Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 191 of 297
Found at i:64764048 original size:19 final size:19
Alignment explanation
Indices: 64764024--64764060 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
64764014 TCCTAAATTA
64764024 TTTTAAATTATTTT-TAAAG
1 TTTTAAA-TATTTTCTAAAG
64764043 TTTTAAATATTTTCTAAA
1 TTTTAAATATTTTCTAAA
64764061 ACATATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (19 bp):
TTTTAAATATTTTCTAAAG
Found at i:64764076 original size:23 final size:22
Alignment explanation
Indices: 64764043--64764089 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
64764033 ATTTTTAAAG
*
64764043 TTTTAAATATTTTCTAAAACATA
1 TTTTAAATATTTTATAAAA-ATA
*
64764066 TTTTAATTATTTTATAAAAATA
1 TTTTAAATATTTTATAAAAATA
64764088 TT
1 TT
64764090 ACACTTTCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTTAAATATTTTATAAAAATA
Found at i:64765478 original size:20 final size:21
Alignment explanation
Indices: 64765453--64765495 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
64765443 TAAAAAATTA
*
64765453 AATAACATTTCT-TTTATGAT
1 AATAACATTTATCTTTATGAT
64765473 AATAACATTTATCTTTATGAT
1 AATAACATTTATCTTTATGAT
64765494 AA
1 AA
64765496 ATATTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.47
Consensus pattern (21 bp):
AATAACATTTATCTTTATGAT
Found at i:64765569 original size:21 final size:22
Alignment explanation
Indices: 64765502--64765569 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 22
64765492 ATAAATATTA
* *
64765502 AATTTAAGATAAATATAATTTG
1 AATTGAAGATATATATAATTTG
* *
64765524 AATATTAAGATATATATTA-TT-
1 AAT-TGAAGATATATATAATTTG
*
64765545 AATTGAA-ATATATATGATTTG
1 AATTGAAGATATATATAATTTG
64765566 AATT
1 AATT
64765570 TATTTTACTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 9 0.23
20 5 0.13
21 7 0.18
22 5 0.13
23 13 0.33
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (22 bp):
AATTGAAGATATATATAATTTG
Found at i:64766181 original size:14 final size:14
Alignment explanation
Indices: 64766150--64766192 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
64766140 ATAAATAAAT
* *
64766150 AAAAATTAATTATCA
1 AAAAATT-ATTTTAA
*
64766165 AAATATTATTTTAA
1 AAAAATTATTTTAA
64766179 AAAAATTATTTTAA
1 AAAAATTATTTTAA
64766193 CAATGTTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAAATTATTTTAA
Found at i:64766843 original size:14 final size:14
Alignment explanation
Indices: 64766817--64766846 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
64766807 TCTAAATAAC
64766817 AATAATAAAATAGT
1 AATAATAAAATAGT
*
64766831 AATAATATAATAGT
1 AATAATAAAATAGT
64766845 AA
1 AA
64766847 ATTGAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (14 bp):
AATAATAAAATAGT
Found at i:64770195 original size:28 final size:28
Alignment explanation
Indices: 64770154--64770225 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
64770144 TTTTTCTAAT
* *
64770154 AATTTTTATTATTTTATAATATTTCATA
1 AATTTTTATAATTTTATAAAATTTCATA
* * *
64770182 AATTTTTATCATTTTCTAAAATTTTATA
1 AATTTTTATAATTTTATAAAATTTCATA
*
64770210 ATATTTTAATAATTTT
1 A-ATTTTTATAATTTT
64770226 TAAGCTTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 25 0.68
29 12 0.32
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (28 bp):
AATTTTTATAATTTTATAAAATTTCATA
Found at i:64770201 original size:18 final size:20
Alignment explanation
Indices: 64770164--64770215 Score: 72
Period size: 18 Copynumber: 2.7 Consensus size: 20
64770154 AATTTTTATT
64770164 ATTTTATAATATTTCATAAA
1 ATTTTATAATATTTCATAAA
* *
64770184 TTTTTATCAT-TTTC-TAAA
1 ATTTTATAATATTTCATAAA
64770202 ATTTTATAATATTT
1 ATTTTATAATATTT
64770216 TAATAATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 12 0.44
19 7 0.26
20 8 0.30
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTTTATAATATTTCATAAA
Found at i:64770215 original size:10 final size:10
Alignment explanation
Indices: 64770119--64770227 Score: 68
Period size: 10 Copynumber: 11.1 Consensus size: 10
64770109 TAATGTATTA
64770119 ATAATATTTT
1 ATAATATTTT
* * *
64770129 ATAACATGTA
1 ATAATATTTT
64770139 ATTAAT-TTTT
1 A-TAATATTTT
*
64770149 CTAATAATTTT
1 ATAAT-ATTTT
*
64770160 -TATTATTTT
1 ATAATATTTT
*
64770169 ATAATATTTC
1 ATAATATTTT
64770179 ATAA-ATTTT
1 ATAATATTTT
64770188 -T-ATCATTTT
1 ATAAT-ATTTT
* *
64770197 CTAAAATTTT
1 ATAATATTTT
64770207 ATAATATTTT
1 ATAATATTTT
64770217 AATAAT-TTTT
1 -ATAATATTTT
64770227 A
1 A
64770228 AGCTTAAACA
Statistics
Matches: 76, Mismatches: 14, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
7 1 0.01
8 1 0.01
9 19 0.25
10 42 0.55
11 13 0.17
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.57
Consensus pattern (10 bp):
ATAATATTTT
Found at i:64773158 original size:23 final size:21
Alignment explanation
Indices: 64773132--64773174 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
64773122 TTATTTAGGT
64773132 GGAAAAGTTTTATTTATATTCTA
1 GGAAAA-TTTTATTT-TATTCTA
*
64773155 GGAATATTTTATTTTATTCT
1 GGAAAATTTTATTTTATTCT
64773175 TTTAGTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 8 0.42
23 5 0.26
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (21 bp):
GGAAAATTTTATTTTATTCTA
Found at i:64778327 original size:42 final size:42
Alignment explanation
Indices: 64778277--64778370 Score: 127
Period size: 42 Copynumber: 2.3 Consensus size: 42
64778267 TCGTATTCTA
**
64778277 GGAA-TATTTTATTTTATCTTTTAGTAATTTATTAGAATAAG
1 GGAATTATTTTACCTTATCTTTTAGTAATTTATTAGAATAAG
* * *
64778318 GGAATTATTTTCCCTTATGTTTTAGTAGTTTATTAGAATAAG
1 GGAATTATTTTACCTTATCTTTTAGTAATTTATTAGAATAAG
*
64778360 AGAATTATTTT
1 GGAATTATTTT
64778371 TCAATTAGGA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 4 0.09
42 42 0.91
ACGTcount: A:0.32, C:0.04, G:0.14, T:0.50
Consensus pattern (42 bp):
GGAATTATTTTACCTTATCTTTTAGTAATTTATTAGAATAAG
Found at i:64781586 original size:19 final size:19
Alignment explanation
Indices: 64781542--64781586 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
64781532 GAAATTAAAT
*
64781542 GGAGATATTCGATCTTGAG
1 GGAGATCTTCGATCTTGAG
64781561 GGAGATCTTCGATCTTGAG
1 GGAGATCTTCGATCTTGAG
64781580 GGAGATC
1 GGAGATC
64781587 CGCTTCCGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.29
Consensus pattern (19 bp):
GGAGATCTTCGATCTTGAG
Found at i:64792735 original size:43 final size:43
Alignment explanation
Indices: 64792592--64792763 Score: 163
Period size: 43 Copynumber: 4.0 Consensus size: 43
64792582 CACATAAGCT
* *
64792592 AGTACAATGCC-ATATCCCAGATATGATCTTACATGCT-ATCAC
1 AGTACAATGCCAATATCCCAGACATGGTCTTACATG-TAATCAC
* * * * *
64792634 ATGT-CGATGCCACTATCCCAGACAGGGTCTTACATGAAAT-AG
1 A-GTACAATGCCAATATCCCAGACATGGTCTTACATGTAATCAC
* * ** * *
64792676 ATTAACGATGTTAATGTCCCAGACATGGTCTTACATGTAATCTC
1 AGT-ACAATGCCAATATCCCAGACATGGTCTTACATGTAATCAC
*
64792720 AGTACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCAC
1 AGTACAATGCCAATATCCCAGACATGGTCTTACATGTAATCAC
64792763 A
1 A
64792764 TCTTAATAAT
Statistics
Matches: 103, Mismatches: 21, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
41 1 0.01
42 9 0.09
43 91 0.88
44 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
AGTACAATGCCAATATCCCAGACATGGTCTTACATGTAATCAC
Found at i:64793438 original size:11 final size:11
Alignment explanation
Indices: 64793422--64793447 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
64793412 GTAAACAACA
64793422 AAAATAATTTT
1 AAAATAATTTT
64793433 AAAATAATTTT
1 AAAATAATTTT
64793444 AAAA
1 AAAA
64793448 CATCAGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:64794420 original size:42 final size:42
Alignment explanation
Indices: 64794261--64794463 Score: 198
Period size: 42 Copynumber: 4.9 Consensus size: 42
64794251 TACCGTACCA
* * *
64794261 ATGCCATATCCCAG--AT-GTCATACACGTAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTTATATCG
* * * * * *
64794300 ATGTCATATCCCAAATATGGTCTTATATGT-GATCTCATATCA
1 ATGCCATATCCCAGATATGGTCTTACACGTAG-TCTTATATCG
* * * * * *
64794342 ATGCCAATAGCCCAGCTATAGTCGTCCACGAAGTCTTATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAGTCTTATATCG
* *
64794385 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTTTTATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTTATATCG
*
64794427 ATGTCATATCCCAGATATGGTCTTACACGTAGTCTTA
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTTA
64794464 GTAACCCTAA
Statistics
Matches: 129, Mismatches: 29, Indels: 9
0.77 0.17 0.05
Matches are distributed among these distances:
39 12 0.09
41 3 0.02
42 84 0.65
43 29 0.22
44 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAGTCTTATATCG
Found at i:64794562 original size:19 final size:19
Alignment explanation
Indices: 64794538--64794575 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
64794528 GTCGAAACTT
*
64794538 TGTCGACTACGTTCAAGGG
1 TGTCGAATACGTTCAAGGG
64794557 TGTCGAATACGTTCAAGGG
1 TGTCGAATACGTTCAAGGG
64794576 GCAATCACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (19 bp):
TGTCGAATACGTTCAAGGG
Found at i:64801181 original size:23 final size:25
Alignment explanation
Indices: 64801135--64801181 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
64801125 CTACACAACA
* *
64801135 ACATACAACACCAATCCAAGCATAT
1 ACATACAACACAAATCCAACCATAT
64801160 ACATACAAC-CAAAT-CAACCATA
