
9 10 0.28
10 9 0.25
11 4 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Found at i:100911484 original size:20 final size:18
Alignment explanation
Indices: 100911451--100911509 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
100911441 TTAAAAATTA
*
100911451 AATTTTTTATATTTTTAT
1 AATTTTTTATATTTTAAT
100911469 AATTTTTTAATAATTTTAAT
1 AATTTTTT-AT-ATTTTAAT
*
100911489 AA-TTTTTAAATTTTAAAT
1 AATTTTTTATATTTT-AAT
100911507 AAT
1 AAT
100911510 AGTTTTGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
17 5 0.14
18 14 0.40
19 7 0.20
20 9 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
AATTTTTTATATTTTAAT
Found at i:100913850 original size:24 final size:24
Alignment explanation
Indices: 100913818--100913864 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
100913808 GAAATTTACA
100913818 TATCACATCACATGCTTATATGTT
1 TATCACATCACATGCTTATATGTT
*
100913842 TATCGCATCACATGCTTATATGT
1 TATCACATCACATGCTTATATGT
100913865 ACCTAGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (24 bp):
TATCACATCACATGCTTATATGTT
Found at i:100924039 original size:18 final size:18
Alignment explanation
Indices: 100924018--100924085 Score: 91
Period size: 18 Copynumber: 3.8 Consensus size: 18
100924008 AACAGTATCC
* *
100924018 TATACGTGAATAGTGCTG
1 TATACGTAAATAGTGCCG
* *
100924036 TATACGTAAATAGTACCA
1 TATACGTAAATAGTGCCG
100924054 TATACGTAAATAGTGCCG
1 TATACGTAAATAGTGCCG
*
100924072 TATACGTGAATAGT
1 TATACGTAAATAGT
100924086 ACCATAAACG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (18 bp):
TATACGTAAATAGTGCCG
Found at i:100924058 original size:36 final size:36
Alignment explanation
Indices: 100923997--100924091 Score: 138
Period size: 36 Copynumber: 2.6 Consensus size: 36
100923987 ATCCCAACTA
* *
100923997 CTGTATACGTGAACAGTATCC-TATACGTGAATAGTG
1 CTGTATACGTGAATAGTA-CCATATACGTAAATAGTG
*
100924033 CTGTATACGTAAATAGTACCATATACGTAAATAGTG
1 CTGTATACGTGAATAGTACCATATACGTAAATAGTG
*
100924069 CCGTATACGTGAATAGTACCATA
1 CTGTATACGTGAATAGTACCATA
100924092 AACGGTCGTA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
35 2 0.04
36 51 0.96
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (36 bp):
CTGTATACGTGAATAGTACCATATACGTAAATAGTG
Found at i:100930141 original size:25 final size:26
Alignment explanation
Indices: 100930107--100930158 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
100930097 GCTTGGTTTC
*
100930107 TGTAGTATATAATATATATAG-ATTT
1 TGTAGTATATAATATATAAAGTATTT
* *
100930132 TGTATTATATATTATATAAAGTATTT
1 TGTAGTATATAATATATAAAGTATTT
100930158 T
1 T
100930159 CAAATAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (26 bp):
TGTAGTATATAATATATAAAGTATTT
Found at i:100933316 original size:30 final size:30
Alignment explanation
Indices: 100933276--100933334 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
100933266 CACTAACTCC
100933276 TAAGCCACCCCACTAACTCCATCACCCTAT
1 TAAGCCACCCCACTAACTCCATCACCCTAT
* *
100933306 TAAGCTACCCCACTAACTCCATTACCCTA
1 TAAGCCACCCCACTAACTCCATCACCCTA
100933335 CTTGCCACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.44, G:0.03, T:0.22
Consensus pattern (30 bp):
TAAGCCACCCCACTAACTCCATCACCCTAT
Found at i:100933696 original size:3 final size:3
Alignment explanation
Indices: 100933688--100933807 Score: 61
Period size: 3 Copynumber: 40.0 Consensus size: 3
100933678 AGGGGGAGAG
*
100933688 TAT TAT TAT TAT TAT TAT T-T TAT TACT T-T TAC TAT TAT T-T TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * * * * *
100933730 TAT ATATT TAT TAC CAT TATT TATT TAT TAT TCT TAG TAA CA- TAT TGT
1 TAT -TA-T TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT
* * *
100933778 TAT TTT TAT TAT TTT TAT TTT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
100933808 AATGGCACTA
Statistics
Matches: 88, Mismatches: 20, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
2 9 0.10
3 65 0.74
4 13 0.15
5 1 0.01
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:100938412 original size:32 final size:32
Alignment explanation
Indices: 100938354--100938431 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 32
100938344 TATACTTAAT
*
100938354 AAATAATAATAAAATAATAAAATATCTTATTA
1 AAATAATAATAAAATAATAAAATATCTAATTA
* **
100938386 AAATATTAATAAAAATAAT-ATTTATCTAATT-
1 AAATAATAAT-AAAATAATAAAATATCTAATTA
*
100938417 -AATAATTATAAAATA
1 AAATAATAATAAAATA
100938432 TCAACATCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 6 0.15
30 7 0.18
32 18 0.46
33 8 0.21
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (32 bp):
AAATAATAATAAAATAATAAAATATCTAATTA
Found at i:100940477 original size:19 final size:19
Alignment explanation
Indices: 100940426--100940477 Score: 51
Period size: 14 Copynumber: 3.0 Consensus size: 19
100940416 CAAAGAAAAA
*
100940426 GCATGTAATATTATGACTC
1 GCATGTAATAATATGACTC
*
100940445 GCA---AGT-AT-TGACTC
1 GCATGTAATAATATGACTC
100940459 GCATGTAATAATATGACTC
1 GCATGTAATAATATGACTC
100940478 ACAAATATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 10
0.66 0.08 0.26
Matches are distributed among these distances:
14 9 0.36
15 1 0.04
16 2 0.08
17 2 0.08
18 2 0.08
19 9 0.36
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (19 bp):
GCATGTAATAATATGACTC
Found at i:100941171 original size:10 final size:10
Alignment explanation
Indices: 100941146--100941186 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
100941136 GATTTCTACG
*
100941146 TATATCATATA
1 TATATCACA-A
100941157 TATATCACAA
1 TATATCACAA
*
100941167 TATATCACAC
1 TATATCACAA
100941177 TATATCACAA
1 TATATCACAA
100941187 GACTTGTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 19 0.70
11 8 0.30
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (10 bp):
TATATCACAA
Found at i:100941961 original size:9 final size:10
Alignment explanation
Indices: 100941947--100941996 Score: 54
Period size: 9 Copynumber: 5.3 Consensus size: 10
100941937 CTCATTAGGA
100941947 TTCCCCTCC-
1 TTCCCCTCCT
100941956 TTCCCCT--T
1 TTCCCCTCCT
100941964 TTCTCCCTCCT
1 TTC-CCCTCCT
100941975 TTCCCC-CCT
1 TTCCCCTCCT
*
100941984 TTCCCCTTCT
1 TTCCCCTCCT
100941994 TTC
1 TTC
100941997 ATTTGTTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
8 3 0.09
9 20 0.57
10 8 0.23
11 4 0.11
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (10 bp):
TTCCCCTCCT
Found at i:100941990 original size:19 final size:19
Alignment explanation
Indices: 100941947--100941996 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
100941937 CTCATTAGGA
*
100941947 TTCCCCTCC-TT-CCCCTT
1 TTCCCCTCCTTTCCCCCCT
100941964 TTCTCCCTCCTTTCCCCCCT
1 TTC-CCCTCCTTTCCCCCCT
*
100941984 TTCCCCTTCTTTC
1 TTCCCCTCCTTTC
100941997 ATTTGTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 3 0.11
18 6 0.21
19 11 0.39
20 8 0.29
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (19 bp):
TTCCCCTCCTTTCCCCCCT
Found at i:100942013 original size:18 final size:18
Alignment explanation
Indices: 100941990--100942032 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
100941980 CCCTTTCCCC
*
100941990 TTCTTTCATTTGTTTATT
1 TTCTTTCATTTATTTATT
*
100942008 TTCTTTCGTTTATTTATT
1 TTCTTTCATTTATTTATT
*
100942026 TACTTTC
1 TTCTTTC
100942033 TTTTTATGCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.14, G:0.05, T:0.70
Consensus pattern (18 bp):
TTCTTTCATTTATTTATT
Found at i:100943434 original size:30 final size:29
Alignment explanation
Indices: 100943385--100943450 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
100943375 TTTTAATAGT
*
100943385 TTAT-ATTTTTATAATTTTTAAAAAATTAAA
1 TTATAATTATTATAATTTTT--AAAATTAAA
*
100943415 TTA-AATTATTATTATTTTTAAAATTAAA
1 TTATAATTATTATAATTTTTAAAATTAAA
100943443 TTATAATT
1 TTATAATT
100943451 TTACCATGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 12 0.38
29 4 0.12
30 16 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (29 bp):
TTATAATTATTATAATTTTTAAAATTAAA
Found at i:100943933 original size:18 final size:17
Alignment explanation
Indices: 100943881--100943966 Score: 57
Period size: 18 Copynumber: 4.7 Consensus size: 17
100943871 TATTTTCCCA
*
100943881 TAAAAATTATAAAATTAT
1 TAAAAAATATAAAATT-T
*
100943899 T-AAAAATAAAAATATTT
1 TAAAAAATATAAA-ATTT
100943916 TAAAAAATATTAAAATTT
1 TAAAAAATA-TAAAATTT
**
100943934 ATATAAACTTATAAAAATTT
1 -TA-AAAAATAT-AAAATTT
*
100943954 ATAAAAGATATAA
1 -TAAAAAATATAA
100943967 TAAAATCTGA
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
17 11 0.20
18 17 0.31
19 12 0.22
20 15 0.27
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (17 bp):
TAAAAAATATAAAATTT
Found at i:100943965 original size:19 final size:19
Alignment explanation
Indices: 100943880--100943966 Score: 74
Period size: 20 Copynumber: 4.7 Consensus size: 19
100943870 ATATTTTCCC
*
100943880 ATAAAAATTAT-AAAA-TT
1 ATAAAAAATATAAAAATTT
*
100943897 ATTAAAAATA-AAAATATTT
1 ATAAAAAATATAAAA-ATTT
*
100943916 -TAAAAAATATTAAAATTT
1 ATAAAAAATATAAAAATTT
**
100943934 ATATAAACTTATAAAAATTT
1 ATA-AAAAATATAAAAATTT
*
100943954 ATAAAAGATATAA
1 ATAAAAAATATAA
100943967 TAAAATCTGA
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
17 11 0.20
18 13 0.24
19 15 0.27
20 16 0.29
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (19 bp):
ATAAAAAATATAAAAATTT
Found at i:100944377 original size:25 final size:27
Alignment explanation
Indices: 100944349--100944412 Score: 82
Period size: 25 Copynumber: 2.5 Consensus size: 27
100944339 TATTTTTCCA
100944349 TAAAAAATTATAAAATT-AT-TAAAAT
1 TAAAAAATTATAAAATTGATATAAAAT
*
100944374 TAAAAAA--ATAAAATTGATATAAACT
1 TAAAAAATTATAAAATTGATATAAAAT
100944399 TAAAAAAATTATAA
1 T-AAAAAATTATAA
100944413 GAAAAAAGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 8 0.24
24 2 0.06
25 13 0.39
26 6 0.18
28 4 0.12
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (27 bp):
