Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 307 of 325
Found at i:99682903 original size:43 final size:43
Alignment explanation
Indices: 99682809--99682986 Score: 265
Period size: 43 Copynumber: 4.2 Consensus size: 43
99682799 AAAAAAAAAC
* *
99682809 TCATTGCATGCATATTAAAAAATAGGCAAC-AC--ACCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
*
99682849 TCATTGCATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
*
99682892 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAATAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
* *
99682935 TCATTGCATACATATTAAAAAA-AGTCAATAACTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
*
99682977 TCACTGCATG
1 TCATTGCATG
99682987 TGATCAGCAA
Statistics
Matches: 125, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
40 29 0.23
41 1 0.01
42 26 0.21
43 69 0.55
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (43 bp):
TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
Found at i:99684648 original size:15 final size:15
Alignment explanation
Indices: 99684623--99684671 Score: 71
Period size: 15 Copynumber: 3.2 Consensus size: 15
99684613 TTAGATGTAT
99684623 CACTATCACTACCAGA
1 CACT-TCACTACCAGA
99684639 CACTTCACTACCAGA
1 CACTTCACTACCAGA
* *
99684654 TACATCACTACCAGA
1 CACTTCACTACCAGA
99684669 CAC
1 CAC
99684672 GTTTTCTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 26 0.87
16 4 0.13
ACGTcount: A:0.37, C:0.39, G:0.06, T:0.18
Consensus pattern (15 bp):
CACTTCACTACCAGA
Found at i:99685165 original size:64 final size:64
Alignment explanation
Indices: 99684956--99685347 Score: 504
Period size: 64 Copynumber: 6.2 Consensus size: 64
99684946 TAGGAGCTTG
* * * * ** *
99684956 GATACAAACAATGACAGATATACACAATAAACATCAGTTTAATAAT-GTA-TAATTTAATTGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
* * * * * **
99685018 AATACAAATAATGGCAGATATACACAATAAACATCAGTTTAATAAT-GTA-TAATTTAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
* * * * *
99685080 AATACAAACAATTGTAGATATACACAATAAACATTAATTTGATAATGGCATTCATACAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
* *
99685144 GATACAAACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
* * * **
99685208 AATACAAACAATGGCAGATATATACAATAAAGATCAGTTTGATAATGGCATTCATACAATGATA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
* *
99685272 GATACAAACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGACATTCATACAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
99685336 GATACAAACAAT
1 GATACAAACAAT
99685348 AAACATCAAA
Statistics
Matches: 297, Mismatches: 31, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
62 98 0.33
63 2 0.01
64 197 0.66
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.26
Consensus pattern (64 bp):
GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGGCATTCATACAATGGCA
Found at i:99685234 original size:16 final size:16
Alignment explanation
Indices: 99685196--99685235 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