1 ACATACAACACAAATCCAACCATA
64801182 ACCAAAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 4 0.20
25 9 0.45
ACGTcount: A:0.51, C:0.32, G:0.02, T:0.15
Consensus pattern (25 bp):
ACATACAACACAAATCCAACCATAT
Found at i:64801996 original size:41 final size:43
Alignment explanation
Indices: 64801862--64802022 Score: 174
Period size: 41 Copynumber: 3.8 Consensus size: 43
64801852 TACCGTACCA
*
64801862 ATGCCATATCCTAGATATGGTCTTACATGTGAG-CTCATATCG
1 ATGCCATATCCTAGATATGGTCTTACACGTGAGTCTCATATCG
* * *
64801904 TTGCCA-ATAGCTCAGCTATGGTCTTACA--TGAGGTCTCATATCG
1 ATGCCATAT-CCT-AGATATGGTCTTACACGTGA-GTCTCATATCG
* *
64801947 ATGCCATATCCTAGCTATGGTCTTACA-GT-AGTCTCATATTG
1 ATGCCATATCCTAGATATGGTCTTACACGTGAGTCTCATATCG
* *
64801988 ATGTCATATCCCAGATATGGTCTTACACGT-AGTCT
1 ATGCCATATCCTAGATATGGTCTTACACGTGAGTCT
64802023 TAGTAACCCT
Statistics
Matches: 103, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
41 39 0.38
42 31 0.30
43 31 0.30
44 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (43 bp):
ATGCCATATCCTAGATATGGTCTTACACGTGAGTCTCATATCG
Found at i:64804573 original size:19 final size:19
Alignment explanation
Indices: 64804537--64804581 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
64804527 TTCCACTTTT
64804537 ATTAATTAAAGATGGATTAA
1 ATTAA-TAAAGATGGATTAA
*
64804557 GTTAATAAAGTAT-GATTAA
1 ATTAATAAAG-ATGGATTAA
64804576 ATTAAT
1 ATTAAT
64804582 TTAATTATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (19 bp):
ATTAATAAAGATGGATTAA
Found at i:64805359 original size:269 final size:269
Alignment explanation
Indices: 64804880--64805373 Score: 814
Period size: 269 Copynumber: 1.8 Consensus size: 269
64804870 ATTGATATAT
* * * *
64804880 TTTAAGCTAGATTATAAAAAAAGACTAGATTGTGACATTTAATTGTTAGTTTTGTACATATGGAT
1 TTTAAGCTAGATTATAAAAAAAGACTAAATTGTAACATTTAATTGTTAGTTTTGCACATATGGAC
* * *
64804945 TAAAGTGAATAAAATGTGAAATTGTTGTGAAATTTTAGTATAAATAGAAAGTAGAGTGTCCCTAA
66 TAAAGTGAATAAAATGTGAAACTGTTATGAAATTTCAGTATAAATAGAAAGTAGAGTGTCCCTAA
* *
64805010 TGAATGTATTTGAAGTCAGATTTTAAATCGAGGTCAGGAATTGGAAGTTATTGCTATTTTGAATT
131 TGAATGTATTTGAAGTCAAATTTTAAATCGAGGTCAGGAATTGGAAGTTATTGCTATTTCGAATT
* *
64805075 TAGGGACTAAATTGAATAAAATATAAAACTGATAAAGCTTTAGAAAGTTTCCTTTGTTGATTTCT
196 CAGAGACTAAATTGAATAAAATATAAAACTGATAAAGCTTTAGAAAGTTTCCTTTGTTGATTTCT
64805140 TGAAAAATA
261 TGAAAAATA
*
64805149 TTTAAGCTTAGATTAT-GAAAAAGACTAAATTGTAACATTTAATTGTTAGTTTTGCACATATGGA
1 TTTAAGC-TAGATTATAAAAAAAGACTAAATTGTAACATTTAATTGTTAGTTTTGCACATATGGA
64805213 CTAAAGTGAATAAAATGTGAAACTGTTATGAAATTTCAGTATAAATAGAAAGTAGAAG-GTCCCT
65 CTAAAGTGAATAAAATGTGAAACTGTTATGAAATTTCAGTATAAATAGAAAGTAG-AGTGTCCCT
*
64805277 AATGAATGTATTTGAAGTCAAATTTTAAA-CTGAGGTTAGGAATTGGAAGTTATTGCTATTTCGA
129 AATGAATGTATTTGAAGTCAAATTTTAAATC-GAGGTCAGGAATTGGAAGTTATTGCTATTTCGA
*
64805341 ATTCAGAGACTAAATTGAATAAAATGTAAAACT
193 ATTCAGAGACTAAATTGAATAAAATATAAAACT
64805374 TTATGTAACG
Statistics
Matches: 208, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
268 1 0.00
269 197 0.95
270 10 0.05
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.35
Consensus pattern (269 bp):
TTTAAGCTAGATTATAAAAAAAGACTAAATTGTAACATTTAATTGTTAGTTTTGCACATATGGAC
TAAAGTGAATAAAATGTGAAACTGTTATGAAATTTCAGTATAAATAGAAAGTAGAGTGTCCCTAA
TGAATGTATTTGAAGTCAAATTTTAAATCGAGGTCAGGAATTGGAAGTTATTGCTATTTCGAATT
CAGAGACTAAATTGAATAAAATATAAAACTGATAAAGCTTTAGAAAGTTTCCTTTGTTGATTTCT
TGAAAAATA
Found at i:64805739 original size:26 final size:26
Alignment explanation
Indices: 64805710--64805822 Score: 208
Period size: 26 Copynumber: 4.3 Consensus size: 26
64805700 TGATACAAAT
64805710 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
64805736 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
64805762 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
64805788 TGATAATGGGTTAGGCAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
64805814 TGATAATGG
1 TGATAATGG
64805823 TTTCATGTCT
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 85 1.00
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:64811520 original size:14 final size:14
Alignment explanation
Indices: 64811501--64811535 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
64811491 AGTGATGTAG
64811501 GTGGGGTGGTAACT
1 GTGGGGTGGTAACT
64811515 GTGGGGTGGTAACT
1 GTGGGGTGGTAACT
64811529 GTGGGGT
1 GTGGGGT
64811536 CTGAGGCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.11, C:0.06, G:0.54, T:0.29
Consensus pattern (14 bp):
GTGGGGTGGTAACT
Found at i:64812750 original size:17 final size:18
Alignment explanation
Indices: 64812728--64812766 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
64812718 ATTAACTATA
64812728 AAAAAAAT-GA-AACAAAG
1 AAAAAAATGGAGAA-AAAG
64812745 AAAAAAATGGAGAAAAAG
1 AAAAAAATGGAGAAAAAG
64812763 AAAA
1 AAAA
64812767 TCAAAGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 10 0.50
19 2 0.10
ACGTcount: A:0.77, C:0.03, G:0.15, T:0.05
Consensus pattern (18 bp):
AAAAAAATGGAGAAAAAG
Found at i:64814594 original size:29 final size:28
Alignment explanation
Indices: 64814561--64814646 Score: 93
Period size: 28 Copynumber: 3.0 Consensus size: 28
64814551 AAATTTTACA
*
64814561 AAAATCGTAAAAAAATTATAAAATATAT
1 AAAATCATAAAAAAATTATAAAATATAT
* *
64814589 AGAAAT-ATAAAAAAATTATAATATTTAAT
1 A-AAATCATAAAAAAATTATAAAATAT-AT
*
64814618 AAAATCATAAGAAAATTATTCAAAATATA
1 AAAATCATAAAAAAATTA-T-AAAATATA
64814647 AATAAATATA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
28 22 0.47
29 18 0.38
30 2 0.04
31 5 0.11
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (28 bp):
AAAATCATAAAAAAATTATAAAATATAT
Found at i:64814608 original size:28 final size:27
Alignment explanation
Indices: 64814568--64814658 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 27
64814558 ACAAAAATCG
64814568 TAAAAAAATTATAAAATATATAGAAATA
1 TAAAAAAATTATAAAATATATA-AAATA
* *
64814596 TAAAAAAATTATAATATTTAATAAAATCA
1 TAAAAAAATTATAAAATAT-ATAAAAT-A
* *
64814625 TAAGAAAATTATTCAAAATATAAATAAATA
1 TAAAAAAATTA-T-AAAATATATA-AAATA
64814655 TAAA
1 TAAA
64814659 TTTCGTAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
28 21 0.41
29 14 0.27
30 7 0.14
31 9 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (27 bp):
TAAAAAAATTATAAAATATATAAAATA
Found at i:64814623 original size:57 final size:56
Alignment explanation
Indices: 64814505--64814658 Score: 145
Period size: 57 Copynumber: 2.7 Consensus size: 56
64814495 TGCTTTTATT
* * * *
64814505 AAAAATTAGAAAAAAA-TATAAAA-ATTATAAAATATATAGAAATATAAAATTTTAC
1 AAAAATCATAAAAAAATTATAAAATA-TATAAAATATAAAAAAATATAAAATTTTAC
* *
64814560 AAAAATCGTAAAAAAATTATAAAATATATAGAAATATAAAAAAAT-TATAATATTTA-
1 AAAAATCATAAAAAAATTATAAAATATATA-AAATATAAAAAAATATAAAAT-TTTAC
* *
64814616 ATAAAATCATAAGAAAATTATTCAAAATATAAATAAATATAAA
1 A-AAAATCATAAAAAAATTA-T-AAAATATATA-AAATATAAA
64814659 TTTCGTAAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
55 13 0.16
56 17 0.21
57 33 0.40
58 1 0.01
59 18 0.22
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (56 bp):
AAAAATCATAAAAAAATTATAAAATATATAAAATATAAAAAAATATAAAATTTTAC
Found at i:64815104 original size:77 final size:77
Alignment explanation
Indices: 64815017--64815163 Score: 195
Period size: 77 Copynumber: 1.9 Consensus size: 77
64815007 TTTGAAGGTT
* * * ** * *
64815017 TTTTTTATGCATTTTGAAAATTCGAGTACCCAATTGAGTGAAAAAAACTAGTGGTTTAATTGCCT
1 TTTTTGATGCATTTTGAAAATTCAAGTACCCAATTGAGTAAAAAAAAAGAGAGGCTTAATTGCCT
64815082 TTTTTGATGGCC
66 TTTTTGATGGCC
* * * *
64815094 TTTTTGATGCATTTTGAAAGTTCAAGTGCTCAATTGAGTAAAAAAAAAGAGAGGCTTAATTGCTT
1 TTTTTGATGCATTTTGAAAATTCAAGTACCCAATTGAGTAAAAAAAAAGAGAGGCTTAATTGCCT
64815159 TTTTT
66 TTTTT
64815164 TATTTAAGTT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
77 59 1.00
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (77 bp):
TTTTTGATGCATTTTGAAAATTCAAGTACCCAATTGAGTAAAAAAAAAGAGAGGCTTAATTGCCT
TTTTTGATGGCC
Found at i:64820101 original size:12 final size:12
Alignment explanation
Indices: 64820084--64820116 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
64820074 CTTCGTCGAT
64820084 CACACGGCCTAC
1 CACACGGCCTAC
64820096 CACACGGCCTAC
1 CACACGGCCTAC
*
64820108 CACATGGCC
1 CACACGGCC
64820117 GTGTGGTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.48, G:0.18, T:0.09
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:64827970 original size:14 final size:14
Alignment explanation
Indices: 64827951--64827979 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
64827941 ATAGTAGGGG
64827951 GTGGGTTTTCAGTC
1 GTGGGTTTTCAGTC
64827965 GTGGGTTTTCAGTC
1 GTGGGTTTTCAGTC
64827979 G
1 G
64827980 GCGCTGCCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.14, G:0.38, T:0.41
Consensus pattern (14 bp):
GTGGGTTTTCAGTC
Found at i:64834431 original size:34 final size:34
Alignment explanation
Indices: 64834388--64834452 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
64834378 GTTCGAACAT
*
64834388 GTGGTCACCGAGGGGCTCCGCAGCACCGATCCGC
1 GTGGTCACCGAGGGGCTCCGAAGCACCGATCCGC
*
64834422 GTGGTCACCGAGGGGCTCCTAAGCACCGATC
1 GTGGTCACCGAGGGGCTCCGAAGCACCGATC
64834453 AGCCTAACTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.17, C:0.35, G:0.34, T:0.14
Consensus pattern (34 bp):
GTGGTCACCGAGGGGCTCCGAAGCACCGATCCGC