TAAAAAATTATAAAATTGATATAAAAT
Found at i:100956218 original size:33 final size:33
Alignment explanation
Indices: 100956181--100956304 Score: 212
Period size: 33 Copynumber: 3.8 Consensus size: 33
100956171 CTCTGTTTCA
100956181 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
100956214 GGTTGCTGGACGGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
100956247 GGTTGCTGGACAGGAGCTGGAATGTGAATGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
* *
100956280 GGTTGCTGGATAGTAGCTGGAATGT
1 GGTTGCTGGACAGGAGCTGGAATGT
100956305 CAAGAAGAAA
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 86 1.00
ACGTcount: A:0.19, C:0.09, G:0.42, T:0.31
Consensus pattern (33 bp):
GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
Found at i:100965534 original size:23 final size:22
Alignment explanation
Indices: 100965499--100965548 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
100965489 ATTTAATTTT
* *
100965499 TAATTTTTAAATTATTTAGTAA
1 TAATATTTAAATTATTTAATAA
*
100965521 TAATATTTAGAATTATTTAATGA
1 TAATATTTA-AATTATTTAATAA
100965544 TAATA
1 TAATA
100965549 CCTGGTGGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (22 bp):
TAATATTTAAATTATTTAATAA
Found at i:100965884 original size:30 final size:30
Alignment explanation
Indices: 100965850--100965912 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
100965840 ATTTATTTTA
100965850 TTGTTAATTTTCTTATTATTTTAAAGGCAT
1 TTGTTAATTTTCTTATTATTTTAAAGGCAT
* *
100965880 TTGTTAATTTTTTTATTATTTTAGAGGCAT
1 TTGTTAATTTTCTTATTATTTTAAAGGCAT
100965910 TTG
1 TTG
100965913 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAGGCAT
Found at i:100966232 original size:21 final size:21
Alignment explanation
Indices: 100966208--100966251 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
100966198 AACACATAGG
100966208 CTTCTATTTCTATTT-TTATTT
1 CTTCTATTTCTATTTCTT-TTT
100966229 CTTCTATTTCTATTTCTTTTT
1 CTTCTATTTCTATTTCTTTTT
100966250 CT
1 CT
100966252 CCACTCCTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.11, C:0.18, G:0.00, T:0.70
Consensus pattern (21 bp):
CTTCTATTTCTATTTCTTTTT
Found at i:100966235 original size:15 final size:15
Alignment explanation
Indices: 100966215--100966246 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
100966205 AGGCTTCTAT
*
100966215 TTCTATTTTTATTTC
1 TTCTATTTCTATTTC
100966230 TTCTATTTCTATTTC
1 TTCTATTTCTATTTC
100966245 TT
1 TT
100966247 TTTCTCCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (15 bp):
TTCTATTTCTATTTC
Found at i:100966870 original size:20 final size:19
Alignment explanation
Indices: 100966847--100966895 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 19
100966837 TACCAATTTA
100966847 TTTTATTTTCTTAAAATTATT
1 TTTTATTTTC-T-AAATTATT
*
100966868 TTTGTATTTTCTAATTTA-T
1 TTT-TATTTTCTAAATTATT
100966887 TTTTATTTT
1 TTTTATTTT
100966896 ATTTTATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 6 0.23
19 4 0.15
20 5 0.19
21 4 0.15
22 7 0.27
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTATTTTCTAAATTATT
Found at i:100968855 original size:16 final size:16
Alignment explanation
Indices: 100968834--100968867 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
100968824 CAAAAGAATA
100968834 ATAATTATATAATAAT
1 ATAATTATATAATAAT
*
100968850 ATAATTATTTAATAAT
1 ATAATTATATAATAAT
100968866 AT
1 AT
100968868 TAAATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATAATTATATAATAAT
Found at i:100977621 original size:13 final size:13
Alignment explanation
Indices: 100977603--100977628 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
100977593 GACAAGAAAA
100977603 GGAAAATTGAGTT
1 GGAAAATTGAGTT
100977616 GGAAAATTGAGTT
1 GGAAAATTGAGTT
100977629 ATGTCACTGG
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:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (13 bp):
GGAAAATTGAGTT
Found at i:100977745 original size:30 final size:32
Alignment explanation
Indices: 100977711--100977780 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 32
100977701 TGGCCCAAGA
* *
100977711 GTAAATATTCAAAAA-TTGAGGGATTAA-AGT
1 GTAAATATTCAAAAATTTGAAGGACTAATAGT
*
100977741 GTAAATA-TGAAAAATTTGAAGGACTAATAGT
1 GTAAATATTCAAAAATTTGAAGGACTAATAGT
*
100977772 GAAAATATT
1 GTAAATATT
100977781 TTAAGGGTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 6 0.18
30 17 0.52
31 9 0.27
32 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.19, T:0.30
Consensus pattern (32 bp):
GTAAATATTCAAAAATTTGAAGGACTAATAGT
Found at i:100981467 original size:16 final size:17
Alignment explanation
Indices: 100981436--100981468 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
100981426 TTCATAAGTA
100981436 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
100981453 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
100981469 GTACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:100982002 original size:138 final size:138
Alignment explanation
Indices: 100981754--100982104 Score: 537
Period size: 138 Copynumber: 2.5 Consensus size: 138
100981744 TTTGACATGA
* * * * * * *
100981754 TGCCATAGTCTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTCTCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCACGTTGCCATGGTATCTTTCAA
100981818 CCATGGTCTTATTCATTTCATGTCACTCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTC
65 CCATGGTCTTATTCATTTCATGTCACTCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTC
100981883 ATATCACAT
130 ATATCACAT
100981892 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAAC
* *
100981957 CATGGTCTTATTCATTTC-TCGTC-TTGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTT
66 CATGGTCTTATTCATTTCAT-GTCACT-CTGCCATGGTATCTTTCAACCATGGTCTTATTCATTT
*
100982020 CATATCACGT
129 CATATCACAT
* * *
100982030 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTGATATTAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAAC
100982095 CATGGTCTTA
66 CATGGTCTTA
100982105 CAAATGTCAT
Statistics
Matches: 197, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
137 6 0.03
138 191 0.97
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (138 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCATTTCATGTCACTCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCA
TATCACAT
Found at i:100982106 original size:46 final size:46
Alignment explanation
Indices: 100981754--100982105 Score: 476
Period size: 46 Copynumber: 7.7 Consensus size: 46
100981744 TTTGACATGA
* * * * *
100981754 TGCCATAGTCTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* * *
100981800 TGCCATGGTCTCTTTCAACCATGGTCTTATTCATTTCATGTCAC-T
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
100981845 CTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACAT
1 -TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
100981892 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* * **
100981938 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTC-TCGTCTTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT-ATCACGT
*
100981984 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* * * *
100982030 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTGATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
100982076 TGCCATGGTATCTTTCAACCATGGTCTTAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC
100982106 AAATGTCATA
Statistics
Matches: 279, Mismatches: 22, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
45 6 0.02
46 271 0.97
47 2 0.01
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:100985299 original size:6 final size:6
Alignment explanation
Indices: 100985290--100985327 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
100985280 TAAGTTTAAG
100985290 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
100985328 TGAACTCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:100988395 original size:41 final size:43
Alignment explanation
Indices: 100988350--100988533 Score: 173
Period size: 42 Copynumber: 4.4 Consensus size: 43
100988340 CCGGTATTCA
* *
100988350 GCCTGCTAGGTTTAAAACCCGA-ATTCA-TTCACCGGCATT-TT
1 GCCTGCTAGGCTCAAAACCCGATA-TCATTTCACCGGCATTATT
* * *
100988391 GCCTGCTAGGCTCGAAGCCCGATATCATTTCATCGGCATTATT
1 GCCTGCTAGGCTCAAAACCCGATATCATTTCACCGGCATTATT
* * * * * * *
100988434 GCCTGCTAGGTTTAAAAACC-AAAT-TTATTCACCGGTATT-TC
1 GCCTGCTAGGCTCAAAACCCGATATCAT-TTCACCGGCATTATT
* * *
100988475 GCCTGCTAGGCTCGAAGCCAGATATCATTTCACCGGCATTATT
1 GCCTGCTAGGCTCAAAACCCGATATCATTTCACCGGCATTATT
100988518 GCCTGCTAGGCTCAAA
1 GCCTGCTAGGCTCAAA
100988534 GGCCCGGATA
Statistics
Matches: 110, Mismatches: 26, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
41 37 0.34
42 39 0.35
43 34 0.31
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (43 bp):
GCCTGCTAGGCTCAAAACCCGATATCATTTCACCGGCATTATT
Found at i:100988491 original size:84 final size:84
Alignment explanation
Indices: 100988350--100988527 Score: 293
Period size: 84 Copynumber: 2.1 Consensus size: 84
100988340 CCGGTATTCA
* * * *
100988350 GCCTGCTAGGTTTAAAACCCGAATTCATTCACCGGCATTTTGCCTGCTAGGCTCGAAGCCCGATA
1 GCCTGCTAGGTTTAAAAACCAAATTCATTCACCGGCATTTCGCCTGCTAGGCTCGAAGCCAGATA
*
100988415 TCATTTCATCGGCATTATT
66 TCATTTCACCGGCATTATT
* *
100988434 GCCTGCTAGGTTTAAAAACCAAATTTATTCACCGGTATTTCGCCTGCTAGGCTCGAAGCCAGATA
1 GCCTGCTAGGTTTAAAAACCAAATTCATTCACCGGCATTTCGCCTGCTAGGCTCGAAGCCAGATA
100988499 TCATTTCACCGGCATTATT
66 TCATTTCACCGGCATTATT
100988518 GCCTGCTAGG
1 GCCTGCTAGG
100988528 CTCAAAGGCC
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 87 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (84 bp):
GCCTGCTAGGTTTAAAAACCAAATTCATTCACCGGCATTTCGCCTGCTAGGCTCGAAGCCAGATA
TCATTTCACCGGCATTATT
Found at i:100992696 original size:16 final size:16
Alignment explanation