99685186 TAATGACATT
99685196 CATACAATGGCAAATA
1 CATACAATGGCAAATA
* *
99685212 CAAACAATGGCAGATA
1 CATACAATGGCAAATA
*
99685228 TATACAAT
1 CATACAAT
99685236 AAAGATCAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.20
Consensus pattern (16 bp):
CATACAATGGCAAATA
Found at i:99685265 original size:32 final size:32
Alignment explanation
Indices: 99685229--99685331 Score: 81
Period size: 32 Copynumber: 3.2 Consensus size: 32
99685219 TGGCAGATAT
99685229 ATACAATAAAGATCAGTTTGATAATGGCATTC
1 ATACAATAAAGATCAGTTTGATAATGGCATTC
* * *
99685261 ATACAATGATAGATACA----AACAATGGCAGATAT-
1 ATACAAT-AAAGAT-CAGTTTGATAATGGC--AT-TC
* *
99685293 ACACAATAAAGATCAGTTTGATAATGACATTC
1 ATACAATAAAGATCAGTTTGATAATGGCATTC
99685325 ATACAAT
1 ATACAAT
99685332 GGCAGATACA
Statistics
Matches: 52, Mismatches: 9, Indels: 20
0.64 0.11 0.25
Matches are distributed among these distances:
30 9 0.17
31 6 0.12
32 23 0.44
33 6 0.12
34 8 0.15
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.27
Consensus pattern (32 bp):
ATACAATAAAGATCAGTTTGATAATGGCATTC
Found at i:99685571 original size:12 final size:12
Alignment explanation
Indices: 99685488--99685576 Score: 65
Period size: 12 Copynumber: 7.4 Consensus size: 12
99685478 AAATAACCCT
*
99685488 AAATCGAAATCT
1 AAATCGAAATCA
99685500 AAATCGAAATCA
1 AAATCGAAATCA
99685512 AAATC-AAATTC-
1 AAATCGAAA-TCA
** * *
99685523 TCATCCTAAATTA
1 AAAT-CGAAATCA
*
99685536 AGATCGAAATCA
1 AAATCGAAATCA
*
99685548 AAATTGAAATCA
1 AAATCGAAATCA
*
99685560 AAATCTAAATCA
1 AAATCGAAATCA
*
99685572 GAATC
1 AAATC
99685577 AGTGAGTGTT
Statistics
Matches: 60, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
11 5 0.08
12 50 0.83
13 5 0.08
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.25
Consensus pattern (12 bp):
AAATCGAAATCA
Found at i:99685604 original size:12 final size:12
Alignment explanation
Indices: 99685587--99685629 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
99685577 AGTGAGTGTT
*
99685587 TCAAAATTGTAA
1 TCAAAATTGAAA
99685599 TCAAAATTGAAA
1 TCAAAATTGAAA
* **
99685611 TAAAAATCAAAA
1 TCAAAATTGAAA
99685623 TCAAAAT
1 TCAAAAT
99685630 CAAAATCGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.60, C:0.09, G:0.05, T:0.26
Consensus pattern (12 bp):
TCAAAATTGAAA
Found at i:99685617 original size:6 final size:6
Alignment explanation
Indices: 99685597--99685641 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
99685587 TCAAAATTGT
** * *
99685597 AATCAA AATTGA AATAAA AATCAA AATCAA AATCAA AATCGA AAT
1 AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA AAT
99685642 TAAATTTGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.64, C:0.11, G:0.04, T:0.20
Consensus pattern (6 bp):
AATCAA
Found at i:99686209 original size:31 final size:29
Alignment explanation
Indices: 99686170--99686242 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 29
99686160 TGTAACTATT
*
99686170 AGTTAGTGACTGTTTTGTCACTTTTTTATA