Found at i:64836675 original size:24 final size:25
Alignment explanation
Indices: 64836633--64836681 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
64836623 TCTTACTTGC
64836633 AATTATTCACATAAAATCATCTACCA
1 AATTATT-ACATAAAATCATCTACCA
* *
64836659 AATTATT-CATAATATCATTTACC
1 AATTATTACATAAAATCATCTACC
64836682 TTTCACTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.67
26 7 0.33
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (25 bp):
AATTATTACATAAAATCATCTACCA
Found at i:64844803 original size:7 final size:7
Alignment explanation
Indices: 64844791--64844831 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
64844781 TATATGCAAA
64844791 AAAATAT
1 AAAATAT
64844798 AAAATAT
1 AAAATAT
64844805 AAAATAT
1 AAAATAT
64844812 AAAAT-T
1 AAAATAT
*
64844818 ATAGATAT
1 A-AAATAT
64844826 AAAATA
1 AAAATA
64844832 AATTCAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 2 0.07
7 26 0.87
8 2 0.07
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (7 bp):
AAAATAT
Found at i:64848583 original size:3 final size:3
Alignment explanation
Indices: 64848575--64848607 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
64848565 CTCTCTTATG
*
64848575 TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
64848608 CCGATTGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:64852680 original size:24 final size:25
Alignment explanation
Indices: 64852651--64852697 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
64852641 GGATTATTTA
*
64852651 ATAAATATT-AAAGTTTTTTTAAAG
1 ATAAATATTAAAAGTATTTTTAAAG
64852675 ATAAATATTAAAAGTATTTTTAA
1 ATAAATATTAAAAGTATTTTTAA
64852698 CTAGATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (25 bp):
ATAAATATTAAAAGTATTTTTAAAG
Found at i:64868618 original size:93 final size:93
Alignment explanation
Indices: 64868505--64868676 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
64868495 CGCCCATAAG
* *
64868505 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
64868570 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
64868598 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
64868663 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
64868677 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:64868673 original size:46 final size:46
Alignment explanation
Indices: 64868498--64868673 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
64868488 TGTAACCCGC
* * *
64868498 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
64868544 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
64868594 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
64868637 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
64868674 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:64871016 original size:14 final size:14
Alignment explanation
Indices: 64870997--64871025 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
64870987 ATTTAGTCCC
64870997 TAAAATCAAAGATA
1 TAAAATCAAAGATA
64871011 TAAAATCAAAGATA
1 TAAAATCAAAGATA
64871025 T
1 T
64871026 TGTAACTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (14 bp):
TAAAATCAAAGATA
Found at i:64871486 original size:29 final size:29
Alignment explanation
Indices: 64871441--64871499 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
64871431 AGGAAGATGA
64871441 ATAAATAATTTTCTCTCTCCTTTCACCAT
1 ATAAATAATTTTCTCTCTCCTTTCACCAT
* *
64871470 ATAAATAATTTTTTCTCTTCTTTCACCAT
1 ATAAATAATTTTCTCTCTCCTTTCACCAT
64871499 A
1 A
64871500 AATATTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (29 bp):
ATAAATAATTTTCTCTCTCCTTTCACCAT
Found at i:64871500 original size:27 final size:28
Alignment explanation
Indices: 64871440--64871512 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 28
64871430 GAGGAAGATG
*
64871440 AATAAATAATTTTCTCTCTCCTTTCACC
1 AATAAATAATTTTTTCTCTCCTTTCACC
*
64871468 ATATAAATAATTTTTTCTCTTCTTTCACC
1 A-ATAAATAATTTTTTCTCTCCTTTCACC
64871497 -ATAAAT-ATTTGTTTCT
1 AATAAATAATTT-TTTCT
64871513 TTTAATCATA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
26 4 0.10
27 11 0.27
28 1 0.02
29 25 0.61
ACGTcount: A:0.29, C:0.21, G:0.01, T:0.49
Consensus pattern (28 bp):
AATAAATAATTTTTTCTCTCCTTTCACC
Found at i:64875241 original size:13 final size:13
Alignment explanation
Indices: 64875223--64875247 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64875213 TAATACATAC
64875223 ATCACATAATCAG
1 ATCACATAATCAG
64875236 ATCACATAATCA
1 ATCACATAATCA
64875248 AGGGTCTAAG
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:0.48, C:0.24, G:0.04, T:0.24
Consensus pattern (13 bp):
ATCACATAATCAG
Found at i:64882369 original size:21 final size:21
Alignment explanation
Indices: 64882345--64882409 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
64882335 TCTTTCAAGC
*
64882345 TTCTATTAAACTCTTATGAGT
1 TTCTGTTAAACTCTTATGAGT
* *
64882366 TTCTGTTAAGCTCTTATGAGC
1 TTCTGTTAAACTCTTATGAGT
* *
64882387 TTCTGTTTAACTCATATGAGT
1 TTCTGTTAAACTCTTATGAGT
64882408 TT
1 TT
64882410 TTTTTCAGCT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.23, C:0.15, G:0.14, T:0.48
Consensus pattern (21 bp):
TTCTGTTAAACTCTTATGAGT
Found at i:64882417 original size:84 final size:84
Alignment explanation
Indices: 64882290--64882474 Score: 237
Period size: 84 Copynumber: 2.2 Consensus size: 84
64882280 CTTTCCATTT
** * *
64882290 AGCTCTTACAAGCTTCTGTTTAATGCATATGAGTTTTCGTTCAGCTCTTTCAAGCTTCTATTAAA
1 AGCTCTTATGAGCTTCTGTTTAATGCATATGAGTTTTCGTTCAGCTCTTACAAGCTTCTACTAAA
*
64882355 CTCTTATGAGTTTCTGTTA
66 CCCTTATGAGTTTCTGTTA
** * *
64882374 AGCTCTTATGAGCTTCTGTTTAACT-CATATGAGTTTTTTTTCAGCTCTTACGAGCTTCTACTCA
1 AGCTCTTATGAGCTTCTGTTTAA-TGCATATGAGTTTTCGTTCAGCTCTTACAAGCTTCTACTAA
* * *
64882438 ACCCTTATGGGTTTTTGTTT
65 ACCCTTATGAGTTTCTGTTA
*
64882458 AGCTCTCATGAGCTTCT
1 AGCTCTTATGAGCTTCT
64882475 ATTAAGCTTT
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 86 0.99
85 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.44
Consensus pattern (84 bp):
AGCTCTTATGAGCTTCTGTTTAATGCATATGAGTTTTCGTTCAGCTCTTACAAGCTTCTACTAAA
CCCTTATGAGTTTCTGTTA
Found at i:64882452 original size:42 final size:42
Alignment explanation
Indices: 64882290--64882479 Score: 159
Period size: 42 Copynumber: 4.5 Consensus size: 42
64882280 CTTTCCATTT
* * * * **
64882290 AGCTCTTACAAGCTTCTGTTTAA-TGCATATGAGTTTTCGTTC
1 AGCTCTTACGAGCTTCTATTAAACT-CTTATGAGTTTTTTTTC
* * * * *
64882332 AGCTCTTTCAAGCTTCTATTAAACTCTTATGAGTTTCTGTTA
1 AGCTCTTACGAGCTTCTATTAAACTCTTATGAGTTTTTTTTC
* * * *
64882374 AGCTCTTATGAGCTTCTGTTTAACTCATATGAGTTTTTTTTC
1 AGCTCTTACGAGCTTCTATTAAACTCTTATGAGTTTTTTTTC
* * * *
64882416 AGCTCTTACGAGCTTCTACTCAACCCTTATGGGTTTTTGTTT-
1 AGCTCTTACGAGCTTCTATTAAACTCTTATGAGTTTTT-TTTC
* *
64882458 AGCTCTCATGAGCTTCTATTAA
1 AGCTCTTACGAGCTTCTATTAA
64882480 GCTTTTGAGC
Statistics
Matches: 119, Mismatches: 27, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
42 115 0.97
43 4 0.03
ACGTcount: A:0.21, C:0.20, G:0.15, T:0.44
Consensus pattern (42 bp):
AGCTCTTACGAGCTTCTATTAAACTCTTATGAGTTTTTTTTC
Found at i:64885361 original size:15 final size:16
Alignment explanation
Indices: 64885343--64885377 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
64885333 TCTTATTTCA
*
64885343 TTTCCATTTCAT-TAC
1 TTTCCATTGCATCTAC
64885358 TTTCCATTGCATCTAC
1 TTTCCATTGCATCTAC
64885374 TTTC
1 TTTC
64885378 TTTAACTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.17, C:0.29, G:0.03, T:0.51
Consensus pattern (16 bp):
TTTCCATTGCATCTAC
Found at i:64885861 original size:34 final size:34
Alignment explanation
Indices: 64885818--64885891 Score: 148
Period size: 34 Copynumber: 2.2 Consensus size: 34
64885808 CTATTACTCA
64885818 TCTTAACTTACAAGGATATTCATATAGTTTCATG
1 TCTTAACTTACAAGGATATTCATATAGTTTCATG
64885852 TCTTAACTTACAAGGATATTCATATAGTTTCATG
1 TCTTAACTTACAAGGATATTCATATAGTTTCATG
64885886 TCTTAA
1 TCTTAA
64885892 TTCATATAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (34 bp):
TCTTAACTTACAAGGATATTCATATAGTTTCATG
Found at i:64887831 original size:19 final size:19
Alignment explanation
Indices: 64887807--64887845 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
64887797 ATCCAAATAT
* * *
64887807 AGAAAATATAGAAAAGAAA
1 AGAAAAAATAAAAAACAAA
64887826 AGAAAAAATAAAAAACAAA
1 AGAAAAAATAAAAAACAAA
64887845 A
1 A
64887846 TAGATAAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.79, C:0.03, G:0.10, T:0.08
Consensus pattern (19 bp):
AGAAAAAATAAAAAACAAA
Found at i:64889164 original size:16 final size:16
Alignment explanation
Indices: 64889140--64889182 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
64889130 AAAGGAAAAT
64889140 AATTT-AAAAACTTAA
1 AATTTGAAAAACTTAA
*
64889155 ATTTTG-AAAACTTAA
1 AATTTGAAAAACTTAA
64889170 AATTTGAAGAAAC
1 AATTTGAA-AAAC
64889183 AATTTTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 18 0.78
16 1 0.04
17 4 0.17
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (16 bp):
AATTTGAAAAACTTAA
Found at i:64889166 original size:15 final size:15
Alignment explanation
Indices: 64889140--64889177 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
64889130 AAAGGAAAAT
*
64889140 AATTTAAAAACTTAA
1 AATTTGAAAACTTAA
*
64889155 ATTTTGAAAACTTAA
1 AATTTGAAAACTTAA
64889170 AATTTGAA
1 AATTTGAA