Indices: 100992677--100992716 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
100992667 AAAAATTAGG
100992677 AAAAAAA-TAGAAATAA
1 AAAAAAAGTA-AAATAA
100992693 AAAAAAAGTAAAATAA
1 AAAAAAAGTAAAATAA
100992709 AAATAAAA
1 AAA-AAAA
100992717 ATGGCTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.12
Consensus pattern (16 bp):
AAAAAAAGTAAAATAA
Found at i:100999826 original size:27 final size:27
Alignment explanation
Indices: 100999791--100999968 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
100999781 TGAATTGTAC
* *
100999791 AGCATTAAGTGTGTGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
100999818 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
100999844 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
100999872 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
100999900 AGCACTAAGCGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
100999927 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
100999954 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
100999969 GACTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 103 0.82
28 22 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:100999905 original size:82 final size:81
Alignment explanation
Indices: 100999796--100999947 Score: 207
Period size: 82 Copynumber: 1.9 Consensus size: 81
100999786 TGTACAGCAT
* * * *
100999796 TAAGTGTGTGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCG
1 TAAGTGTGCGATTTGACTATGTAGCACTAAGCGTGCGAAATGAATACGTA-GCACTAAGTGTGCG
100999860 AATTGACCATGCGGCAC
65 AATTGACCATGCGGCAC
** *
100999877 TAAGTGTGCGAGTTTGACTATGTAGCACTAAGCGTGCGATTTGATTACGTAGCACTAAGTGTGCG
1 TAAGTGTGCGA-TTTGACTATGTAGCACTAAGCGTGCGAAATGAATACGTAGCACTAAGTGTGCG
*
100999942 AGTTGA
65 AATTGA
100999948 TTATATAGCA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
81 10 0.16
82 50 0.82
83 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.30
Consensus pattern (81 bp):
TAAGTGTGCGATTTGACTATGTAGCACTAAGCGTGCGAAATGAATACGTAGCACTAAGTGTGCGA
ATTGACCATGCGGCAC
Found at i:100999959 original size:82 final size:81
Alignment explanation
Indices: 100999788--100999968 Score: 202
Period size: 82 Copynumber: 2.2 Consensus size: 81
100999778 GATTGAATTG
* * * * *
100999788 TACAGCATTAAGTGTGTGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGCGTGCGAAATGAATACGATGCACTAA
100999853 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
100999869 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGCGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGCGTGCGAAATGAATACGAT-GCACT
* **
100999933 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
100999951 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
100999969 GACTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 16 0.20
82 65 0.80
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGCGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:101001485 original size:89 final size:88
Alignment explanation
Indices: 101001385--101001663 Score: 256
Period size: 89 Copynumber: 3.2 Consensus size: 88
101001375 CAGATCTGTT
*
101001385 ATCTTGGATCTGCTTTGGTGTGAGAACATTCGAAAGTCAAATCTCCTATGTCTTCGATTTGTTCC
1 ATCTTGGATCTGCTTTGGTGTGAGAACATTCGAAAGTCAAATCTGCTATGTCTTC-ATTTGTTCC
101001450 TTGTAAACACAAGAATGCCAAATC
65 TTGTAAACACAAGAATGCCAAATC
* * * * * * *
101001474 ATCTTGAATCTGCTTTAGTAT-A-AACA-TCTGAAGGTTAGATCTGCTATG---T-ATCTGCTCT
1 ATCTTGGATCTGCTTTGGTGTGAGAACATTC-GAAAGTCAAATCTGCTATGTCTTCATTTG-T-T
** * *
101001532 CC--GTCAAA-A-TGGAGATGCCAGACTTGTT
63 CCTTGT-AAACACAAGA-ATGCCA-A---ATC
*
101001560 ATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCAATTTGTTCC
1 ATCTTGGATCTGCTTTGGTGTGAGAACATTCGAAAGTCAAATCTGCTATGTCTTC-ATTTGTTCC
*
101001625 TTGTAAACACAAGCATGCCAAATC
65 TTGTAAACACAAGAATGCCAAATC
101001649 ATCTTGGATCTGCTT
1 ATCTTGGATCTGCTT
101001664 CAGTATAAAC
Statistics
Matches: 144, Mismatches: 25, Indels: 42
0.68 0.12 0.20
Matches are distributed among these distances:
81 2 0.01
82 13 0.09
83 5 0.03
84 4 0.03
86 21 0.15
87 20 0.14
88 21 0.15
89 35 0.24
91 4 0.03
92 5 0.03
93 13 0.09
94 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (88 bp):
ATCTTGGATCTGCTTTGGTGTGAGAACATTCGAAAGTCAAATCTGCTATGTCTTCATTTGTTCCT
TGTAAACACAAGAATGCCAAATC
Found at i:101001608 original size:88 final size:86
Alignment explanation
Indices: 101001337--101001610 Score: 231
Period size: 88 Copynumber: 3.1 Consensus size: 86
101001327 TGAAGGTTAG
* *
101001337 ATCTGCTATGTATCTACTCTCCGTTGAAATGGAGATGCCAGATCTGTTATCTTGGATCTGCTTTG
1 ATCTGCTATGTATCTGCTCTCCG-TAAAATGGAGATGCCAGAT-TGTTATCTTGGATCTGCTTTG
*
101001402 GTGTGAGAACATTCGAAAGTCAA
64 GTGTGAGAACATCCGAAAGTCAA
* * ** * * *
101001425 ATCTCCTATGTCTTCGATTTG-T-TCCTTGTAAACA-CAAGAATGCCA-A--ATCATCTTGAATC
1 ATCTGCTATG---T--ATCTGCTCTCC--GTAAA-ATGGAG-ATGCCAGATTGTTATCTTGGATC
* * * * * *
101001484 TGCTTTAGTAT-A-AACATCTGAAGGTTAG
57 TGCTTTGGTGTGAGAACATCCGAAAGTCAA
101001512 ATCTGCTATGTATCTGCTCTCCGTCAAAATGGAGATGCCAGACTTGTTATCTTGGATCTGCTTTG
1 ATCTGCTATGTATCTGCTCTCCGT-AAAATGGAGATGCCAGA-TTGTTATCTTGGATCTGCTTTG
101001577 GTGTGAGAACATCCGAAAGTCAA
64 GTGTGAGAACATCCGAAAGTCAA
101001600 ATCTGCTATGT
1 ATCTGCTATGT
101001611 CTTCAATTTG
Statistics
Matches: 138, Mismatches: 29, Indels: 38
0.67 0.14 0.19
Matches are distributed among these distances:
82 13 0.09
83 7 0.05
84 4 0.03
86 19 0.14
87 21 0.15
88 33 0.24
89 19 0.14
91 4 0.03
92 7 0.05
93 11 0.08
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.34
Consensus pattern (86 bp):
ATCTGCTATGTATCTGCTCTCCGTAAAATGGAGATGCCAGATTGTTATCTTGGATCTGCTTTGGT
GTGAGAACATCCGAAAGTCAA
Found at i:101001611 original size:175 final size:175
Alignment explanation
Indices: 101001318--101001696 Score: 661
Period size: 175 Copynumber: 2.2 Consensus size: 175
101001308 GGGTGTTACA
**
101001318 ATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTTGAAATGGAGATGCCAGATCTG
1 ATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCAAAATGGAGATGCCAGATCTG
* *
101001383 TTATCTTGGATCTGCTTTGGTGTGAGAACATTCGAAAGTCAAATCTCCTATGTCTTCGATTTGTT
66 TTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAAATCTCCTATGTCTTCAATTTGTT
*
101001448 CCTTGTAAACACAAGAATGCCAAATCATCTTGAATCTGCTTTAGT
131 CCTTGTAAACACAAGAATGCCAAATCATCTTGAATCTGCTTCAGT
*
101001493 ATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCAAAATGGAGATGCCAGA-CTT
1 ATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCAAAATGGAGATGCCAGATC-T
*
101001557 GTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCAATTTGT
65 GTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAAATCTCCTATGTCTTCAATTTGT
* *
101001622 TCCTTGTAAACACAAGCATGCCAAATCATCTTGGATCTGCTTCAGT
130 TCCTTGTAAACACAAGAATGCCAAATCATCTTGAATCTGCTTCAGT
101001668 ATAAACATCTGAAGGTTAGATCTGCTATG
1 ATAAACATCTGAAGGTTAGATCTGCTATG
101001697 CTTTGGCCTA
Statistics
Matches: 194, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
174 1 0.01
175 193 0.99
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (175 bp):
ATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCAAAATGGAGATGCCAGATCTG
TTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAAATCTCCTATGTCTTCAATTTGTT
CCTTGTAAACACAAGAATGCCAAATCATCTTGAATCTGCTTCAGT
Found at i:101001695 original size:87 final size:85
Alignment explanation
Indices: 101001385--101001696 Score: 244
Period size: 87 Copynumber: 3.6 Consensus size: 85
101001375 CAGATCTGTT
* * * * * *
101001385 ATCTTGGATCTGCTTTGGTGTGAGAACAT-TCGAAAGTCAAATCTCCTATGTCTTCGATTTGTTC
1 ATCTTGGATCTGCTTTAGTAT-A-AACATCT-GAAGGTTAGATCTGCTATGTCTTC-ATTTGTTC
101001449 CTTGTAAACACAAGAATGCCAAATC
62 CTTGTAAACACAAG-ATGCCAAATC
* *
101001474 ATCTTGAATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTATG---T-ATCTGCTCTCC-
1 ATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTATGTCTTCATTTG-T-TCCT
** * *
101001534 -GTCAAA-ATGGAGATGCCAGACTTGTT
64 TGT-AAACA-CAAGATGCCA-A---ATC
* * * * * *
101001560 ATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCAATTTGTTCC
1 ATCTTGGATCTGCTTTAGTAT-A-AACATCTGAAGGTTAGATCTGCTATGTCTTC-ATTTGTTCC
101001625 TTGTAAACACAAGCATGCCAAATC
63 TTGTAAACACAAG-ATGCCAAATC
*
101001649 ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATG
1 ATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTATG
101001697 CTTTGGCCTA
Statistics
Matches: 172, Mismatches: 31, Indels: 42
0.70 0.13 0.17
Matches are distributed among these distances:
82 13 0.08
83 7 0.04
84 4 0.02
86 19 0.11
87 43 0.25
88 25 0.15
89 37 0.22
91 4 0.02
92 7 0.04
93 13 0.08
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (85 bp):
ATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTATGTCTTCATTTGTTCCTTG
TAAACACAAGATGCCAAATC
Found at i:101004037 original size:26 final size:26
Alignment explanation
Indices: 101004008--101004115 Score: 126
Period size: 26 Copynumber: 4.2 Consensus size: 26
101003998 TGGTACAAAT
101004008 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * * *
101004034 TGATAATTGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
101004060 GGATAATGGGTTAGATAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
101004086 TGATAATGGTTTAGTTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
101004112 TGAT
1 TGAT
101004116 GGGCATTTCA
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 68 1.00
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.40
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:101012874 original size:14 final size:16
Alignment explanation
Indices: 101012843--101012875 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
101012833 CGATGCGATG
101012843 AAATGCTATGATATGC
1 AAATGCTATGATATGC
101012859 AAATGC-ATGA-ATGC
1 AAATGCTATGATATGC
101012873 AAA
1 AAA
101012876 AAGGAAATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 4 0.24