1 AGTTAGTGACTGTTTTGTCACTTTTTGA-A
* *
99686200 ACGTTAGTGACCGTTTTGTTACTTTTTGAA
1 A-GTTAGTGACTGTTTTGTCACTTTTTGAA
99686230 AGTTAAGTGACTG
1 AGTT-AGTGACTG
99686243 AAATAAAACC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 3 0.08
30 10 0.27
31 24 0.65
ACGTcount: A:0.22, C:0.11, G:0.21, T:0.47
Consensus pattern (29 bp):
AGTTAGTGACTGTTTTGTCACTTTTTGAA
Found at i:99688920 original size:673 final size:674
Alignment explanation
Indices: 99687672--99689018 Score: 2464
Period size: 673 Copynumber: 2.0 Consensus size: 674
99687662 AGTTGAGTTT
* * * *
99687672 TATTTTTTAGGGTTATGGTTTATGGTTTATAAAGTAGGATATTTTGGATTCAGGGTTTTGTTATT
1 TATTTTTTAGGGTTATGATTTATGGTTTATAAAATAGGATATTTTAGATTCAAGGTTTTGTTATT
99687737 TTTGGTTTAAAATTTTAAAGTTTATTATATATTATTTATTTTTATAATTTTTTGAAAGGTTAAAT
66 TTTGGTTTAAAATTTTAAAGTTTATTATATATTATTTATTTTTATAATTTTTTGAAAGGTTAAAT
*
99687802 AATAATATTATTGAATTCAAAATTTAAAAACATCATATTTACATCAATCATATATTTGAATTGCA
131 AATAATATTATTGAATTCAAAATTTAAAAACATCATATTTACACCAATCATATATTTGAATTGCA
*
99687867 AAATGCAATTCAATTCATAATCGAAACTCGAAGCACTCGGCTAGGATGAAATATTAGTTATTAAT
196 AAATGCAATTCAATTCATAATCGAAACTCGAAGCACTCGACTAGGATGAAATATTAGTTATTAAT
*
99687932 TTTTTCCGCATTTTTAATCTTAGTTTGATTCGATTTTTCAATAAATTATTTATCCTAGTACATTA
261 TTTTTCCGCATTTTTAATCTTAGTTTGATTCAATTTTTCAATAAATTATTTATCCTAGTACATTA
99687997 TTATCGACAAGAAGAGTTCAGAAAATATATCCCGGGATATATGATGGATTTCTTGGAAAAAGGTT
326 TTATCGACAAGAAGAGTTCAGAAAATATATCCCGGGATATATGATGGATTTCTTGGAAAAAGGTT
99688062 GGGGTTGAAACTTGTAGAGAAAAAATGCTCCAAGCATGCAAAAGCACTGGAAACACGTCCAACTG
391 GGGGTTGAAACTTGTAGAGAAAAAATGCTCCAAGCATGCAAAAGCACTGGAAACACGTCCAACTG
*
99688127 TAAGCGCTTTTAGCTGACATGGCACTAAAAATACTTCCAGCTGGATGTGCTTTCAGTGCTTTTGT
456 TAAGCGCTTTTAGCTGACATGGCACTAAAAATACTTCCAGCTGGATGTGCTTTCAGTGCTTTTGC
** *
99688192 TGGTAGTGCGTCCTATTTGGAATGTTTTCTCTCTACAAATTTCAACCCTTCACTAGGC-CAGGAA
521 TGACAGTGCGTCCTATTTGGAATGTTTTCTCTCTACAAATTTCAACCCCTCACTAGGCTCA-GAA
99688256 AATTTTCAAAACGAACTGCAAGTCACCCCCTAATCTATAAAAGTAACCTATTTCAGCATCGAGTG
585 AATTTTCAAAACGAACTGCAAGTCACCCCCTAATCTATAAAAGTAACCTATTTCAGCATCGAGTG
99688321 ACATAAG-CATTTACAAGCAAAGAA
650 ACATAAGCCATTTACAAGCAAAGAA
*
99688345 TATTTTTTAGGGTTATGATTTATGGTTTATAAAATAGGATATTTTAGATTTAAGGTTTTGTTATT
1 TATTTTTTAGGGTTATGATTTATGGTTTATAAAATAGGATATTTTAGATTCAAGGTTTTGTTATT
99688410 TTTGGTTTAAAATTTTAAAGTTTATTATATATTATTTATTTTTATAATTTTTTGAAAGGTTAAAT
66 TTTGGTTTAAAATTTTAAAGTTTATTATATATTATTTATTTTTATAATTTTTTGAAAGGTTAAAT
99688475 AATAATATTATTGAATTCAAAATTTAAAAACATCATATTTACACCAATCATATATTTGAATTGCA
131 AATAATATTATTGAATTCAAAATTTAAAAACATCATATTTACACCAATCATATATTTGAATTGCA
*
99688540 AAATGTAATTCAATTCATAATCGAAACTCGAAGCACTCGACTAGGATGAAATATTAGTTATTAAT
196 AAATGCAATTCAATTCATAATCGAAACTCGAAGCACTCGACTAGGATGAAATATTAGTTATTAAT
*
99688605 TTTTTCCGCATTTTTAATCTTAGTTTGATTCAATTTTTCAATAAATTATTTATCCTGGTACATTA
261 TTTTTCCGCATTTTTAATCTTAGTTTGATTCAATTTTTCAATAAATTATTTATCCTAGTACATTA
* * *
99688670 TTTTCGACAAGAAGAGTTCAGAAAATATATCCCGGGGTATATGATGGGTTTCTTGGAAAAAGGTT