64889178 GAAACAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (15 bp):
AATTTGAAAACTTAA
Found at i:64892482 original size:20 final size:20
Alignment explanation
Indices: 64892457--64892497 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
64892447 ATCCCTTACC
64892457 TCATTAAATAATTGAAACTT
1 TCATTAAATAATTGAAACTT
*
64892477 TCATTACATAATTGAAACTT
1 TCATTAAATAATTGAAACTT
64892497 T
1 T
64892498 TTAGAGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.41
Consensus pattern (20 bp):
TCATTAAATAATTGAAACTT
Found at i:64897921 original size:47 final size:46
Alignment explanation
Indices: 64897800--64897927 Score: 150
Period size: 46 Copynumber: 2.8 Consensus size: 46
64897790 ATAATCTCAC
* * * * *
64897800 CCATAATGAACTCGCAACGCAGCTCAACGAGCTCGGGTGTTCGCAT
1 CCATAATGAACTCGAAACGCAACTCAACGAGTTCAGATGTTCGCAT
* * *
64897846 CCATAATGAACACGGAACACAACTCAACGAGTTCAGATGCTT-GCAT
1 CCATAATGAACTCGAAACGCAACTCAACGAGTTCAGATG-TTCGCAT
*
64897892 CCATAGGTGAACTCGAAACGCAACTCAACGAGTTCA
1 CCATA-ATGAACTCGAAACGCAACTCAACGAGTTCA
64897928 CGAACTCGGA
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
46 41 0.59
47 28 0.41
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (46 bp):
CCATAATGAACTCGAAACGCAACTCAACGAGTTCAGATGTTCGCAT
Found at i:64904125 original size:42 final size:42
Alignment explanation
Indices: 64904021--64904132 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 42
64904011 TACCGTATCA
* ** * *
64904021 ATGCCATATCCCAGATATGGTCTTACATGAAATATCATATTG
1 ATGCCATATCCCAGATATGGTCTTATACAAAATATCACATCG
* * *
64904063 ATGCCATGTCCTTA-ACATGGTCTTATACAAAATCA-CACATCG
1 ATGCCATATCC-CAGATATGGTCTTATACAAAAT-ATCACATCG
*
64904105 ATGCCATATCCGAGATATGGTCTTATAC
1 ATGCCATATCCCAGATATGGTCTTATAC
64904133 GGAATCTCAG
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.02
42 53 0.95
43 2 0.04
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTATACAAAATATCACATCG
Found at i:64909099 original size:16 final size:16
Alignment explanation
Indices: 64909080--64909122 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
64909070 TTATTTTTCT
64909080 TATATATTCTTTTATA
1 TATATATTCTTTTATA
* *
64909096 TATAT-TT-TATTATG
1 TATATATTCTTTTATA
64909110 TATATATTCTTTT
1 TATATATTCTTTT
64909123 TTTACTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
14 10 0.45
15 4 0.18
16 8 0.36
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (16 bp):
TATATATTCTTTTATA
Found at i:64920119 original size:15 final size:16
Alignment explanation
Indices: 64920092--64920121 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64920082 CAAAAAAAAA
64920092 AGAAAAAAGAGAGAAG
1 AGAAAAAAGAGAGAAG
64920108 AGAAAAAA-AGAGAA
1 AGAAAAAAGAGAGAA
64920122 AAATGGAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (16 bp):
AGAAAAAAGAGAGAAG
Found at i:64921352 original size:206 final size:206
Alignment explanation
Indices: 64920998--64921545 Score: 884
Period size: 206 Copynumber: 2.7 Consensus size: 206
64920988 GGCTGATGCA
* * * *
64920998 AGATCCAAGATGGTTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAGA-CATAGCTGATTTGG
1 AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAA-ATCATAGCTGATTTAG
* ** * * *
64921062 CTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAAATAACAA
65 CTTTCACGTGCTTACGCTGAAGCAAGCCTAACATGATTTGGCATCTCTGTATTGTCAGAGAACAA
* * *
64921127 ATCGAAGTTTGGCATCTCCATATTCGACGGAGAGCAAATACATAGCAGATCTGGA-CTTCAGATG
130 ATCGAAGTTTGGCATCTCCATATTCGACGGAGAGCAAACAAATAGCAGATCT-AACCTTCAGATG
* * *
64921191 TTTATATTGAAGC
194 ATTAGACTGAAGC
64921204 AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAATCATAGCTGATTTAGC
1 AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAATCATAGCTGATTTAGC
64921269 TTTCACGTGCTTACGCTGAAGCAAGCCTAACATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
66 TTTCACGTGCTTACGCTGAAGCAAGCCTAACATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
* * * *
64921334 TCGAAGTTTGGCATCTCCATATTCGACGGAGGGTAGACAAATAGCAGATCTAACCTTTAGATGAT
131 TCGAAGTTTGGCATCTCCATATTCGACGGAGAGCAAACAAATAGCAGATCTAACCTTCAGATGAT
64921399 TAGACTGAAGC
196 TAGACTGAAGC
64921410 AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAATCATAGCTGATTTAGC
1 AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAATCATAGCTGATTTAGC
64921475 TTTCACGTGCTTACGCTGAAGCAAGCCTAACATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
66 TTTCACGTGCTTACGCTGAAGCAAGCCTAACATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
64921540 TCGAAG
131 TCGAAG
64921546 AAGCAGATTT
Statistics
Matches: 320, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
205 2 0.01
206 318 0.99
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (206 bp):
AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAATCATAGCTGATTTAGC
TTTCACGTGCTTACGCTGAAGCAAGCCTAACATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
TCGAAGTTTGGCATCTCCATATTCGACGGAGAGCAAACAAATAGCAGATCTAACCTTCAGATGAT
TAGACTGAAGC
Found at i:64923470 original size:16 final size:16
Alignment explanation
Indices: 64923451--64923493 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
64923441 TTATTTTTCT
64923451 TATATATTCTTTTATA
1 TATATATTCTTTTATA
* *
64923467 TATAT-TT-TATTATG
1 TATATATTCTTTTATA
64923481 TATATATTCTTTT
1 TATATATTCTTTT
64923494 TTACTAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
14 10 0.45
15 4 0.18
16 8 0.36
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (16 bp):
TATATATTCTTTTATA
Found at i:64926829 original size:20 final size:20
Alignment explanation
Indices: 64926804--64926842 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
64926794 CCCTTACATA
64926804 ATTACATAATTGAAACTTTC
1 ATTACATAATTGAAACTTTC
64926824 ATTACATAATTGAAACTTT
1 ATTACATAATTGAAACTTT
64926843 TTAGAGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (20 bp):
ATTACATAATTGAAACTTTC
Found at i:64928209 original size:40 final size:40
Alignment explanation
Indices: 64928164--64928246 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
64928154 CCGTATAGAT
64928164 AGAACAATACCTCAACATCAATAGTGCATTTCAAAACAAA
1 AGAACAATACCTCAACATCAATAGTGCATTTCAAAACAAA
64928204 AGAACAATACCTCAACATCAATAGTGCATTTCAAAACAAA
1 AGAACAATACCTCAACATCAATAGTGCATTTCAAAACAAA
64928244 AGA
1 AGA
64928247 GTAAAACCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.51, C:0.22, G:0.08, T:0.19
Consensus pattern (40 bp):
AGAACAATACCTCAACATCAATAGTGCATTTCAAAACAAA
Found at i:64942055 original size:22 final size:23
Alignment explanation
Indices: 64942030--64942073 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
64942020 AATGATTATT
64942030 TAAT-CAATTAACATTTTTAAAC
1 TAATACAATTAACATTTTTAAAC
* *
64942052 TAATAGCGATTAACTTTTTTAA
1 TAATA-CAATTAACATTTTTAA
64942074 CTTTTATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
24 14 0.78
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (23 bp):
TAATACAATTAACATTTTTAAAC
Found at i:64942362 original size:42 final size:42
Alignment explanation
Indices: 64942315--64942400 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
64942305 TTCTAAAATC
*
64942315 ACATTTGACTCGTAAATTTTAAATAATAATATTTACGAACTT
1 ACATTTGACTCGTAAATATTAAATAATAATATTTACGAACTT
* *
64942357 ACATTTGATTGGTAAATATTAAATAATAATATTTACGAACTT
1 ACATTTGACTCGTAAATATTAAATAATAATATTTACGAACTT
64942399 AC
1 AC
64942401 TCGTTAGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (42 bp):
ACATTTGACTCGTAAATATTAAATAATAATATTTACGAACTT
Found at i:64944637 original size:40 final size:40
Alignment explanation
Indices: 64944553--64944736 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
64944543 TTGAATGCTG
* * * *
64944553 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
64944592 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * * *
64944633 TCCGGGTTAAGTCCCGAGGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
64944673 TCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
64944713 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
64944737 GTATGAGTTA
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 110 0.90
41 10 0.08
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:64951994 original size:23 final size:23
Alignment explanation
Indices: 64951964--64952009 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
64951954 GGGCAAGAAT
64951964 AGCCATTTTTAAAGCTTCAAACA
1 AGCCATTTTTAAAGCTTCAAACA
64951987 AGCCATTTTTAAAGCTTCAAACA
1 AGCCATTTTTAAAGCTTCAAACA
64952010 TTCAGTCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (23 bp):
AGCCATTTTTAAAGCTTCAAACA
Found at i:64952266 original size:40 final size:39
Alignment explanation
Indices: 64952222--64952357 Score: 182
Period size: 40 Copynumber: 3.4 Consensus size: 39
64952212 GACAAATCGA
*
64952222 CTATGTATGGCACTTAATGTGCGATTCGAGATAGTTTCGG
1 CTATGTATGGCACTTAATGTGCGATTCG-GATAGCTTCGG
*
64952262 CTATGTATGGCACTTAATGTGTGATTCGTGATAGCTTCGG
1 CTATGTATGGCACTTAATGTGCGATTCG-GATAGCTTCGG
* * * * *
64952302 CTATGTATGGCACTTAGTGTACAATTTGGAATAGCTTCAG
1 CTATGTATGGCACTTAATGTGCGATTCGG-ATAGCTTCGG
64952342 CTATGTATGGCACTTA
1 CTATGTATGGCACTTA
64952358 GTGTACGAGA
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 85 0.99
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (39 bp):
CTATGTATGGCACTTAATGTGCGATTCGGATAGCTTCGG