16 6 0.35
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.24
Consensus pattern (16 bp):
AAATGCTATGATATGC
Found at i:101016880 original size:20 final size:21
Alignment explanation
Indices: 101016843--101016881 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
101016833 AATTTAAAAT
*
101016843 AAATAATAATATATAAATATG
1 AAATAATAATATAAAAATATG
101016864 AAATAAT-ATATAAAAATA
1 AAATAATAATATAAAAATA
101016882 ATATTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (21 bp):
AAATAATAATATAAAAATATG
Found at i:101033012 original size:93 final size:93
Alignment explanation
Indices: 101032905--101033075 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
101032895 GCCCCTGAGT
* * * *
101032905 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTAGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAACTCGGACATTCGCATCCATAAGTGAACTAGGACTCAACTCAA
*
101032970 TGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
101032998 GAACTCGGACTCAACTCAACAAATTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAACTCGGACATTCGCATCCATAAGTGAACTAGGACTCAACTCAA
101033063 CGAGTTCGGATGC
66 CGAGTTCGGATGC
101033076 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAACTCGGACATTCGCATCCATAAGTGAACTAGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:101033072 original size:46 final size:46
Alignment explanation
Indices: 101032902--101033072 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
101032892 CCCGCCCCTG
* * *
101032902 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
* * * * *
101032948 AGTGAACTAGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT--TTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATA
* * *
101032996 A-CGAACTCGGACTCAACTCAACAAATTCGGACATTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
101033041 AGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGA
101033073 TGCTCAACCA
Statistics
Matches: 97, Mismatches: 19, Indels: 18
0.72 0.14 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 55 0.57
47 25 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
Found at i:101033532 original size:30 final size:30
Alignment explanation
Indices: 101033498--101033557 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
101033488 ATTTAATACG
101033498 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
101033528 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
101033558 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:101040375 original size:93 final size:93
Alignment explanation
Indices: 101040268--101040438 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
101040258 ACCCCTGAGT
* * *
101040268 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAGCTAGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTAGGACTCAACTCAA
101040333 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
101040361 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTAGGACTCAACTCAA
101040426 CGAGTTCGGATGC
66 CGAGTTCGGATGC
101040439 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTAGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:101040435 original size:46 final size:46
Alignment explanation
Indices: 101040265--101040435 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
101040255 CCCACCCCTG
* * *
101040265 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATA
* * * *
101040311 AGTGAGCTAGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--TTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACATCCATA
* *
101040359 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATA
101040404 AGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGA
101040436 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 57 0.56
47 27 0.26
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATA
Found at i:101040895 original size:30 final size:30
Alignment explanation
Indices: 101040861--101040920 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
101040851 ATTTAATACG
101040861 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
101040891 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
101040921 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:101042490 original size:19 final size:19
Alignment explanation
Indices: 101042465--101042589 Score: 174
Period size: 19 Copynumber: 6.9 Consensus size: 19
101042455 ATAATCTTCA
101042465 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
101042484 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
101042503 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
101042520 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
101042538 ATGATA--CAATCTT-GAT
1 ATGATATGCAATCTTAGAT
101042554 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
**
101042572 ATGATATATAATCTTAGA
1 ATGATATGCAATCTTAGA
101042590 AGATATGATT
Statistics
Matches: 95, Mismatches: 4, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
16 8 0.08
17 30 0.32
18 24 0.25
19 33 0.35
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:101042560 original size:34 final size:35
Alignment explanation
Indices: 101042473--101042577 Score: 185
Period size: 34 Copynumber: 3.0 Consensus size: 35
101042463 CAATGATATG
*
101042473 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
101042509 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
101042544 CAATCTT-GATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
101042578 TATAATCTTA
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
34 27 0.40
35 26 0.38
36 15 0.22
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.37
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:101048636 original size:41 final size:42
Alignment explanation
Indices: 101048583--101048888 Score: 156
Period size: 41 Copynumber: 7.3 Consensus size: 42
101048573 GATCTTATCT
* *
101048583 CCCTAAGTAGTAGTGGAGCAGATCGAAGACT-CGCCTTAATC
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCGCCTTAATC
* * * *
101048624 CCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATCGAAGA-TTGC-G-CCTTAATC
* *
101048666 TCCCTAAGCAGTAGTGGAGCAGATCAAAGACT-CGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCGCCTTAATC
** * * * * *
101048708 CCCTAAGCAGTAG-GGTAATAGGT-TAA-ATTTGTAG-ATATTATC
1 CCCTAAGCAGTAGTGG-AGCAGATCGAAGA-TTG-CGCCT-TAATC
*
101048750 TCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGCGCATTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCGCCTTAATC
* * * * *
101048792 CCCTAAGCAGTA-TGGTAACAGGT-TAAAATTGCAGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATCGAAGATTGC-G-CCTTAATC
* * *
101048834 TCCCTAAGTAGTAGTGGAGCAGATCGAAGA-TACGCCTTAACC
1 -CCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCGCCTTAATC
*
101048876 CCCTAAGTAGTAG
1 CCCTAAGCAGTAG
101048889 GGTAACAGGC
Statistics
Matches: 198, Mismatches: 39, Indels: 56
0.68 0.13 0.19
Matches are distributed among these distances:
39 2 0.01
40 16 0.08
41 75 0.38
42 25 0.13
43 63 0.32
44 15 0.08
45 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (42 bp):
CCCTAAGCAGTAGTGGAGCAGATCGAAGATTGCGCCTTAATC
Found at i:101048671 original size:84 final size:85
Alignment explanation
Indices: 101048530--101049064 Score: 715
Period size: 84 Copynumber: 6.3 Consensus size: 85
101048520 CAAAATTCAG
* * *
101048530 CGCCTTAATCCCCTAAGCAGTAGGGTAATAGGTTAAATTTGCAGATCTTATCTCCCTAAGTAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAAATTGCAGATCTTATCTCCCTAAGCAGTA
101048595 GTGGAGCAGATCGAAGACT-
66 GTGGAGCAGATCGAAGACTA
*
101048614 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAAATTGCAGATCTTATCTCCCTAAGCAGTA
*
101048679 GTGGAGCAGATCAAAGACT-
66 GTGGAGCAGATCGAAGACTA
* * * *
101048698 CGCCTTAATCCCCTAAGCAGTAGGGTAATAGGTTAAATTTGTAGATATTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAAATTGCAGATCTTATCTCCCTAAGCAGTA
*
101048763 GTGGAGCAGATCGAAGA-TG
66 GTGGAGCAGATCGAAGACTA
* * *
101048782 CGCATTAATCCCCTAAGCAGTATGGTAACAGGTTAAAATTGCAGATCTTATCTCCCTAAGTAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAAATTGCAGATCTTATCTCCCTAAGCAGTA
101048847 GTGGAGCAGATCGAAGA-TA
66 GTGGAGCAGATCGAAGACTA
* * * *
101048866 CGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAAATTGCAGATCTTATCTCCCTAAGCAGTA
** **
101048931 GCAGAGCAGAAAGAAGACGATA
66 GTGGAGCAGATCGAAGAC--TA
* * * * *
101048953 CGCCTTAA-CCTTCTAAGCAGTAGGGTAACAGGCTAAAATTACAAATCCTATCTCCCTAAGCAGT
1 CGCCTTAATCC-CCTAAGCAGTAGGGTAACAGGTTAAAATTGCAGATCTTATCTCCCTAAGCAGT
* ** *
101049017 AGTGAAGTGGATTGAAGACT-
65 AGTGGAGCAGATCGAAGACTA
101049037 CGCCTTAA-CTCCCTAAGCAGTAGGGTAA
1 CGCCTTAATC-CCCTAAGCAGTAGGGTAA
101049065 TAGGCTAAGA
Statistics
Matches: 407, Mismatches: 38, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
83 1 0.00
84 331 0.81
85 2 0.00
86 2 0.00
87 71 0.17
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (85 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAAATTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACTA
Found at i:101049246 original size:92 final size:91
Alignment explanation
Indices: 101049071--101049257 Score: 252
Period size: 92 Copynumber: 2.0 Consensus size: 91
101049061 GTAATAGGCT
* *
101049071 AAGATATAGCAGATCTAACCTTCAGATGTTTACATCGAAGCAGATCCAAGATGACAGATTTGGCA
1 AAGACATAGCAAATCTAACCTTCAGATGTTTACATCGAAGCAGATCCAAGATGACAGATTTGGCA
*
101049136 TCTCTGTATTAGACGGGAAGCAGATCG
66 TCTCTGTATTAGACGGGAA-CAAATCG
* * * * *
101049163 AAGACATAGCAAATCTGATCTTCATG-TGTTTACATCGAAGCGGGTCCAAGATGACAGATTTGGT
1 AAGACATAGCAAATCTAACCTTCA-GATGTTTACATCGAAGCAGATCCAAGATGACAGATTTGGC
*
101049227 ATCTCTGTATT-GTCAGGGAACAAATCG
65 ATCTCTGTATTAGAC-GGGAACAAATCG
101049254 AAGA
1 AAGA
101049258 AGCAAATTTA
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
91 12 0.14
92 71 0.85