326 TTATCGACAAGAAGAGTTCAGAAAATATATCCCGGGATATATGATGGATTTCTTGGAAAAAGGTT
* * *
99688735 GGGGTTGAAACTTGTAGAGAAAAAATGCTCCAAGCATGCAAAAGTACTGGAAACGCGTCCAACTT
391 GGGGTTGAAACTTGTAGAGAAAAAATGCTCCAAGCATGCAAAAGCACTGGAAACACGTCCAACTG
*
99688800 TAAGCGCTTTTAGCTGACATGGCACTGAAAATACTTCCAGCTGGATGTGCTTTCAGTGCTTTTGC
456 TAAGCGCTTTTAGCTGACATGGCACTAAAAATACTTCCAGCTGGATGTGCTTTCAGTGCTTTTGC
* *
99688865 TGACAGTGCGTCCTATTTGGAGTGTTTTCTCTCTACAAATTTCAACCCCTCACTAGGCTTAGAAA
521 TGACAGTGCGTCCTATTTGGAATGTTTTCTCTCTACAAATTTCAACCCCTCACTAGGCTCAGAAA
99688930 ATTTTCAAAACGAACTGCAAGTCACCCCCTAATCTATAAAAGTAACCTATTTCAGCATCGAGTGA
586 ATTTTCAAAACGAACTGCAAGTCACCCCCTAATCTATAAAAGTAACCTATTTCAGCATCGAGTGA
99688995 CATAAGCCATTTACAAGCAAAGAA
651 CATAAGCCATTTACAAGCAAAGAA
99689019 AATTGTAAGA
Statistics
Matches: 649, Mismatches: 23, Indels: 3
0.96 0.03 0.00
Matches are distributed among these distances:
673 631 0.97
674 18 0.03
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (674 bp):
TATTTTTTAGGGTTATGATTTATGGTTTATAAAATAGGATATTTTAGATTCAAGGTTTTGTTATT
TTTGGTTTAAAATTTTAAAGTTTATTATATATTATTTATTTTTATAATTTTTTGAAAGGTTAAAT
AATAATATTATTGAATTCAAAATTTAAAAACATCATATTTACACCAATCATATATTTGAATTGCA
AAATGCAATTCAATTCATAATCGAAACTCGAAGCACTCGACTAGGATGAAATATTAGTTATTAAT
TTTTTCCGCATTTTTAATCTTAGTTTGATTCAATTTTTCAATAAATTATTTATCCTAGTACATTA
TTATCGACAAGAAGAGTTCAGAAAATATATCCCGGGATATATGATGGATTTCTTGGAAAAAGGTT
GGGGTTGAAACTTGTAGAGAAAAAATGCTCCAAGCATGCAAAAGCACTGGAAACACGTCCAACTG
TAAGCGCTTTTAGCTGACATGGCACTAAAAATACTTCCAGCTGGATGTGCTTTCAGTGCTTTTGC
TGACAGTGCGTCCTATTTGGAATGTTTTCTCTCTACAAATTTCAACCCCTCACTAGGCTCAGAAA
ATTTTCAAAACGAACTGCAAGTCACCCCCTAATCTATAAAAGTAACCTATTTCAGCATCGAGTGA
CATAAGCCATTTACAAGCAAAGAA
Found at i:99692557 original size:19 final size:15
Alignment explanation
Indices: 99692511--99692552 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
99692501 CGATGAATTT
*
99692511 ATTGAATTTATATTG
1 ATTGAAATTATATTG
99692526 ATTGAAATTATATTG
1 ATTGAAATTATATTG
99692541 ATTG-AATTATAT
1 ATTGAAATTATAT
99692553 AATATATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 8 0.31
15 18 0.69
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:99692972 original size:21 final size:21
Alignment explanation
Indices: 99692937--99693053 Score: 162
Period size: 21 Copynumber: 5.5 Consensus size: 21
99692927 AGGCACTTTA
99692937 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
99692960 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
99692981 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
99693002 TGTGTCGTATCAGGCATCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
99693023 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
99693044 TGTGTCGTAT
1 TGTGTCGTAT
99693054 ACTGATCAGG
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
21 77 0.90
23 9 0.10
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:99711640 original size:21 final size:22
Alignment explanation
Indices: 99711614--99711660 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