Found at i:64956257 original size:58 final size:58
Alignment explanation
Indices: 64956192--64956304 Score: 190
Period size: 58 Copynumber: 1.9 Consensus size: 58
64956182 GGTTTACCGA
* *
64956192 AAAGAGAAAGATATCAAAGAAATGAATGGAAAAGAAATTTGACATAAGAATTTTGTAC
1 AAAGAGAAAGATATCAAAGAAAAGAATGGAAAAGAAATATGACATAAGAATTTTGTAC
* *
64956250 AAAGAGAAAGATGTCAAAGAAAAGAATGGAAAAGAAATATGACGTAAGAATTTTG
1 AAAGAGAAAGATATCAAAGAAAAGAATGGAAAAGAAATATGACATAAGAATTTTG
64956305 GGGATTTTGG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.54, C:0.04, G:0.21, T:0.20
Consensus pattern (58 bp):
AAAGAGAAAGATATCAAAGAAAAGAATGGAAAAGAAATATGACATAAGAATTTTGTAC
Found at i:64956358 original size:15 final size:15
Alignment explanation
Indices: 64956329--64956361 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
64956319 TCAGAGAAAG
64956329 AAAGAAAATATAAAT
1 AAAGAAAATATAAAT
64956344 AAAGTAAAATA-AAAT
1 AAAG-AAAATATAAAT
64956359 AAA
1 AAA
64956362 AGATTTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (15 bp):
AAAGAAAATATAAAT
Found at i:64956877 original size:18 final size:18
Alignment explanation
Indices: 64956839--64956878 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
64956829 TGACCCCTGG
*
64956839 TTTCCCAAAATTTCATGT
1 TTTCCCAAAATTTCATAT
64956857 TTTCCCAAAATTTTC-TAT
1 TTTCCCAAAA-TTTCATAT
64956875 TTTC
1 TTTC
64956879 TTTCAAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.25, C:0.23, G:0.03, T:0.50
Consensus pattern (18 bp):
TTTCCCAAAATTTCATAT
Found at i:64958500 original size:20 final size:20
Alignment explanation
Indices: 64958477--64958530 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
64958467 TCACACTCCG
64958477 GTACCCCTGATTGCACTTTT
1 GTACCCCTGATTGCACTTTT
** * *
64958497 GTACCTGTGATTTCTCTTTT
1 GTACCCCTGATTGCACTTTT
* *
64958517 GTGCCCTTGATTGC
1 GTACCCCTGATTGC
64958531 TGATCACAGT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.11, C:0.26, G:0.19, T:0.44
Consensus pattern (20 bp):
GTACCCCTGATTGCACTTTT
Found at i:64987872 original size:43 final size:43
Alignment explanation
Indices: 64987719--64987882 Score: 134
Period size: 43 Copynumber: 3.9 Consensus size: 43
64987709 GATTCCGAGA
* * * * *
64987719 TTGATATCATGTAAGACCATGTCTAGGACATTGACATCGATCT
1 TTGATAACATGTAAGACCATGTTTGGGACATTGGCATCGATAT
** * * * *
64987762 GAGATTACGTGTAAGACCATGTGTGGGACATTGGCATAG-TAT
1 TTGATAACATGTAAGACCATGTTTGGGACATTGGCATCGATAT
* **** * *
64987804 ATGATTTTGTGTAAGACCCTGTTTGGGACAGTGGCATCGATAT
1 TTGATAACATGTAAGACCATGTTTGGGACATTGGCATCGATAT
* *
64987847 TTGATAACATGTAAGACCATATTTGGGATA-TGGCAT
1 TTGATAACATGTAAGACCATGTTTGGGACATTGGCAT
64987883 TGTACGAGTT
Statistics
Matches: 94, Mismatches: 26, Indels: 3
0.76 0.21 0.02
Matches are distributed among these distances:
42 39 0.41
43 55 0.59
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (43 bp):
TTGATAACATGTAAGACCATGTTTGGGACATTGGCATCGATAT
Found at i:64988751 original size:29 final size:29
Alignment explanation
Indices: 64988719--64988810 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
64988709 TGAATTATGC
64988719 TTTGGTTGATGCTTGTAGAGATGACCCTT
1 TTTGGTTGATGCTTGTAGAGATGACCCTT
* ** * **
64988748 TTTGGTTGTTATTTGGTCATGA-ATTATGC--
1 TTTGGTTGATGCTT-GT-A-GAGATGACCCTT
64988777 TTTGGTTGATGCTTGTAGAGATGACCCTT
1 TTTGGTTGATGCTTGTAGAGATGACCCTT
64988806 TTTGG
1 TTTGG
64988811 GTGGCATGTT
Statistics
Matches: 45, Mismatches: 12, Indels: 12
0.65 0.17 0.17
Matches are distributed among these distances:
26 2 0.04
27 5 0.11
28 2 0.04
29 27 0.60
30 2 0.04
31 5 0.11
32 2 0.04
ACGTcount: A:0.16, C:0.11, G:0.27, T:0.46
Consensus pattern (29 bp):
TTTGGTTGATGCTTGTAGAGATGACCCTT
Found at i:64988779 original size:58 final size:58
Alignment explanation
Indices: 64988689--64988810 Score: 235
Period size: 58 Copynumber: 2.1 Consensus size: 58
64988679 TTGGGTATGG
64988689 TTTTGGTTGCTATTTGGTCATGAATTATGCTTTGGTTGATGCTTGTAGAGATGACCCT
1 TTTTGGTTGCTATTTGGTCATGAATTATGCTTTGGTTGATGCTTGTAGAGATGACCCT
*
64988747 TTTTGGTTGTTATTTGGTCATGAATTATGCTTTGGTTGATGCTTGTAGAGATGACCCT
1 TTTTGGTTGCTATTTGGTCATGAATTATGCTTTGGTTGATGCTTGTAGAGATGACCCT
64988805 TTTTGG
1 TTTTGG
64988811 GTGGCATGTT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.16, C:0.11, G:0.26, T:0.47
Consensus pattern (58 bp):
TTTTGGTTGCTATTTGGTCATGAATTATGCTTTGGTTGATGCTTGTAGAGATGACCCT
Found at i:64995011 original size:46 final size:44
Alignment explanation
Indices: 64994958--64995077 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 44
64994948 TTTGTATGCT
64994958 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGT--GCC
* * * *
64995004 AGTGTAAGACATGTCTAGGTCATGCATCGGCTATGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGCC
*
64995048 AGCGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
64995078 AGCACAAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
44 10 0.16
45 14 0.22
46 40 0.62
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGCC
Found at i:64996406 original size:20 final size:21
Alignment explanation
Indices: 64996367--64996406 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
64996357 GTTATAATGA
* *
64996367 CCACACGGGCGTGTTGCCCTT
1 CCACACGAGCCTGTTGCCCTT
64996388 CCACACGAGCCTG-TGCCCT
1 CCACACGAGCCTGTTGCCCT
64996407 GTTTCAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.42, G:0.25, T:0.20
Consensus pattern (21 bp):
CCACACGAGCCTGTTGCCCTT
Found at i:64998216 original size:21 final size:22
Alignment explanation
Indices: 64998190--64998235 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
64998180 ATTTAAATTT
64998190 TTTAAT-TTT-TATTTTTAAGAA
1 TTTAATCTTTCTATTTTTAA-AA
64998211 TTTAATCTTTCTATTTTTAAAA
1 TTTAATCTTTCTATTTTTAAAA
64998233 TTT
1 TTT
64998236 TAAAACTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.26
22 8 0.35
23 9 0.39
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTAATCTTTCTATTTTTAAAA
Found at i:64998226 original size:29 final size:29
Alignment explanation
Indices: 64998170--64998247 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 29
64998160 ATATGCTTCC
*
64998170 TATTTTTAAAATTTAAATTTTTTAATTTT
1 TATTTTTAAAATTTAAATTTTCTAATTTT
64998199 TATTTTTAAGAATTT-AATCTTTCT-ATTTT
1 TATTTTTAA-AATTTAAAT-TTTCTAATTTT
* *
64998228 TAAAATTTTAAAACTTAAAT
1 T--ATTTTTAAAATTTAAAT
64998248 CTAATTCTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
29 18 0.44
30 13 0.32
31 10 0.24
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (29 bp):
TATTTTTAAAATTTAAATTTTCTAATTTT
Found at i:65001963 original size:21 final size:22
Alignment explanation
Indices: 65001937--65001982 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
65001927 ATTTAAATTT
65001937 TTTAAT-TTT-TATTTTTAAGAA
1 TTTAATCTTTCTATTTTTAA-AA
65001958 TTTAATCTTTCTATTTTTAAAA
1 TTTAATCTTTCTATTTTTAAAA
65001980 TTT
1 TTT
65001983 TAAAACTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.26
22 8 0.35
23 9 0.39
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTAATCTTTCTATTTTTAAAA
Found at i:65001973 original size:29 final size:29
Alignment explanation
Indices: 65001917--65001994 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 29
65001907 ATATGCTTCC
*
65001917 TATTTTTAAAATTTAAATTTTTTAATTTT
1 TATTTTTAAAATTTAAATTTTCTAATTTT
65001946 TATTTTTAAGAATTT-AATCTTTCT-ATTTT
1 TATTTTTAA-AATTTAAAT-TTTCTAATTTT
* *
65001975 TAAAATTTTAAAACTTAAAT
1 T--ATTTTTAAAATTTAAAT
65001995 CTAATTCTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
29 18 0.44
30 13 0.32
31 10 0.24
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (29 bp):
TATTTTTAAAATTTAAATTTTCTAATTTT
Found at i:65013574 original size:107 final size:108
Alignment explanation
Indices: 65013416--65013631 Score: 328
Period size: 107 Copynumber: 2.0 Consensus size: 108
65013406 AAGCATCCCT
* * *
65013416 ACCTAAACAAAATTAATGAAAAGAAAAGAAAATTCTACCCATTTTTTATAAAGTTGTAGTTAAGA
1 ACCTAAACAAAATTAATGAAAAGAAAAGAAAATTATACCCATCTTTAATAAAGTTGTAGTTAAGA
*
65013481 GTTGATATTTATCATAATACTTGTATATTATACAAAATTGTCA
66 ATTGATATTTATCATAATACTTGTATATTATACAAAATTGTCA
65013524 ACCTAAAC-AAATTCAATGAAAAG-AAAGAAAATTATACCCATCTTTAATAAAGTTGTAGTTAAG
1 ACCTAAACAAAATT-AATGAAAAGAAAAGAAAATTATACCCATCTTTAATAAAGTTGTAGTTAAG
* * * * *
65013587 AATTTATGTTTATCATAATCCTTTTATATTATACAAAATTTTCA
65 AATTGATATTTATCATAATACTTGTATATTATACAAAATTGTCA
65013631 A
1 A
65013632 ATACCATAAA
Statistics
Matches: 98, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
107 81 0.83
108 17 0.17
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (108 bp):
ACCTAAACAAAATTAATGAAAAGAAAAGAAAATTATACCCATCTTTAATAAAGTTGTAGTTAAGA
ATTGATATTTATCATAATACTTGTATATTATACAAAATTGTCA
Found at i:65026159 original size:27 final size:27
Alignment explanation
Indices: 65026128--65026305 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
65026118 TAAATTGTAC
65026128 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
65026155 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
65026181 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
65026209 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
65026237 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
65026264 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
65026291 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