93 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (91 bp):
AAGACATAGCAAATCTAACCTTCAGATGTTTACATCGAAGCAGATCCAAGATGACAGATTTGGCA
TCTCTGTATTAGACGGGAACAAATCG
Found at i:101049565 original size:17 final size:19
Alignment explanation
Indices: 101049543--101049600 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 19
101049533 ATGGAAATAT
101049543 AATCTT-CA-AGGATATGC
1 AATCTTACATAGGATATGC
*
101049560 AATCTTAGATAGGATATGC
1 AATCTTACATAGGATATGC
* *
101049579 AATCTTAAATATGATATGC
1 AATCTTACATAGGATATGC
101049598 AAT
1 AAT
101049601 ATTAATCTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
17 6 0.17
18 1 0.03
19 29 0.81
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.33
Consensus pattern (19 bp):
AATCTTACATAGGATATGC
Found at i:101049628 original size:19 final size:19
Alignment explanation
Indices: 101049553--101049631 Score: 86
Period size: 19 Copynumber: 3.8 Consensus size: 19
101049543 AATCTTCAAG
*
101049553 GATATGCAATCTTAGATAG
1 GATATGCAATCTTAGATAT
*
101049572 GATATGCAATCTTAAATAT
1 GATATGCAATCTTAGATAT
101049591 GATATGCAATATTAATCTTAGATAT
1 GATATGC------AATCTTAGATAT
101049616 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
101049632 AGATATGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
19 33 0.65
25 18 0.35
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:101052027 original size:13 final size:14
Alignment explanation
Indices: 101051998--101052028 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
101051988 AATTCACGCC
*
101051998 TTTTTATTTCAATT
1 TTTTTAGTTCAATT
101052012 TTTTTAGTTCAATT
1 TTTTTAGTTCAATT
101052026 TTT
1 TTT
101052029 GAAGTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.71
Consensus pattern (14 bp):
TTTTTAGTTCAATT
Found at i:101055482 original size:22 final size:22
Alignment explanation
Indices: 101055456--101055508 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 22
101055446 CTCGAAAGAT
*
101055456 CTTACTGTTT-TGCTTAATAGA
1 CTTACTGTTTCTGCTCAATAGA
*
101055477 GCTTACCGTTTTCTGCTCAATAGA
1 -CTTACTG-TTTCTGCTCAATAGA
101055501 CTTACTGT
1 CTTACTGT
101055509 GTATCAGCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 7 0.27
23 9 0.35
24 10 0.38
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (22 bp):
CTTACTGTTTCTGCTCAATAGA
Found at i:101058382 original size:6 final size:6
Alignment explanation
Indices: 101058366--101058418 Score: 83
Period size: 6 Copynumber: 9.2 Consensus size: 6
101058356 GCAACATATG
*
101058366 TATTC- TATTCA TATTCA TATTCA TATTCA TATTCA TATTC- TATACA
1 TATTCA TATTCA TATTCA TATTCA TATTCA TATTCA TATTCA TATTCA
101058412 TATTCA T
1 TATTCA T
101058419 CATCAATATT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
5 9 0.20
6 35 0.80
ACGTcount: A:0.32, C:0.17, G:0.00, T:0.51
Consensus pattern (6 bp):
TATTCA
Found at i:101058768 original size:19 final size:19
Alignment explanation
Indices: 101058746--101058790 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
101058736 AAAAAATATT
101058746 TAAAAATTCATATTTTTGA
1 TAAAAATTCATATTTTTGA
* *
101058765 TAAAAATACATATTTTTTA
1 TAAAAATTCATATTTTTGA
101058784 -AAAAATT
1 TAAAAATT
101058791 ATTAAACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (19 bp):
TAAAAATTCATATTTTTGA
Found at i:101061981 original size:18 final size:20
Alignment explanation
Indices: 101061954--101061992 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
101061944 CCTTTTTGTT
101061954 TTTTTATATTCGA-TTTCTA
1 TTTTTATATTCGATTTTCTA
101061973 TTTTT-TATTCGATTTTCTA
1 TTTTTATATTCGATTTTCTA
101061992 T
1 T
101061993 GAAAAAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.18, C:0.10, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTTTATATTCGATTTTCTA
Found at i:101070755 original size:167 final size:167
Alignment explanation
Indices: 101070479--101070815 Score: 665
Period size: 167 Copynumber: 2.0 Consensus size: 167
101070469 CTCAAGACTC
*
101070479 TTCCGGAAAACAACATGCTTTCTTCGCTTTTGAAGCTAAATATCGTGGGGTGTCCAATGATGGAA
1 TTCCGGAAAACAACATGCTTTCTTCGCTTTTGAAGCTAAATATCGTGGGCTGTCCAATGATGGAA
101070544 GAAAGGTGCAAAAGGGATAAAGGACCTGATTGGTCCAAAATTAGCCACATACCTTATGTTGCTAT
66 GAAAGGTGCAAAAGGGATAAAGGACCTGATTGGTCCAAAATTAGCCACATACCTTATGTTGCTAT
101070609 TGGGGGATTAATAGTCTGTTGATGGTTCAGACACAAG
131 TGGGGGATTAATAGTCTGTTGATGGTTCAGACACAAG
101070646 TTCCGGAAAACAACATGCTTTCTTCGCTTTTGAAGCTAAATATCGTGGGCTGTCCAATGATGGAA
1 TTCCGGAAAACAACATGCTTTCTTCGCTTTTGAAGCTAAATATCGTGGGCTGTCCAATGATGGAA
101070711 GAAAGGTGCAAAAGGGATAAAGGACCTGATTGGTCCAAAATTAGCCACATACCTTATGTTGCTAT
66 GAAAGGTGCAAAAGGGATAAAGGACCTGATTGGTCCAAAATTAGCCACATACCTTATGTTGCTAT
101070776 TGGGGGATTAATAGTCTGTTGATGGTTCAGACACAAG
131 TGGGGGATTAATAGTCTGTTGATGGTTCAGACACAAG
101070813 TTC
1 TTC
101070816 TTTGGAGACA
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
167 169 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (167 bp):
TTCCGGAAAACAACATGCTTTCTTCGCTTTTGAAGCTAAATATCGTGGGCTGTCCAATGATGGAA
GAAAGGTGCAAAAGGGATAAAGGACCTGATTGGTCCAAAATTAGCCACATACCTTATGTTGCTAT
TGGGGGATTAATAGTCTGTTGATGGTTCAGACACAAG
Found at i:101074091 original size:31 final size:30
Alignment explanation
Indices: 101074036--101074094 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
101074026 TTTCCTTCTT
* * *
101074036 TCGCAAACCCAATTTCGTAAGGAGAAATAC
1 TCGCAAACCCAACTCCATAAGGAGAAATAC
101074066 TCGCAAACCCAAACTCCATAAGGAGAAAT
1 TCGCAAACCC-AACTCCATAAGGAGAAAT
101074095 GCTGCAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.42, C:0.25, G:0.15, T:0.17
Consensus pattern (30 bp):
TCGCAAACCCAACTCCATAAGGAGAAATAC
Found at i:101081568 original size:93 final size:93
Alignment explanation
Indices: 101081401--101081868 Score: 652
Period size: 93 Copynumber: 5.0 Consensus size: 93
101081391 TGATTGTCCA
* * * * * * ** *
101081401 CCAAAATTCTCTACATATCTTGAGATGGAAATCATAGGCAAGGCATTTACTGCACAAGAACTATC
1 CCAACATTCTCCACATCTCTTGGGATGGAAATTATAGGCAAAGCATTTACCCCACAAGCACTATC
* * *
101081466 TTTAGTTTGTATCAAGGTAGTCTTTTCT
66 TTCATTTTGTATCAAGGCAGTCTTTTCT
* * * *
101081494 CCAACATTCTCCACATCTCTCGGGTTGGAAGTTATAGGCAAAGCATTTACCCCACAAGCACTCTC
1 CCAACATTCTCCACATCTCTTGGGATGGAAATTATAGGCAAAGCATTTACCCCACAAGCACTATC
*
101081559 TTCATTTTGTATCAGGGCAGTCTTTTCT
66 TTCATTTTGTATCAAGGCAGTCTTTTCT
* *
101081587 CCAACATTCTCCACATCTCTTTGGG-TGGAAATTATAGGCAAAGCATTGACCCCACAAGCGCTAT
1 CCAACATTCTCCACATCTC-TTGGGATGGAAATTATAGGCAAAGCATTTACCCCACAAGCACTAT
*
101081651 CTTCATTTTGTATCAGGGCAGTCTTTTCT
65 CTTCATTTTGTATCAAGGCAGTCTTTTCT
101081680 CCAACATTCTCCACATCTCTTGGGATGGAAATTATAGGCAAAGCATTTACCCCACAAGCACTATC
1 CCAACATTCTCCACATCTCTTGGGATGGAAATTATAGGCAAAGCATTTACCCCACAAGCACTATC
101081745 TTCATTTTGTATC-AGCGCAGTCTTTTCT
66 TTCATTTTGTATCAAG-GCAGTCTTTTCT
* * *
101081773 CCAACATTCTCCACATCTCTTGGGATGGAAATCATAGGCAAAGCATTTACCCCACAAGCACCATG
1 CCAACATTCTCCACATCTCTTGGGATGGAAATTATAGGCAAAGCATTTACCCCACAAGCACTATC
* * * * *
101081838 TTCACTTTGTACCGAGTCATTCTTTTCT
66 TTCATTTTGTATCAAGGCAGTCTTTTCT
101081866 CCA
1 CCA
101081869 GCTGGTATTT
Statistics
Matches: 339, Mismatches: 32, Indels: 8
0.89 0.08 0.02
Matches are distributed among these distances:
92 6 0.02
93 327 0.96
94 6 0.02
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (93 bp):
CCAACATTCTCCACATCTCTTGGGATGGAAATTATAGGCAAAGCATTTACCCCACAAGCACTATC
TTCATTTTGTATCAAGGCAGTCTTTTCT
Found at i:101086398 original size:18 final size:20
Alignment explanation
Indices: 101086360--101086398 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
101086350 TTTTTATTTT
101086360 ATTTAAAATGTAAGTTATCA
1 ATTTAAAATGTAAGTTATCA
*
101086380 ATTTACAATG-AAG-TATCA
1 ATTTAAAATGTAAGTTATCA
101086398 A
1 A
101086399 CATTTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 3 0.17
20 9 0.50
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (20 bp):
ATTTAAAATGTAAGTTATCA
Found at i:101088078 original size:11 final size:11
Alignment explanation
Indices: 101088051--101088103 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
101088041 TGACCTTTCC
101088051 AAGGTAT-GGA
1 AAGGTATGGGA
*
101088061 TAGGTATGGGA
1 AAGGTATGGGA
*
101088072 AAGGTATGGGC
1 AAGGTATGGGA
*
101088083 AAGGTATGGGC
1 AAGGTATGGGA
*
101088094 AAGGAATGGG
1 AAGGTATGGG
101088104 TATATTCTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
10 6 0.16
11 32 0.84
ACGTcount: A:0.32, C:0.04, G:0.45, T:0.19
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:101092191 original size:36 final size:36
Alignment explanation
Indices: 101092144--101092218 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
101092134 CCTAACTACT
101092144 GTATACATGAATAGTACTATATACGTAAATAGTACC
1 GTATACATGAATAGTACTATATACGTAAATAGTACC
* * *
101092180 GTATACATGAATAGTGCTATATACGTGAATAGTGCC
1 GTATACATGAATAGTACTATATACGTAAATAGTACC
101092216 GTA
1 GTA
101092219 AATGGTCGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (36 bp):
GTATACATGAATAGTACTATATACGTAAATAGTACC
Found at i:101092214 original size:18 final size:18
Alignment explanation
Indices: 101092140--101092212 Score: 83
Period size: 18 Copynumber: 4.1 Consensus size: 18
101092130 CAATCCTAAC
*
101092140 TACTGTATACATGAATAG
1 TACTATATACATGAATAG
* *
101092158 TACTATATACGTAAATAG
1 TACTATATACATGAATAG
**
101092176 TACCGTATACATGAATAG
1 TACTATATACATGAATAG
* *
101092194 TGCTATATACGTGAATAG
1 TACTATATACATGAATAG
101092212 T
1 T
101092213 GCCGTAAATG
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.33
Consensus pattern (18 bp):
TACTATATACATGAATAG
Found at i:101092780 original size:11 final size:11
Alignment explanation
Indices: 101092753--101092799 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
101092743 TGACCTTTCC
101092753 AAGGTATGGG-
1 AAGGTATGGGA
*
101092763 TAGGTATGGGA
1 AAGGTATGGGA
101092774 AAGGTATGGGCA
1 AAGGTATGGG-A
*
101092786 AA-GTATGGGC
1 AAGGTATGGGA
101092796 AAGG
1 AAGG