99711604 CTCTGCTCAA
*
99711614 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
99711635 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
99711657 ACTC
1 ACTC
99711661 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:99716114 original size:16 final size:16
Alignment explanation
Indices: 99716064--99716114 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
99716054 AGTCCGTTAA
99716064 CCCCTTTGAAATACAT
1 CCCCTTTGAAATACAT
* *
99716080 CCCCCCTT-AAA-ATAT
1 -CCCCTTTGAAATACAT
99716095 CCCCTTTGAAATACAT
1 CCCCTTTGAAATACAT
99716111 CCCC
1 CCCC
99716115 CCCCCCCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
14 6 0.21
15 6 0.21
16 10 0.36
17 6 0.21
ACGTcount: A:0.29, C:0.39, G:0.04, T:0.27
Consensus pattern (16 bp):
CCCCTTTGAAATACAT
Found at i:99723344 original size:15 final size:15
Alignment explanation
Indices: 99723324--99723357 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
99723314 ACAGATCAGG
*
99723324 TCAGTTTTTGGTTTC
1 TCAGTTTTTGGTTGC
*
99723339 TCAGTTTTTTGTTGC
1 TCAGTTTTTGGTTGC
99723354 TCAG
1 TCAG
99723358 CCCTACTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.15, G:0.21, T:0.56
Consensus pattern (15 bp):
TCAGTTTTTGGTTGC
Found at i:99727622 original size:222 final size:222
Alignment explanation
Indices: 99727236--99727691 Score: 867
Period size: 222 Copynumber: 2.1 Consensus size: 222
99727226 AGGCTTTGTA
99727236 ATTTACAAAAAAAAAAAAAACATAATGAGAACTCCTTTTTATCAAAATAATATCACCCCAGCCCA
1 ATTTACAAAAAAAAAAAAAACATAATGAGAACTCCTTTTTATCAAAATAATATCACCCCAGCCCA
99727301 ATATGTAAGATGCAAGAATTCACAGACTTAAGAGTGATATAACAAATTTCCATAACGTGCAGTGG
66 ATATGTAAGATGCAAGAATTCACAGACTTAAGAGTGATATAACAAATTTCCATAACGTGCAGTGG
99727366 ATCATCAAATGTCTGATCATGGCAGGAAAAAGGAAACTCTCAGATTCAACAAGAAATACCTCCAG
131 ATCATCAAATGTCTGATCATGGCAGGAAAAAGGAAACTCTCAGATTCAACAAGAAATACCTCCAG
*
99727431 TGGTGCTTGGTAAACCATTCTCTCATC
196 TGCTGCTTGGTAAACCATTCTCTCATC
99727458 ATTTACAAAAAAAAAAAAAACATAATGAGAACTCCTTTTTATCAAAATAATATCACCCCAGCCCA
1 ATTTACAAAAAAAAAAAAAACATAATGAGAACTCCTTTTTATCAAAATAATATCACCCCAGCCCA
* *
99727523 ATATGTAAGATGCAAGAATTCACAGACTTAAGAGTGATATAAGAAATTTCCATAACGTGCGGTGG
66 ATATGTAAGATGCAAGAATTCACAGACTTAAGAGTGATATAACAAATTTCCATAACGTGCAGTGG
*
99727588 ATCATCAAATGTCTGATCATGGCAGGAAAAAGGAAGCTCTCAGATTCAACAAGAAATACCTCCAG
131 ATCATCAAATGTCTGATCATGGCAGGAAAAAGGAAACTCTCAGATTCAACAAGAAATACCTCCAG
99727653 TGCTGCTTGGTAAACCATTCTCTCATC
196 TGCTGCTTGGTAAACCATTCTCTCATC
*
99727680 ATTTACAGAAAA
1 ATTTACAAAAAA
99727692 TCTTTCTTCA
Statistics
Matches: 229, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
222 229 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.25
Consensus pattern (222 bp):
ATTTACAAAAAAAAAAAAAACATAATGAGAACTCCTTTTTATCAAAATAATATCACCCCAGCCCA
ATATGTAAGATGCAAGAATTCACAGACTTAAGAGTGATATAACAAATTTCCATAACGTGCAGTGG
ATCATCAAATGTCTGATCATGGCAGGAAAAAGGAAACTCTCAGATTCAACAAGAAATACCTCCAG
TGCTGCTTGGTAAACCATTCTCTCATC