65026306 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:65026242 original size:82 final size:81
Alignment explanation
Indices: 65026129--65026284 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
65026119 AAATTGTACA
* *
65026129 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
65026193 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
65026210 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
65026275 TGCGAGTTGA
65 TGCGAATTGA
65026285 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:65026296 original size:82 final size:81
Alignment explanation
Indices: 65026125--65026305 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
65026115 GATTAAATTG
* *
65026125 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
65026190 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
65026206 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
65026270 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
65026288 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
65026306 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:65034222 original size:27 final size:27
Alignment explanation
Indices: 65034191--65034368 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
65034181 TAAATTGTAC
65034191 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
65034218 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
65034244 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
65034272 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
65034300 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
65034327 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
65034354 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
65034369 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:65034305 original size:82 final size:81
Alignment explanation
Indices: 65034192--65034347 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
65034182 AAATTGTACA
* *
65034192 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
65034256 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
65034273 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
65034338 TGCGAGTTGA
65 TGCGAATTGA
65034348 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:65034359 original size:82 final size:81
Alignment explanation
Indices: 65034188--65034368 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
65034178 GATTAAATTG
* *
65034188 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
65034253 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
65034269 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
65034333 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
65034351 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
65034369 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:65075266 original size:31 final size:31
Alignment explanation
Indices: 65075231--65075293 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
65075221 AGGAAGTATG
65075231 TCATGATTCCCAAGTCTGTCATATCAAACAC
1 TCATGATTCCCAAGTCTGTCATATCAAACAC
65075262 TCATGATTCCCAAGTCTGTCATATCAAACAC
1 TCATGATTCCCAAGTCTGTCATATCAAACAC
65075293 T
1 T
65075294 TCCTGCATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.29, G:0.10, T:0.30
Consensus pattern (31 bp):
TCATGATTCCCAAGTCTGTCATATCAAACAC
Found at i:65084683 original size:29 final size:29
Alignment explanation
Indices: 65084647--65084752 Score: 85
Period size: 29 Copynumber: 3.7 Consensus size: 29
65084637 ATGTACATTA
65084647 AAACATAAGTGACTAAAATATAGCATTTC
1 AAACATAAGTGACTAAAATATAGCATTTC
* * * *
65084676 AAACATAAATCAGGCT--AACATAGCACGTT-
1 AAACATAAGT--GACTAAAATATAGCA-TTTC
* * *
65084705 -AACAATAAGTGGCTAAAATGTAACATTTC
1 AAAC-ATAAGTGACTAAAATATAGCATTTC
65084734 AAACATAAGTGACTAAAAT
1 AAACATAAGTGACTAAAAT
65084753 GTAATCTGAG
Statistics
Matches: 59, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
27 4 0.07
28 5 0.08
29 42 0.71
30 5 0.08
31 3 0.05
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.25
Consensus pattern (29 bp):
AAACATAAGTGACTAAAATATAGCATTTC
Found at i:65091673 original size:29 final size:28
Alignment explanation
Indices: 65091621--65091678 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
65091611 ATCAAAAAAT
65091621 TATATTTTTACTTAATTAAAATATTAATA
1 TATATTTTTACTTAATTAAAATA-TAATA
**
65091650 TATATTATTTACTT-ATTATCATATAATA
1 TATATT-TTTACTTAATTAAAATATAATA
65091678 T
1 T
65091679 TTTAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 6 0.23
29 13 0.50
30 7 0.27
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.53
Consensus pattern (28 bp):
TATATTTTTACTTAATTAAAATATAATA
Found at i:65091691 original size:24 final size:25
Alignment explanation
Indices: 65091664--65091711 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
65091654 TTATTTACTT
65091664 ATTATC-ATATAATATTTTA-ATAAA
1 ATTATCTAT-TAATATTTTAGATAAA
*
65091688 ATTATCTATTAATTTTTTAGATAA
1 ATTATCTATTAATATTTTAGATAA
65091712 TAATATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (25 bp):
ATTATCTATTAATATTTTAGATAAA
Found at i:65136795 original size:14 final size:15
Alignment explanation
Indices: 65136762--65136797 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
65136752 TTTATTTCTC
65136762 TTATTATCCTTAGTT
1 TTATTATCCTTAGTT
65136777 TTATTATCCTTAG-T
1 TTATTATCCTTAGTT
65136791 TTATTAT
1 TTATTAT
65136798 TATTTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.22, C:0.11, G:0.06, T:0.61
Consensus pattern (15 bp):
TTATTATCCTTAGTT
Found at i:65139244 original size:27 final size:27
Alignment explanation
Indices: 65139213--65139390 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
65139203 TAAATTGTAC
65139213 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
65139240 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
65139266 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
65139294 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
65139322 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
65139349 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
65139376 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
65139391 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:65139327 original size:82 final size:81
Alignment explanation
Indices: 65139214--65139369 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
65139204 AAATTGTACA
* *
65139214 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
65139278 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
65139295 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
65139360 TGCGAGTTGA
65 TGCGAATTGA
65139370 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:65139381 original size:82 final size:81
Alignment explanation
Indices: 65139210--65139390 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
65139200 GATTAAATTG
* *
65139210 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
65139275 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
65139291 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
65139355 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
65139373 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
65139391 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:65148085 original size:15 final size:16
Alignment explanation
Indices: 65148061--65148104 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
65148051 AAAATGCATA
65148061 ACAA-AATAATAATTC
1 ACAATAATAATAATTC
65148076 -CAATAATAATAA-TC
1 ACAATAATAATAATTC
*
65148090 ATAATAATAATAATT
1 ACAATAATAATAATT
65148105 TGGAGGGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 5 0.20
15 19 0.76
16 1 0.04
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (16 bp):
ACAATAATAATAATTC
Found at i:65151859 original size:22 final size:23
Alignment explanation
Indices: 65151820--65151864 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
65151810 AAAGAAAAGA
65151820 AAAATTAGTAATTAAAATAAAAAC
1 AAAATTAG-AATTAAAATAAAAAC
*
65151844 AAAATTA-AATTGAAATAAAAA
1 AAAATTAGAATTAAAATAAAAA
65151865 TGGCTAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
24 7 0.35
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.24
Consensus pattern (23 bp):
AAAATTAGAATTAAAATAAAAAC
Found at i:65155038 original size:15 final size:16
Alignment explanation
Indices: 65155014--65155045 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
65155004 ATATTATTTC
65155014 TTTTCTTTTTAGTTTT
1 TTTTCTTTTTAGTTTT
65155030 TTTTCTTTTT-GTTTT
1 TTTTCTTTTTAGTTTT
65155045 T
1 T
65155046 ATGTTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.03, C:0.06, G:0.06, T:0.84
Consensus pattern (16 bp):
TTTTCTTTTTAGTTTT
Found at i:65159066 original size:25 final size:25
Alignment explanation
Indices: 65159038--65159088 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
65159028 ATTCAACAAA
*
65159038 ACCCATGCTTGATCGAA-TTATATAT
1 ACCCATGCTTGA-CCAATTTATATAT
65159063 ACCCATGCTTGACCAATTTATATAT
1 ACCCATGCTTGACCAATTTATATAT
65159088 A
1 A
65159089 GGTCCCTAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 3 0.12
25 21 0.88
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (25 bp):
ACCCATGCTTGACCAATTTATATAT