101092800 AATAGGTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 11 0.35
11 17 0.55
12 3 0.10
ACGTcount: A:0.32, C:0.04, G:0.45, T:0.19
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:101093079 original size:17 final size:17
Alignment explanation
Indices: 101093057--101093092 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
101093047 GGCTAAACTA
101093057 TACTTAAACTTCTAAAC
1 TACTTAAACTTCTAAAC
101093074 TACTTAAACTTCTAAAC
1 TACTTAAACTTCTAAAC
101093091 TA
1 TA
101093093 AAAGACTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.22, G:0.00, T:0.36
Consensus pattern (17 bp):
TACTTAAACTTCTAAAC
Found at i:101099636 original size:16 final size:19
Alignment explanation
Indices: 101099589--101099636 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
101099579 CCAAACCACC
101099589 AAAGCAGAGAATAACACTA
1 AAAGCAGAGAATAACACTA
*
101099608 AAA-CAGAGGATAAC-C-A
1 AAAGCAGAGAATAACACTA
101099624 AAAGCA-AGAATAA
1 AAAGCAGAGAATAA
101099637 AAACAAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 10 0.38
19 3 0.12
ACGTcount: A:0.60, C:0.15, G:0.17, T:0.08
Consensus pattern (19 bp):
AAAGCAGAGAATAACACTA
Found at i:101099724 original size:24 final size:24
Alignment explanation
Indices: 101099670--101099723 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
101099660 GTTTGCATCC
* *
101099670 TTTTCTTCTTTTTTTCTTCTTTCG
1 TTTTTTTCTTTCTTTCTTCTTTCG
**
101099694 AATTTTTCTTTCTTTCTT-TTTCG
1 TTTTTTTCTTTCTTTCTTCTTTCG
101099717 TTTTTTT
1 TTTTTTT
101099724 TTTTGTTTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.76
Consensus pattern (24 bp):
TTTTTTTCTTTCTTTCTTCTTTCG
Found at i:101099828 original size:13 final size:13
Alignment explanation
Indices: 101099798--101099822 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101099788 TTTGTACTTT
101099798 CGGTGGCCGGCGA
1 CGGTGGCCGGCGA
101099811 CGGTGGCCGGCG
1 CGGTGGCCGGCG
101099823 GTGGTGACTG
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:0.04, C:0.32, G:0.56, T:0.08
Consensus pattern (13 bp):
CGGTGGCCGGCGA
Found at i:101100467 original size:16 final size:16
Alignment explanation
Indices: 101100446--101100479 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
101100436 ACTTATATAC
101100446 ATATATATTATATAGT
1 ATATATATTATATAGT
101100462 ATATATATTATATAGT
1 ATATATATTATATAGT
101100478 AT
1 AT
101100480 TATTAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
ATATATATTATATAGT
Found at i:101100635 original size:17 final size:17
Alignment explanation
Indices: 101100610--101100644 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
101100600 ATGTTATTTT
101100610 TTTAAATATTATATATA
1 TTTAAATATTATATATA
* *
101100627 TTTATATATTATGTATA
1 TTTAAATATTATATATA
101100644 T
1 T
101100645 ATTTTTAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTAAATATTATATATA
Found at i:101100661 original size:22 final size:21
Alignment explanation
Indices: 101100575--101100671 Score: 81
Period size: 21 Copynumber: 4.5 Consensus size: 21
101100565 ATATTACGCA
101100575 TATATATATTAATATTATATTATG
1 TATATATATT--TA-TATATTATG
* * * *
101100599 TATGT-TATTTTTTTAAATAT-
1 TATATATATTTATAT-ATTATG
101100619 TATATATATTTATATATTATG
1 TATATATATTTATATATTATG
* *
101100640 TATATATTTTTAATCTATTATG
1 TATATATATTT-ATATATTATG
101100662 TATATATATT
1 TATATATATT
101100672 ATGTACATAC
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
20 10 0.17
21 22 0.38
22 18 0.31
23 4 0.07
24 4 0.07
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (21 bp):
TATATATATTTATATATTATG
Found at i:101100666 original size:41 final size:40
Alignment explanation
Indices: 101100577--101100673 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 40
101100567 ATTACGCATA
*
101100577 TATATATTAATATTATATTATGTATGTTATTTTTTTAAATAT
1 TATATA-T-ATATTATATTATGTATGTTATATTTTTAAATAT
*
101100619 TATATATAT-TTATA-TAT-TATGTATATATTTTTAATCTAT
1 TATATATATATTATATTATGTATGT-TATATTTTTAA-ATAT
101100658 TATGTATATATATTAT
1 TA--TATATATATTAT
101100674 GTACATACTT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
37 5 0.10
38 13 0.27
39 10 0.21
40 2 0.04
41 8 0.17
42 10 0.21
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (40 bp):
TATATATATATTATATTATGTATGTTATATTTTTAAATAT
Found at i:101100675 original size:35 final size:36
Alignment explanation
Indices: 101100629--101100700 Score: 110
Period size: 35 Copynumber: 2.0 Consensus size: 36
101100619 TATATATATT
* *
101100629 TATATATTATGTATATATTTTTAAT-CTATTATGTA
1 TATATATTATGTACATACTTTTAATACTATTATGTA
*
101100664 TATATATTATGTACATACTTTTAATATTATTATGTA
1 TATATATTATGTACATACTTTTAATACTATTATGTA
101100700 T
1 T
101100701 TTATTTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 23 0.70
36 10 0.30
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (36 bp):
TATATATTATGTACATACTTTTAATACTATTATGTA
Found at i:101100697 original size:23 final size:23
Alignment explanation
Indices: 101100663--101100743 Score: 92
Period size: 23 Copynumber: 3.4 Consensus size: 23
101100653 TCTATTATGT
* *
101100663 ATATATATTATGTACATACTTTTA
1 ATAT-TATTATGTATATATTTTTA
*
101100687 ATATTATTATGTATTTATTTTTA
1 ATATTATTATGTATATATTTTTA
101100710 ATA-TATATATGTATATATTTATGTA
1 ATATTAT-TATGTATATATTT-T-TA
101100735 ATATTATTA
1 ATATTATTA
101100744 ATAATTGTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
22 3 0.06
23 31 0.63
24 5 0.10
25 7 0.14
26 3 0.06
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (23 bp):
ATATTATTATGTATATATTTTTA
Found at i:101100710 original size:58 final size:57
Alignment explanation
Indices: 101100620--101100746 Score: 170
Period size: 58 Copynumber: 2.2 Consensus size: 57
101100610 TTTAAATATT
* *
101100620 ATATATATTTATA-TATTATGTATATATTTTTAATCTAT-TATGTATATATATTATGTA
1 ATAT-TATTAATATTATTATGTATATATTTTTAATATATATATGTATATAT-TTATGTA
*
101100677 CATACTT-TTAATATTATTATGTATTTATTTTTAATATATATATGTATATATTTATGTA
1 -ATA-TTATTAATATTATTATGTATATATTTTTAATATATATATGTATATATTTATGTA
101100735 ATATTATTAATA
1 ATATTATTAATA
101100747 ATTGTTTTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
56 2 0.03
57 14 0.23
58 34 0.55
59 12 0.19
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (57 bp):
ATATTATTAATATTATTATGTATATATTTTTAATATATATATGTATATATTTATGTA
Found at i:101100756 original size:48 final size:47
Alignment explanation
Indices: 101100663--101100767 Score: 110
Period size: 48 Copynumber: 2.2 Consensus size: 47
101100653 TCTATTATGT
*
101100663 ATATATATTATGTACATACTTTTAATATTATTATGTATTTATTTTTA
1 ATATATATTATGTACATACTTTTAATATTATTATGAATTTATTTTTA
* *
101100710 ATATATA-TATGTATATATTTATGTAATATTATTAAT-AATTGT-TTTTTA
1 ATATATATTATGTACATACTT-T-TAATATTATT-ATGAATT-TATTTTTA
*
101100758 ACAT-TATTAT
1 ATATATATTAT
101100768 CATTTCTAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
46 11 0.22
47 10 0.20
48 25 0.51
49 3 0.06
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (47 bp):
ATATATATTATGTACATACTTTTAATATTATTATGAATTTATTTTTA
Found at i:101100817 original size:23 final size:23
Alignment explanation
Indices: 101100777--101101142 Score: 68
Period size: 24 Copynumber: 16.0 Consensus size: 23
101100767 TCATTTCTAA
* *
101100777 TATATATGTGTATCGTATATGTTTT
1 TATATATAT-TAT-GTATATATTTT
*
101100802 TATATATATTATGTATATATCTT
1 TATATATATTATGTATATATTTT
*
101100825 TAGTAT-TATTA-GT-TTTATGTTT
1 TA-TATATATTATGTATATAT-TTT
*
101100847 TTTATACTATTTCATG--TATATTTT
1 TATATA-TA-TT-ATGTATATATTTT
* *
101100871 TATAATATCCTTAT-TAT-TATTAT
1 TAT-ATAT-ATTATGTATATATTTT
* *
101100894 TAT-TAATATTA-GTATGT-GTTT
1 TATAT-ATATTATGTATATATTTT
*
101100915 TAT-TATA-T-T-TATATATCTT
1 TATATATATTATGTATATATTTT
**
101100934 TA-ATATATGTATGTATATATTCA
1 TATATATAT-TATGTATATATTTT
*
101100957 TGTA-ATATTAT-TA-ATAGTTGTT
1 TATATATATTATGTATATA-TT-TT
* * *
101100979 TTTTTAACATTAT-TAT-TATTTCT
1 TATAT-ATATTATGTATATATTT-T
* *
101101002 AATATGTATATACTATGTAAATATTTT
1 --TA--TATATATTATGTATATATTTT
* *
101101029 AATACTATATTATGTATACATTTTT
1 TATA-TATATTATGTATATA-TTTT
* *
101101054 TGTATATATTACGTATATCTATCTTT
1 TATATATATTATGTATA--TAT-TTT
*
101101080 T-TA-ATA-T-TGTAT-T-TTTA
1 TATATATATTATGTATATATTTT
101101097 TATATAT-T-ATGTATATATCTTT
1 TATATATATTATGTATATAT-TTT
* * *
101101119 AATACTATAATATTTATATATTTT
1 TATA-TATATTATGTATATATTTT
101101143 CTATTTTTCA
Statistics
Matches: 248, Mismatches: 44, Indels: 99
0.63 0.11 0.25
Matches are distributed among these distances:
17 3 0.01
18 7 0.03
19 17 0.07
20 7 0.03
21 26 0.10
22 24 0.10
23 49 0.20
24 58 0.23
25 36 0.15
26 11 0.04
27 5 0.02
28 5 0.02
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.57
Consensus pattern (23 bp):
TATATATATTATGTATATATTTT
Found at i:101101054 original size:26 final size:28
Alignment explanation
Indices: 101101025--101101086 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 28
101101015 TATGTAAATA
*
101101025 TTTTAATACTATATTATGTATA-C-AT-T
1 TTTTAATA-TATATTACGTATATCTATCT
*
101101051 TTTT-GTATATATTACGTATATCTATCT
1 TTTTAATATATATTACGTATATCTATCT
101101078 TTTTAATAT
1 TTTTAATAT
101101087 TGTATTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 12 0.41
25 3 0.10
26 6 0.21
27 5 0.17
28 3 0.10
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.56
Consensus pattern (28 bp):
TTTTAATATATATTACGTATATCTATCT
Found at i:101101437 original size:18 final size:18
Alignment explanation
Indices: 101101414--101101472 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
101101404 ATATATATAC
*
101101414 TTTTTATATATAGTATTA
1 TTTTTATATATATTATTA
101101432 TTTTTATATATCATTA-TA
1 TTTTTATATAT-ATTATTA
101101450 TTTATTAT-TATACTTATTA
1 TTT-TTATATATA-TTATTA
101101469 TTTT
1 TTTT
101101473 CACTATTGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 1 0.03
18 23 0.64
19 12 0.33
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTTATATATATTATTA
Found at i:101103892 original size:19 final size:20
Alignment explanation
Indices: 101103865--101103904 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
101103855 AGTGACTTAA
101103865 ATAAAAATTT-TAATTATTT
1 ATAAAAATTTATAATTATTT
* *
101103884 ATAATAATTTATACTTATTT
1 ATAAAAATTTATAATTATTT
101103904 A
1 A
101103905 CGAATCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
ATAAAAATTTATAATTATTT
Found at i:101104566 original size:21 final size:20
Alignment explanation
Indices: 101104540--101104591 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
101104530 AACGGTGGCG
101104540 GTGAGATTAATTACTGTAACA
1 GTGAGATTAA-TACTGTAACA
* * *
101104561 GTGAGATTAGATATTGTAGCG
1 GTGAGATTA-ATACTGTAACA
101104582 GTGAGATTAA
1 GTGAGATTAA
101104592 AAACAATGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.33
Consensus pattern (20 bp):
GTGAGATTAATACTGTAACA
Found at i:101106179 original size:33 final size:35
Alignment explanation
Indices: 101106116--101106182 Score: 86
Period size: 34 Copynumber: 1.9 Consensus size: 35
101106106 TAATTTTTAA
*
101106116 ATAATATATAAATTTAAAACTATAAAAAAATAAATT
1 ATAATATATAAATTTAAAAC-AAAAAAAAATAAATT
101106152 ATAATAT-T-AATTTAAAA-AAAAAGAAAATAAA
1 ATAATATATAAATTTAAAACAAAAA-AAAATAAA
101106183 GCAACATGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 4 0.14
33 8 0.28
34 9 0.31
35 1 0.03
36 7 0.24
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (35 bp):
ATAATATATAAATTTAAAACAAAAAAAAATAAATT
Found at i:101111721 original size:37 final size:38
Alignment explanation
Indices: 101111671--101111761 Score: 139
Period size: 37 Copynumber: 2.4 Consensus size: 38
101111661 CAACATTGTG
*
101111671 AATAGCCCTACCAACAATGATACACACACCCCT-AAAA
1 AATAGCCCTACCAACAATGATACACACACCACTAAAAA
* * *
101111708 AATAGCCCCACCAAAAATGATACATACACCACTAAAAA
1 AATAGCCCTACCAACAATGATACACACACCACTAAAAA
101111746 AATAGCCCTACCAACA
1 AATAGCCCTACCAACA
101111762 TGCATATTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
37 29 0.62
38 18 0.38
ACGTcount: A:0.48, C:0.33, G:0.05, T:0.13
Consensus pattern (38 bp):
AATAGCCCTACCAACAATGATACACACACCACTAAAAA
Found at i:101111853 original size:39 final size:40
Alignment explanation
Indices: 101111777--101111881 Score: 167
Period size: 39 Copynumber: 2.6 Consensus size: 40
101111767 ATTATAAAAA
* *
101111777 AATACTCACTGTATGCATATTAAAAAATAAGCAACACACC
1 AATAATCACTGCATGCATATTAAAAAATAAGCAACACACC
*
101111817 AATAATCACTGCATGCATATTAAAAAAT-ATCAACACACC
1 AATAATCACTGCATGCATATTAAAAAATAAGCAACACACC
*
101111856 AACAATCACTGCATGCATATTAAAAA
1 AATAATCACTGCATGCATATTAAAAA
101111882 GAATTCACTA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.57
40 26 0.43
ACGTcount: A:0.49, C:0.22, G:0.07, T:0.23
Consensus pattern (40 bp):
AATAATCACTGCATGCATATTAAAAAATAAGCAACACACC
Found at i:101114076 original size:63 final size:64
Alignment explanation
Indices: 101113877--101114079 Score: 345
Period size: 64 Copynumber: 3.2 Consensus size: 64
101113867 TAGGAGCTTG
*
101113877 GATACAAACAATGGCAGATATACACAATAAACATCAGTATGATAATGGCATTCATACAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
* *
101113941 GATACAAATAATGGTAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
* * *
101114005 GATACAAACAATGGCAGATATACAAAATAAACATC-GTTTGATAATGGCATTCGTACAATGGAA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
101114068 GATACAAACAAT
1 GATACAAACAAT
101114080 ATATATCATC
Statistics
Matches: 131, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
63 38 0.29
64 93 0.71
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.24
Consensus pattern (64 bp):
GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
Found at i:101114182 original size:6 final size:6
Alignment explanation
Indices: 101114171--101114223 Score: 67
Period size: 6 Copynumber: 9.2 Consensus size: 6
101114161 TAAAAAATAC
*
101114171 AATCAA AATCAA AAT--- AATCCTA AATCAA AATCAA AATCAA AATCAA
1 AATCAA AATCAA AATCAA AAT-CAA AATCAA AATCAA AATCAA AATCAA
101114217 AATCAA A
1 AATCAA A
101114224 TTCTAAATCG
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
3 3 0.07
6 36 0.86
7 3 0.07
ACGTcount: A:0.64, C:0.17, G:0.00, T:0.19
Consensus pattern (6 bp):
AATCAA
Found at i:101114231 original size:18 final size:18
Alignment explanation
Indices: 101114176--101114275 Score: 82
Period size: 18 Copynumber: 5.7 Consensus size: 18
101114166 AATACAATCA
*
101114176 AAATCAAAAT--AATCCT
1 AAATCAAAATCAAATTCT
* *
101114192 AAATCAAAATCAAAATCA
1 AAATCAAAATCAAATTCT
101114210 AAATCAAAATCAAATTCT
1 AAATCAAAATCAAATTCT
* * *
101114228 AAATCGAGATCGAATT-T
1 AAATCAAAATCAAATTCT
**
101114245 GAAATTGAAATCTAAA-TCT
1 -AAATCAAAATC-AAATTCT
101114264 AAATCAAAATCA
1 AAATCAAAATCA
101114276 GTAAGTGTTT
Statistics
Matches: 66, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
16 10 0.15
17 2 0.03
18 51 0.77
19 3 0.05
ACGTcount: A:0.55, C:0.15, G:0.05, T:0.25
Consensus pattern (18 bp):
AAATCAAAATCAAATTCT
Found at i:101118842 original size:3 final size:3
Alignment explanation
Indices: 101118834--101119183 Score: 93
Period size: 3 Copynumber: 115.0 Consensus size: 3
101118824 CCCTATATAT
* * *
101118834 TTA TTA TTA TTA TTA TTA TTA TTA -TA TT- TTT TTA -TA CTG TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
101118878 TGTT TTA TTT TTAA CT- TTA -TA TT- TATA TTA TATA TTA -TA TGA TTA
1 T-TA TTA TTA TT-A TTA TTA TTA TTA T-TA TTA T-TA TTA TTA TTA TTA
*
101118923 TT- TTA TTA TATA TTA TT- TATA TTA TTA TTA TTTA TTA TATA TTA TTT
1 TTA TTA TTA T-TA TTA TTA T-TA TTA TTA TTA -TTA TTA T-TA TTA TTA
** *
101118970 TTCA CAAA TTA TTA TTA TT- TTA -CA TTA TTA TTTA TATA TTA TTA TTA
1 TT-A -TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA
* *
101119017 -TA TTT TTA CTT- GTA TTA -TA TGT- TTA TTAA TTA TT- TATA TATA
1 TTA TTA TTA -TTA TTA TTA TTA T-TA TTA TT-A TTA TTA T-TA T-TA
*
101119059 TTA TATA TTA TT- TT- TTA CATA TATA CTT- TTA -TA TTA TATA TTA
1 TTA T-TA TTA TTA TTA TTA -TTA T-TA -TTA TTA TTA TTA T-TA TTA
*
101119102 TATA TTA -TA TATA TT- TTA TTA TATA TTA TTA TGTCA TT- TTT TTA
1 T-TA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA T-T-A TTA TTA TTA
* * *
101119146 -TA TTA TTA TACA TTT TTA TCTA TATA TTA TTA TCA TTA
1 TTA TTA TTA T-TA TTA TTA T-TA T-TA TTA TTA TTA TTA
101119184 AAGGTTTTTA
Statistics
Matches: 262, Mismatches: 33, Indels: 104
0.66 0.08 0.26
Matches are distributed among these distances:
2 42 0.16
3 153 0.58
4 64 0.24
5 3 0.01
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:101118877 original size:39 final size:38
Alignment explanation
Indices: 101118827--101119183 Score: 120
Period size: 39 Copynumber: 9.6 Consensus size: 38
101118817 AATCTAACCC
101118827 TATATATTTATTATTATTATTATTATTATTATATTTTTT
1 TATATA-TTATTATTATTATTATTATTATTATATTTTTT
* * * * *
101118866 TATACTGTTATT-TGTTTTATTTTTAACT-TTATATTTATAT
1 TATA-TATTATTAT-TATTATTATT-ATTATTATATTT-TTT
* *
101118906 TATATATTA-TATGATTATT-TTATTA-TATA--TTAT
1 TATATATTATTATTATTATTATTATTATTATATTTTTT
101118939 T-TATATTATTATTA-T-TTATTA-TA-TAT-TATTTTT
1 TATATATTATTATTATTATTATTATTATTATAT-TTTTT
* * * * *
101118972 CACAAATTATTATTATT-TTACATTATTATTTATATATTAT
1 TATATATTATTATTATTATT--ATTATTA-TTATATTTTTT
* *
101119012 TATTATATTTTTACTTGTATTA-TATGT-TTATTA-A-TTATT
1 TA-TATATTATTA--T-TATTATTAT-TATTATTATATTTTTT
* **
101119051 TATATA-TATTATATATTATT-TT-TTA-CATATATACTT
1 TATATATTATTAT-TATTATTATTATTATTATAT-TTTTT
*
101119087 T-TATATTA-TA-TATTA-TA-TATTATATATATTTTAT
1 TATATATTATTATTATTATTATTATTAT-TATATTTTTT
* * **
101119121 TATATATTATTATGTCATTTTTTTATATTATTATACATTTT
1 TATATATTATTAT-T-ATTATTAT-TATTATTATATTTTTT
* *
101119162 TATCTATATATTATTATCATTA
1 TATATAT-TATTATTATTATTA
101119184 AAGGTTTTTA
Statistics
Matches: 234, Mismatches: 41, Indels: 85
0.65 0.11 0.24
Matches are distributed among these distances:
31 7 0.03
32 13 0.06
33 20 0.09
34 20 0.09
35 27 0.12
36 15 0.06
37 10 0.04
38 14 0.06
39 37 0.16
40 22 0.09
41 25 0.11
42 17 0.07
43 2 0.01
44 5 0.02
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.62
Consensus pattern (38 bp):
TATATATTATTATTATTATTATTATTATTATATTTTTT
Found at i:101118913 original size:7 final size:7
Alignment explanation
Indices: 101118895--101119130 Score: 125
Period size: 7 Copynumber: 33.1 Consensus size: 7
101118885 TTTTTAACTT
101118895 TATATT-
1 TATATTA
101118901 TATATTA
1 TATATTA
101118908 TATATTA
1 TATATTA
101118915 TATGATTA
1 TAT-ATTA
*
101118923 TTTTATTA
1 -TATATTA
101118931 TATATTA
1 TATATTA
101118938 TTTATATTA
1 --TATATTA
101118947 T-TATTA
1 TATATTA
*
101118953 TTTATTA
1 TATATTA
101118960 TATATTA
1 TATATTA
*
101118967 T-TTTTCA
1 TATATT-A
* *
101118974 CAAATTA
1 TATATTA
*
101118981 TTATTATTT
1 -TA-TATTA
*
101118990 TACATTA
1 TATATTA
101118997 T-TATTTA
1 TATA-TTA
101119004 TATATTA
1 TATATTA
101119011 T-TATTA
1 TATATTA
*
101119017 TATTTTTA
1 TA-TATTA
*
101119025 CTTGTATTA
1 --TATATTA
*
101119034 TATGTT-
1 TATATTA
101119040 TATTAATTA
1 TA-T-ATTA
*
101119049 TTTA-TA
1 TATATTA
101119055 TATATTA
1 TATATTA
101119062 TATATTA
1 TATATTA
*
101119069 T-T-TTT
1 TATATTA
*
101119074 TACA-TA
1 TATATTA
*
101119080 TATACTTT
1 TATA-TTA
101119088 TATATTA
1 TATATTA
101119095 TATATTA
1 TATATTA
101119102 TATATTA
1 TATATTA
101119109 TATA-TA
1 TATATTA
*
101119115 TTTTATTA
1 -TATATTA
101119123 TATATTA
1 TATATTA
101119130 T
1 T
101119131 TATGTCATTT
Statistics
Matches: 175, Mismatches: 29, Indels: 51
0.69 0.11 0.20
Matches are distributed among these distances:
5 3 0.02
6 36 0.21
7 89 0.51
8 29 0.17
9 17 0.10
10 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (7 bp):
TATATTA
Found at i:101118942 original size:45 final size:44
Alignment explanation
Indices: 101118893--101119175 Score: 163