Found at i:65161347 original size:28 final size:28
Alignment explanation
Indices: 65161307--65161363 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
65161297 CAGTATTGCT
65161307 AGGCAAACTACCTTGTGATCTTTCCGAA
1 AGGCAAACTACCTTGTGATCTTTCCGAA
*
65161335 AGGCAAACTACCTTGTGGTCTTTCCGAA
1 AGGCAAACTACCTTGTGATCTTTCCGAA
65161363 A
1 A
65161364 TTTGTTTAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (28 bp):
AGGCAAACTACCTTGTGATCTTTCCGAA
Found at i:65161903 original size:19 final size:19
Alignment explanation
Indices: 65161879--65161916 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
65161869 TTAGAATGTA
*
65161879 AAATTATACTAATATCTCT
1 AAATTATACTAACATCTCT
65161898 AAATTATACTAACATCTCT
1 AAATTATACTAACATCTCT
65161917 TTCGAGAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATTATACTAACATCTCT
Found at i:65162427 original size:13 final size:13
Alignment explanation
Indices: 65162409--65162442 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
65162399 TCAGAGTCGA
65162409 CTTCAATGGTTTT
1 CTTCAATGGTTTT
*
65162422 CTTCAAGTTGTTTT
1 CTTCAA-TGGTTTT
65162436 CTTCAAT
1 CTTCAAT
65162443 ATTATTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.53
Consensus pattern (13 bp):
CTTCAATGGTTTT
Found at i:65163411 original size:24 final size:23
Alignment explanation
Indices: 65163365--65163413 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
65163355 AATAACAAAG
* **
65163365 ATATTTATACTGATAAATGCTAA
1 ATATTTATACTAATAAAAACTAA
65163388 ATATATTATACTAATAAAAACTAA
1 ATAT-TTATACTAATAAAAACTAA
65163412 AT
1 AT
65163414 CTTATAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (23 bp):
ATATTTATACTAATAAAAACTAA
Found at i:65171506 original size:51 final size:51
Alignment explanation
Indices: 65171430--65171531 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
65171420 TTAGCTAGAG
65171430 CAAAGCTTCCAACTGTAAAATCAAGGTTTGTAGATGAAAAGTTGTAACCTC
1 CAAAGCTTCCAACTGTAAAATCAAGGTTTGTAGATGAAAAGTTGTAACCTC
65171481 CAAAGCTTCCAACTGTAAAATCAAGGTTTGTAGATGAAAAGTTGTAACCTC
1 CAAAGCTTCCAACTGTAAAATCAAGGTTTGTAGATGAAAAGTTGTAACCTC
65171532 TAAAACAGCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (51 bp):
CAAAGCTTCCAACTGTAAAATCAAGGTTTGTAGATGAAAAGTTGTAACCTC
Found at i:65171587 original size:34 final size:34
Alignment explanation
Indices: 65171549--65171657 Score: 82
Period size: 33 Copynumber: 3.2 Consensus size: 34
65171539 GCTAGCAAGA
*
65171549 GCAAAGCTCCTAGCTGTAAAATCAAGGTTTGTAG
1 GCAAAGCTCCCAGCTGTAAAATCAAGGTTTGTAG
* * * *
65171583 GCAAAAAGC-CACGACCTCTAAAAT--A-GTTAGTGAG
1 GC--AAAGCTC-CCAGCTGTAAAATCAAGGTTTGT-AG
* *
65171617 AGCAAAGCTCCCAGATGTAAAATCAAGGTTTATAG
1 -GCAAAGCTCCCAGCTGTAAAATCAAGGTTTGTAG
65171652 GCAAAG
1 GCAAAG
65171658 AGCTGCGACC
Statistics
Matches: 56, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
33 19 0.34
34 12 0.21
35 6 0.11
36 19 0.34
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.21
Consensus pattern (34 bp):
GCAAAGCTCCCAGCTGTAAAATCAAGGTTTGTAG
Found at i:65171590 original size:120 final size:120
Alignment explanation
Indices: 65171375--65171590 Score: 301
Period size: 120 Copynumber: 1.8 Consensus size: 120
65171365 ACTATTGTTG
* * *
65171375 GTAAAATCAAGGTTTACAAGTGAAAAGTCGTGACCTCAAAAACAGTTAGCTAGAGCAAAGCTTCC
1 GTAAAATCAAGGTTTACAAGTGAAAAGTCGTAACCTCAAAAACAGCTAGCAAGAGCAAAGCTTCC
**
65171440 AACTGTAAAATCAAGGTTTGTAGATGAAAAGTTGTAACCTCCAAAGCTTCCAACT
66 AACTGTAAAATCAAGGTTTGTAGACAAAAAGTTGTAACCTCCAAAGCTTCCAACT
** * *
65171495 GTAAAATCAAGGTTT-GTAGATGAAAAGTTGTAACCTCTAAAACAGCTAGCAAGAGCAAAGC-TC
1 GTAAAATCAAGGTTTACAAG-TGAAAAGTCGTAACCTCAAAAACAGCTAGCAAGAGCAAAGCTTC
* *
65171558 CTAGCTGTAAAATCAAGGTTTGTAGGCAAAAAG
65 C-AACTGTAAAATCAAGGTTTGTAGACAAAAAG
65171591 CCACGACCTC
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
119 5 0.06
120 78 0.94
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.24
Consensus pattern (120 bp):
GTAAAATCAAGGTTTACAAGTGAAAAGTCGTAACCTCAAAAACAGCTAGCAAGAGCAAAGCTTCC
AACTGTAAAATCAAGGTTTGTAGACAAAAAGTTGTAACCTCCAAAGCTTCCAACT
Found at i:65171600 original size:69 final size:69
Alignment explanation
Indices: 65171481--65171785 Score: 326
Period size: 69 Copynumber: 4.4 Consensus size: 69
65171471 TTGTAACCTC
* * ** ** * * *
65171481 CAAAGCTTCCAACTGTAAAATCAAGGTTTGTAGATG-AAA-AGTTGTAACCTCTAAAACAGCTAG
1 CAAAGCTCCCAGCTGTAAAATCAAGGTTTGTAG--GCAAAGAGCCGCGACCTCCAAAATAGTTAG
*
65171544 CAAGAG
64 CGAGAG
* * * * *
65171550 CAAAGCTCCTAGCTGTAAAATCAAGGTTTGTAGGCAAAAAGCCACGACCTCTAAAATAGTTAGTG
1 CAAAGCTCCCAGCTGTAAAATCAAGGTTTGTAGGCAAAGAGCCGCGACCTCCAAAATAGTTAGCG
65171615 AGAG
66 AGAG
* * *
65171619 CAAAGCTCCCAGATGTAAAATCAAGGTTTATAGGCAAAGAGCTGCGACCTCCAAAATAGTTAGCG
1 CAAAGCTCCCAGCTGTAAAATCAAGGTTTGTAGGCAAAGAGCCGCGACCTCCAAAATAGTTAGCG
65171684 AGAG
66 AGAG
* * * * **
65171688 CAAAGCTCTCAGCTATAAAATCAAGGTTCGTATGTGAAGAGCCGCGACCTCCAAAATAGTTAGCG
1 CAAAGCTCCCAGCTGTAAAATCAAGGTTTGTAGGCAAAGAGCCGCGACCTCCAAAATAGTTAGCG
65171753 AGAG
66 AGAG
* * * *
65171757 AAAAGCTCCCAACTGTACAATTAAGGTTT
1 CAAAGCTCCCAGCTGTAAAATCAAGGTTT
65171786 ACAGACGAAA
Statistics
Matches: 198, Mismatches: 36, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
67 1 0.01
68 3 0.02
69 194 0.98
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.22
Consensus pattern (69 bp):
CAAAGCTCCCAGCTGTAAAATCAAGGTTTGTAGGCAAAGAGCCGCGACCTCCAAAATAGTTAGCG
AGAG
Found at i:65176399 original size:225 final size:227
Alignment explanation
Indices: 65176001--65176452 Score: 809
Period size: 225 Copynumber: 2.0 Consensus size: 227
65175991 CTCATGTTTT
* *
65176001 TTTAATCTAGTGTTTCGATACGGTTGATCGAAGTACATCTCACTTAATATTTTATTTCTATACCT
1 TTTAATCTAGTGTTTCGATACGGTTGATCAAAGTACATCTCACTTAACATTTTATTTCTATACCT
* * *
65176066 ACTAGAAAGAATATGTAGGTTGATTGTTACAATTTCTTTCTCCAAGTCCAAGATTTTGGATCATA
66 ACCAGAAAGAATATATAGATTGATTGTTACAATTTCTTTCTCCAAGTCCAAGATTTTGGATCATA
65176131 CATGGCAAATGATCAATTCATAATGATTAATGGGTTTGAAAAGTACTATAATTTATGGAAGAAAA
131 CATGGCAAATGATCAATTCATAATGATTAATGGGTTTGAAAAGTACTATAATTTATGGAAGAAAA
65176196 AGGATTATCAACTAATGAGATTGATAAAGTAA
196 AGGATTATCAACTAATGAGATTGATAAAGTAA
* * *
65176228 TTTAATCTAGTGTTTTGGTACGGTTGATCAAAGTACATCTCACTTAACATTTTATTTCTGTACCT
1 TTTAATCTAGTGTTTCGATACGGTTGATCAAAGTACATCTCACTTAACATTTTATTTCTATACCT
*
65176293 ACCAGAAAGTATATATAGATTGATTGTTAC-ATTT-TTTCTCCAAGTCCAAGATTTTGGATCATA
66 ACCAGAAAGAATATATAGATTGATTGTTACAATTTCTTTCTCCAAGTCCAAGATTTTGGATCATA
65176356 CATGGCAAATGATCAATTCATAATGATTAATGGGTTTGAAAAGTACTATAATTTATGGAAGAAAA
131 CATGGCAAATGATCAATTCATAATGATTAATGGGTTTGAAAAGTACTATAATTTATGGAAGAAAA
65176421 AGGATTATCAACTAATGAGATTGATAAAGTAA
196 AGGATTATCAACTAATGAGATTGATAAAGTAA
65176453 ATATTATCCA
Statistics
Matches: 216, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
225 126 0.58
226 4 0.02
227 86 0.40
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (227 bp):
TTTAATCTAGTGTTTCGATACGGTTGATCAAAGTACATCTCACTTAACATTTTATTTCTATACCT
ACCAGAAAGAATATATAGATTGATTGTTACAATTTCTTTCTCCAAGTCCAAGATTTTGGATCATA
CATGGCAAATGATCAATTCATAATGATTAATGGGTTTGAAAAGTACTATAATTTATGGAAGAAAA
AGGATTATCAACTAATGAGATTGATAAAGTAA
Found at i:65184811 original size:66 final size:66
Alignment explanation
Indices: 65184705--65184839 Score: 225
Period size: 66 Copynumber: 2.0 Consensus size: 66
65184695 CCCTTTTAAG
* * *
65184705 TTTGTTATAGGAATTAATGTTCTTTGGAGATAGTCACAAAACTCGTTGAGATTGTCTTCATGTAA
1 TTTGTTATAGGAAGTAATGTTCTTTGGAGATAATCACAAAACTCGTTGAGATGGTCTTCATGTAA
65184770 T
66 T
* *
65184771 TTTGTTATAGGAAGTAATGTTCTTTGGAGATAATTACAAAACTTGTTGAGATGGTCTTCATGTAA
1 TTTGTTATAGGAAGTAATGTTCTTTGGAGATAATCACAAAACTCGTTGAGATGGTCTTCATGTAA
65184836 T
66 T
65184837 TTT
1 TTT
65184840 TTGACACTCA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (66 bp):
TTTGTTATAGGAAGTAATGTTCTTTGGAGATAATCACAAAACTCGTTGAGATGGTCTTCATGTAA
T
Found at i:65187454 original size:74 final size:72
Alignment explanation
Indices: 65187298--65187461 Score: 177
Period size: 74 Copynumber: 2.2 Consensus size: 72
65187288 TCTGTAATAA
* * * * * *
65187298 TAGAAAATAAAGACGGACTTTGTGTTACTTGTTACTTAGGTTTTTGCTGTACTTTGCATAAAAAA
1 TAGAAAATAAAAACAGACTTTGGGTTACTTATTACTTAGGTTTTTGCTGTACTTAGCACAAAAAA
65187363 TAAAGTT
66 TAAAGTT
* * ** *
65187370 TAGAAGATAAAAACAGACTTTTGGGTTACTTATTACTTATGTTTTATTTTGTACTTAGCACCAAA
1 TAGAAAATAAAAACAGAC-TTTGGGTTACTTATTACTTAGGTTTT-TGCTGTACTTAGCACAAAA
*
65187435 CAT-AAGCTT
64 AATAAAG-TT
*
65187444 TAGAAAATAAAAGCAGAC
1 TAGAAAATAAAAACAGAC
65187462 CTTCTGACTT
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
72 15 0.20
73 26 0.35
74 34 0.45
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.36
Consensus pattern (72 bp):
TAGAAAATAAAAACAGACTTTGGGTTACTTATTACTTAGGTTTTTGCTGTACTTAGCACAAAAAA
TAAAGTT
Found at i:65198278 original size:24 final size:22
Alignment explanation
Indices: 65198241--65198296 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 22
65198231 TCATAATATT
65198241 TTTTATATATTATATTATATATACA
1 TTTT-TATATTATA-TA-ATATACA
*
65198266 TTTTTATATTATATAATATATA
1 TTTTTATATTATATAATATACA
65198288 TTTTTATAT
1 TTTTTATAT
65198297 ATTTTTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 15 0.50
23 2 0.07
24 9 0.30
25 4 0.13
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTTATATTATATAATATACA
Found at i:65198297 original size:24 final size:24