Period size: 45 Copynumber: 6.5 Consensus size: 44
101118883 TATTTTTAAC
101118893 TTTATATTTATATTATATATTATATGATTATTTTATTATATATTA
1 TTTATATTTATATTATATATTATAT-ATTATTTTATTATATATTA
* * * *
101118938 TTTATA-TTATTATTATTTATTATATATTATTTT-TCACAAATTA
1 TTTATATTTA-TATTATATATTATATATTATTTTATTATATATTA
* *
101118981 -TTATTATTTTACATTAT-TATT-TATA-TATTATTATTATATTTTTA
1 TTTA-TA-TTTATATTATATATTATATATTATT-TTATTATA-TATTA
* * *
101119025 CTTGTA-TTATATGT-T-TATTA-ATTATTTATATATATTATATATTA
1 TTTATATTTATAT-TATATATTATA-TA-TTAT-TTTATTATATATTA
* * *
101119069 -TT-T-TTTACA-TATATACTTTTATATTA-TATATTATATATTA
1 TTTATATTTATATTATATA-TTATATATTATTTTATTATATATTA
*
101119109 TATATATTT-TATTATATATTAT-TATGTCATTTT-TT-TATATTA
1 TTTATATTTATATTATATATTATATAT-T-ATTTTATTATATATTA
* *
101119151 TTATACATTTTTATCTATATATTAT
1 TT-TATATTTATAT-TATATATTAT
101119176 TATCATTAAA
Statistics
Matches: 188, Mismatches: 21, Indels: 58
0.70 0.08 0.22
Matches are distributed among these distances:
40 15 0.08
41 9 0.05
42 44 0.23
43 43 0.23
44 31 0.16
45 45 0.24
46 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (44 bp):
TTTATATTTATATTATATATTATATATTATTTTATTATATATTA
Found at i:101118997 original size:50 final size:51
Alignment explanation
Indices: 101118927--101119022 Score: 135
Period size: 50 Copynumber: 1.9 Consensus size: 51
101118917 TGATTATTTT
* *
101118927 ATTATATATTATTTATATTATTA-TTATTTATTATATATTAT-TTTTCACAA
1 ATTATATATTATTTACATTATTATTTATATATTAT-TATTATATTTTCACAA
101118977 ATTAT-TATTATTTTACATTATTATTTATATATTATTATTATATTTT
1 ATTATATATTA-TTTACATTATTATTTATATATTATTATTATATTTT
101119023 TACTTGTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
49 5 0.12
50 22 0.54
51 14 0.34
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (51 bp):
ATTATATATTATTTACATTATTATTTATATATTATTATTATATTTTCACAA
Found at i:101119177 original size:24 final size:22
Alignment explanation
Indices: 101118898--101119182 Score: 106
Period size: 21 Copynumber: 13.1 Consensus size: 22
101118888 TTAACTTTAT
*
101118898 ATTTATATTATATATTA-TATGATT
1 ATTT-TATTATATATTATTAT-A-C
*
101118922 ATTTTATTATATATTATT-TAT
1 ATTTTATTATATATTATTATAC
* *
101118943 ATTATTATTATTTATTA-TATATT
1 ATT-TTATTATATATTATTATA-C
* * * *
101118966 ATTTT-TCACAAATTATTAT-T
1 ATTTTATTATATATTATTATAC
* *
101118986 ATTTTA-CAT-TATTATT-TAT
1 ATTTTATTATATATTATTATAC
*
101119005 ATATTATTATTATATT-TT-TAC
1 ATTTTATTA-TATATTATTATAC
* *
101119026 -TTGTATTATATGTTTATTA-A-
1 ATTTTATTATAT-ATTATTATAC
* *
101119046 TTATTTA-TATATATTA-TATATT
1 AT-TTTATTATATATTATTATA-C
* * *
101119068 ATTTT-TTACATATATACTTTTAT
1 ATTTTATTATATAT-TA-TTATAC
*
101119091 ATTATATATTATATATTA-TATAT
1 ATT-T-TATTATATATTATTATAC
*
101119114 ATTTTATTATATATTATTATGTC
1 ATTTTATTATATATTATTAT-AC
101119137 ATTTT-TT-TATATTATTATAC
1 ATTTTATTATATATTATTATAC
101119157 ATTTTTATCTATATATTATTAT-C
1 A-TTTTAT-TATATATTATTATAC
101119180 ATT
1 ATT
101119183 AAAGGTTTTT
Statistics
Matches: 207, Mismatches: 23, Indels: 64
0.70 0.08 0.22
Matches are distributed among these distances:
18 1 0.00
19 17 0.08
20 23 0.11
21 61 0.29
22 39 0.19
23 36 0.17
24 20 0.10
25 3 0.01
26 7 0.03
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (22 bp):
ATTTTATTATATATTATTATAC
Found at i:101119177 original size:109 final size:104
Alignment explanation
Indices: 101118895--101119178 Score: 239
Period size: 102 Copynumber: 2.7 Consensus size: 104
101118885 TTTTTAACTT
* * *
101118895 TATATTTATATTATATATTA-TATGATTATTTTATTATATATTATT-TATATTATTATTATTTAT
1 TATATTT-TATTATATATTATTATG-TCATTTT-TT-TATATTATTATA-ATTTTTA-TATATA-
101118958 TATATATTATTTTTCACAAATTATTATTATTTTACATTATTATTTA
59 TATATATTATTTTTCACAAATTATTATTATTTTACATTATTATTTA
* *
101119004 TATATTATTATTATAT-TT-TTA---C-TTGTATTATATGT-TTATTAATTATTTATATATATTA
1 TATATT-TTATTATATATTATTATGTCATTTTTTTATAT-TATTA-TAATT-TTTATATATA-TA
* * *
101119062 TATATTATTTTTTACATATATACTT-TTATATTATATATTATATATTATA
61 TATATTATTTTTCACAAAT-TA-TTATTAT-TT-TACATTAT-TATT-TA
*
101119111 TATATTTTATTATATATTATTATGTCATTTTTTTATATTATTATACATTTTTATCTATATAT-TA
1 TATATTTTATTATATATTATTATGTCATTTTTTTATATTATTATA-ATTTTTATATATATATATA
101119175 TTAT
65 TTAT
101119179 CATTAAAGGT
Statistics
Matches: 144, Mismatches: 11, Indels: 40
0.74 0.06 0.21
Matches are distributed among these distances:
101 7 0.05
102 30 0.21
103 14 0.10
104 4 0.03
105 7 0.05
106 13 0.09
107 10 0.07
108 7 0.05
109 20 0.14
110 4 0.03
111 13 0.09
112 15 0.10
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (104 bp):
TATATTTTATTATATATTATTATGTCATTTTTTTATATTATTATAATTTTTATATATATATATAT
TATTTTTCACAAATTATTATTATTTTACATTATTATTTA
Found at i:101119206 original size:149 final size:145
Alignment explanation
Indices: 101118900--101119220 Score: 316
Period size: 149 Copynumber: 2.2 Consensus size: 145
101118890 AACTTTATAT
* *
101118900 TTATATTATATATTATATGATTATTTTATTATATATTATTTATATTATTATTATTTATTATATAT
1 TTATATTATATATTATAT-ATTATTTTATTACATATTATTTATATTATTATTATATATTATATAT
* * *
101118965 TATTTTTCACAAATTATTATTATTTTACATTATTATTTATATATTATTATTATATTTTTACTTGT
65 TATTTTTCACAAATTATTATTATTTTACATTATTATTTATACATTATTATTATATTATTACTTAT
* *
101119030 ATTATATGTTTATTAA
130 ATTAAAGGTTTATTAA
*
101119046 TTATTTATATATATTATATATTATTTT-TTACATATATACTTTTATATTATATATTATATATTAT
1 TTATAT-TATATATTATATATTATTTTATTACATAT-TA--TTTATATTAT-TATTATATATTAT
* * * ** *
101119110 ATA-TATTTTATTATATATTATTATGTCATTTT-TTTATATTA-TTATACATTTTTATCTATA-T
61 ATATTATTTT-TCACAAATTATTAT-T-ATTTTACAT-TATTATTTATACATTATTAT-TATATT
101119171 ATTA-TTATCATTAAAGGTTT-TTAA
121 ATTACTTAT-ATTAAAGGTTTATTAA
* *
101119195 CTTGTATTATATACTTAT-TTTTATTT
1 -TTATATTATATA-TTATATATTATTT
101119221 ATATGTTAAT
Statistics
Matches: 145, Mismatches: 17, Indels: 23
0.78 0.09 0.12
Matches are distributed among these distances:
145 7 0.05
146 15 0.10
147 12 0.08
148 16 0.11
149 46 0.32
150 35 0.24
151 14 0.10
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (145 bp):
TTATATTATATATTATATATTATTTTATTACATATTATTTATATTATTATTATATATTATATATT
ATTTTTCACAAATTATTATTATTTTACATTATTATTTATACATTATTATTATATTATTACTTATA
TTAAAGGTTTATTAA
Found at i:101119486 original size:17 final size:17
Alignment explanation
Indices: 101119421--101119487 Score: 50
Period size: 17 Copynumber: 3.9 Consensus size: 17
101119411 TCTAAACCAA
* *
101119421 TATATTTTATATTTTTT
1 TATATATTATATTTTAT
*
101119438 TATA-ATTATTATTCCTAT
1 TATATATTA-TATT-TTAT
*
101119456 AAATATATT-T-TTTTAT
1 -TATATATTATATTTTAT
101119472 TATATATTATATTTTA
1 TATATATTATATTTTA
101119488 AATTTATTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
15 7 0.18
16 7 0.18
17 15 0.39
18 3 0.08
19 3 0.08
20 3 0.08
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
TATATATTATATTTTAT
Found at i:101123306 original size:14 final size:13
Alignment explanation
Indices: 101123289--101123344 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
101123279 AATATAGTTC
*
101123289 AAAATATAAAAGCA
1 AAAAAATAAAAG-A
**
101123303 AAAAAATCTAAGA
1 AAAAAATAAAAGA
101123316 AAAAAATAAACAGA
1 AAAAAATAAA-AGA
*
101123330 AAAATA-AAAAGA
1 AAAAAATAAAAGA
101123342 AAA
1 AAA
101123345 CTAAAAATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
12 6 0.17
13 12 0.34
14 17 0.49
ACGTcount: A:0.77, C:0.05, G:0.07, T:0.11
Consensus pattern (13 bp):
AAAAAATAAAAGA
Found at i:101123332 original size:12 final size:12
Alignment explanation
Indices: 101123317--101123362 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
101123307 AATCTAAGAA
*
101123317 AAAAATAAACAG
1 AAAAATAAAAAG
101123329 AAAAATAAAAAG
1 AAAAATAAAAAG
* *
101123341 AAAACTAAAAAT
1 AAAAATAAAAAG
*
101123353 TAAAATAAAA
1 AAAAATAAAA
101123363 TAAAATAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.13
Consensus pattern (12 bp):
AAAAATAAAAAG
Found at i:101123350 original size:18 final size:17
Alignment explanation
Indices: 101123329--101123371 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
101123319 AAATAAACAG
101123329 AAAAATAAAAAGAAAACT
1 AAAAATAAAAAGAAAA-T
* *
101123347 AAAAATTAAAATAAAAT
1 AAAAATAAAAAGAAAAT
101123364 -AAAATAAA
1 AAAAATAAA
101123372 TGGATTCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 7 0.32
17 1 0.05
18 14 0.64
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.16
Consensus pattern (17 bp):
AAAAATAAAAAGAAAAT
Found at i:101125276 original size:20 final size:21
Alignment explanation
Indices: 101125243--101125283 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
101125233 GTGGGGTTGG
101125243 GGAAAAGGATAGGGAAAGGGA
1 GGAAAAGGATAGGGAAAGGGA
*
101125264 GGAAAGGGA-AGGGAAAGGGA
1 GGAAAAGGATAGGGAAAGGGA
101125284 AAGGTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.46, C:0.00, G:0.51, T:0.02
Consensus pattern (21 bp):
GGAAAAGGATAGGGAAAGGGA
Found at i:101125278 original size:11 final size:11
Alignment explanation
Indices: 101125242--101125284 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
101125232 TGTGGGGTTG
*
101125242 GGGAAAAGGATA
1 GGGAAAGGGA-A
101125254 GGGAAAGGG-A
1 GGGAAAGGGAA
101125264 -GGAAAGGGAA
1 GGGAAAGGGAA
101125274 GGGAAAGGGAA
1 GGGAAAGGGAA
101125285 AGGTATTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 8 0.29
10 2 0.07
11 10 0.36
12 8 0.29
ACGTcount: A:0.47, C:0.00, G:0.51, T:0.02
Consensus pattern (11 bp):
GGGAAAGGGAA
Found at i:101128780 original size:5 final size:6
Alignment explanation
Indices: 101128736--101128782 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
101128726 TGCCAGAAGC
* *
101128736 AAAT-A AAATAA AAATTAGA AAACAG AAATAA AAATAA AAATAA AAAT
1 AAATAA AAATAA AAA-TA-A AAATAA AAATAA AAATAA AAATAA AAAT
101128783 GGCTAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
5 4 0.11
6 24 0.69
7 3 0.09
8 4 0.11
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (6 bp):
AAATAA
Done.