Alignment explanation
Indices: 65198236--65198299 Score: 87
Period size: 24 Copynumber: 2.7 Consensus size: 24
65198226 ATCTGTCATA
*
65198236 ATAT-TTTTTATATATTATATTAT
1 ATATATTTTTATATATTATATAAT
*
65198259 ATATACATTTT-TATATTATATAAT
1 ATATA-TTTTTATATATTATATAAT
65198283 ATATATTTTTATATATT
1 ATATATTTTTATATATT
65198300 TTTATTTGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 8 0.23
24 23 0.66
25 4 0.11
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (24 bp):
ATATATTTTTATATATTATATAAT
Found at i:65210516 original size:176 final size:172
Alignment explanation
Indices: 65210285--65210668 Score: 522
Period size: 176 Copynumber: 2.2 Consensus size: 172
65210275 ATCTTCGATG
* * * * *
65210285 AGAAGCAAATTGAAGACATAGCAGATCTGACTTTCAGATGTTTTCATATCAAAGCAGATCCAAGA
1 AGAAGCAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGA
* * * *
65210350 TAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACCTTCA-A-GTG
66 TAACAGATCTGGCATCTCCATTTC-A-AGAGAG-AGCTACATAGCAGATCTAACCTTCAGACG-A
* *
65210413 TTTATACTGAAGCAGATCCAAGATGATTTGGGCATTCTTATGTTTACA
127 TTT-TACTGAAGCAGATCCAAGATGATTT-GGCATCCTTATGTTCACA
*
65210461 AGAAACAAATCGAAGACATAGCAGATTTGACTTTC-GAATGTTCTCACACCAAAGCAGATCCAAG
1 AGAAGCAAATCGAAGACATAGCAGATTTGACTTTCAG-ATGTTCTCACACCAAAGCAGATCCAAG
* *
65210525 ATAACAGATCTGGCATCTCCATTTCAATAGAGAGCTACATAGCAGATCTAACTTTCAGACGATTT
65 ATAACAGATCTGGCATCTCCATTTCAAGAGAGAGCTACATAGCAGATCTAACCTTCAGACGATTT
65210590 TACTGAAGCAGATCCAAGATGATTTGGCATCCTTATGTTCACA
130 TACTGAAGCAGATCCAAGATGATTTGGCATCCTTATGTTCACA
* * * *
65210633 AGGAGCAAATCGAAGACACAACAGATTTGGCTTTCA
1 AGAAGCAAATCGAAGACATAGCAGATTTGACTTTCA
65210669 CGCGTTTACG
Statistics
Matches: 185, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
172 46 0.25
173 47 0.25
174 8 0.04
175 3 0.02
176 81 0.44
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (172 bp):
AGAAGCAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGA
TAACAGATCTGGCATCTCCATTTCAAGAGAGAGCTACATAGCAGATCTAACCTTCAGACGATTTT
ACTGAAGCAGATCCAAGATGATTTGGCATCCTTATGTTCACA
Found at i:65212732 original size:17 final size:17
Alignment explanation
Indices: 65212702--65212749 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
65212692 TTTTTATATA
65212702 TTATATTA-TATATACAT
1 TTATATTATTATATA-AT
*
65212719 TTTTA-TATTATATAAT
1 TTATATTATTATATAAT
65212735 TTATATTATTATATA
1 TTATATTATTATATA
65212750 TTTTTATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 8 0.30
17 19 0.70
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATATTATTATATAAT
Found at i:65212739 original size:24 final size:25
Alignment explanation
Indices: 65212693--65212751 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
65212683 TCATAATATT
*
65212693 TTTTATATATTATATTATATATACA
1 TTTTATATATTATATAATATATACA
*
65212718 TTTT-TATATTATATAAT-T-TATA
1 TTTTATATATTATATAATATATACA
65212740 TTATTATATATT
1 TT-TTATATATT
65212752 TTTATTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 5 0.17
23 3 0.10
24 18 0.60
25 4 0.13
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (25 bp):
TTTTATATATTATATAATATATACA
Found at i:65212749 original size:19 final size:19
Alignment explanation
Indices: 65212703--65212750 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
65212693 TTTTATATAT
*
65212703 TATATTATATATACATTTT
1 TATATTATATATACATTTA
65212722 TATA-T-TATATA-ATTTA
1 TATATTATATATACATTTA
65212738 TATTATTATATAT
1 TA-TATTATATAT
65212751 TTTTATTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 6 0.24
17 8 0.32
18 2 0.08
19 9 0.36
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTATATATACATTTA
Found at i:65217921 original size:11 final size:11
Alignment explanation
Indices: 65217907--65217955 Score: 71
Period size: 11 Copynumber: 4.5 Consensus size: 11
65217897 TAATGAGATA
65217907 TTTTATTATTT
1 TTTTATTATTT
65217918 TTTTATTATTT
1 TTTTATTATTT
**
65217929 CATTATTATTT
1 TTTTATTATTT
65217940 TTTTATTATTT
1 TTTTATTATTT
*
65217951 ATTTA
1 TTTTA
65217956 GTATAAAAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTATTATTT
Found at i:65217937 original size:22 final size:22
Alignment explanation
Indices: 65217909--65217950 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
65217899 ATGAGATATT
65217909 TTATTATTTTTTTATTATTTCA
1 TTATTATTTTTTTATTATTTCA
65217931 TTATTATTTTTTTATTATTT
1 TTATTATTTTTTTATTATTT
65217951 ATTTAGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (22 bp):
TTATTATTTTTTTATTATTTCA
Found at i:65223194 original size:27 final size:27
Alignment explanation
Indices: 65223146--65223358 Score: 251
Period size: 27 Copynumber: 7.9 Consensus size: 27
65223136 GCGAGGCTGC
* *
65223146 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
65223173 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
65223199 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
65223226 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
65223253 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
65223280 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
65223307 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
65223334 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
65223359 GACGCTTCCT
Statistics
Matches: 163, Mismatches: 11, Indels: 24
0.82 0.06 0.12
Matches are distributed among these distances:
26 12 0.07
27 144 0.88
28 7 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:65223239 original size:54 final size:54
Alignment explanation
Indices: 65223164--65223358 Score: 347
Period size: 54 Copynumber: 3.6 Consensus size: 54
65223154 GTGACGAAGT
* *
65223164 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
65223218 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
65223272 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
65223326 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATCGTGGCATAGCCACCAG
65223359 GACGCTTCCT
Statistics
Matches: 137, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
53 5 0.04
54 132 0.96
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:65224986 original size:26 final size:26
Alignment explanation
Indices: 65224955--65225062 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
65224945 TGAAATGCCC
*
65224955 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
65224981 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
65225007 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
65225033 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
65225059 ATCA
1 ATCA
65225063 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:65228373 original size:21 final size:22
Alignment explanation
Indices: 65228348--65228389 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
65228338 CCAAATTCTC
65228348 TCAAA-TT-TCTCTCAATTTTTA
1 TCAAAGTTGTCTCT-AATTTTTA
65228369 TCAAAGTTGTCTCTAATTTTT
1 TCAAAGTTGTCTCTAATTTTT
65228390 GCAAAAAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.26, C:0.17, G:0.05, T:0.52
Consensus pattern (22 bp):
TCAAAGTTGTCTCTAATTTTTA
Found at i:65229553 original size:7 final size:7
Alignment explanation
Indices: 65229541--65229573 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
65229531 TAGTCGTTTC
65229541 GTATTTA
1 GTATTTA
65229548 GTATTTA
1 GTATTTA
65229555 GTATTTA
1 GTATTTA
65229562 GTATTTA
1 GTATTTA
65229569 GTATT
1 GTATT
65229574 GCCTATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:65230533 original size:21 final size:21
Alignment explanation
Indices: 65230479--65230522 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
65230469 CCACAACCAG
*
65230479 ATCCCCTACCGGAGGAACCACA
1 ATCCCC-ACCGGAGCAACCACA
65230501 ATCCCCACCGGAGCAACCACA
1 ATCCCCACCGGAGCAACCACA
65230522 A
1 A
65230523 CCCTCGCCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.34, C:0.43, G:0.16, T:0.07
Consensus pattern (21 bp):
ATCCCCACCGGAGCAACCACA
Found at i:65233946 original size:126 final size:126
Alignment explanation
Indices: 65233711--65234045 Score: 449
Period size: 126 Copynumber: 2.7 Consensus size: 126
65233701 TAGTCTAAGG
*
65233711 TTTTTTCAGATACCACTATAGCAAAAGAGCG-TCA-ATGTGGGAGCTTTTTTCCGAAATTTTACT
1 TTTTATCAGATACCACTATAGCAAAAGAGCGTTCACA--TGGGAGCTTTTTTCCGAAATTTTACT
* * *
65233774 GAAAATGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTA
64 GAAAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTA
* * * * *
65233837 TTTTATCAGAGACCACTGTAGCAAAACAGCGTTCACATGGGAGGTTTTTTCCAAAATTTTACTGA
1 TTTTATCAGATACCACTATAGCAAAAGAGCGTTCACATGGGAGCTTTTTTCCGAAATTTTACTGA
*
65233902 AAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTATTCAGAAATATCTTCTCAAAATTA
66 AAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTA
* * ** * * * * * *
65233963 TTTTATCAAATATCACTATAATAAAAGAGCATCCACGTGGAAGCTTTTTTCTGAAATTTTGCTGA
1 TTTTATCAGATACCACTATAGCAAAAGAGCGTTCACATGGGAGCTTTTTTCCGAAATTTTACTGA
*
65234028 AAGTGCATCATTCTTGAA
66 AAGTGCATCCTTCTTGAA
65234046 TGTGTTCATT
Statistics
Matches: 181, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
126 177 0.98
127 3 0.02
128 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (126 bp):
TTTTATCAGATACCACTATAGCAAAAGAGCGTTCACATGGGAGCTTTTTTCCGAAATTTTACTGA
AAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTCTCAAAATTA
Done.