Found at i:99730204 original size:7 final size:7
Alignment explanation
Indices: 99730192--99730224 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
99730182 TGACTATTAA
99730192 ATTAAAT
1 ATTAAAT
99730199 ATTAAAT
1 ATTAAAT
99730206 ATTAAA-
1 ATTAAAT
99730212 ATTAAAT
1 ATTAAAT
*
99730219 ACTAAA
1 ATTAAA
99730225 CTGAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (7 bp):
ATTAAAT
Found at i:99730215 original size:20 final size:19
Alignment explanation
Indices: 99730186--99730224 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
99730176 GTAATTTGAC
*
99730186 TATTAAATTAAATATTAAA
1 TATTAAATTAAATACTAAA
99730205 TATTAAAATTAAATACTAAA
1 TATT-AAATTAAATACTAAA
99730225 CTGAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
TATTAAATTAAATACTAAA
Found at i:99730217 original size:13 final size:14
Alignment explanation
Indices: 99730192--99730224 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
99730182 TGACTATTAA
99730192 ATTAAATATTAAAT
1 ATTAAATATTAAAT
99730206 ATTAAA-ATTAAAT
1 ATTAAATATTAAAT
*
99730219 ACTAAA
1 ATTAAA
99730225 CTGAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (14 bp):
ATTAAATATTAAAT
Found at i:99730503 original size:17 final size:18
Alignment explanation
Indices: 99730468--99730504 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
99730458 TATTAATATA
99730468 TAAATTTCAACATTTTAT
1 TAAATTTCAACATTTTAT
99730486 TAAATTT-AA-ATATTTAT
1 TAAATTTCAACAT-TTTAT
99730503 TA
1 TA
99730505 TTAATTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 9 0.50
18 7 0.39
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (18 bp):
TAAATTTCAACATTTTAT
Found at i:99731873 original size:9 final size:9
Alignment explanation
Indices: 99731859--99731890 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
99731849 ATAAGTATAA
99731859 AATTAACCG
1 AATTAACCG
99731868 AATTAACCG
1 AATTAACCG
*
99731877 AATTACCCG
1 AATTAACCG
99731886 AATTA
1 AATTA
99731891 TTTGTATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:99731924 original size:5 final size:6
Alignment explanation
Indices: 99731909--99731949 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
99731899 AAATTATATG
*
99731909 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
99731950 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:99735001 original size:131 final size:131
Alignment explanation
Indices: 99734768--99735032 Score: 390
Period size: 131 Copynumber: 2.0 Consensus size: 131
99734758 TAACTATTCA
*
99734768 TTTAAAAATTCTTTAAAACGAAGGCAATACTCAATGTTTGGCAATTCGGGAATCGTGCCCTATCG
1 TTTAAAAATTCTTCAAAACGAAGGCAATACTCAATGTTTGGCAATTCGGGAATCGTGCCCTATCG
* * *
99734833 TGCTGTGTTGCGATTTCCCATTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCATTCATG-T
66 TGCTGTGTTGCGATTTCCCATTTGTTCAAAACAATCGAATATTCCCTTAGAATTTCACTCATGTT
99734897 C
131 C
* * ** * *
99734898 TTTAAAATTTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATTGTGCCCTATC
1 TTTAAAAATTCTTCAAAACGAAGGCAATACTCAATGTTTGGCAATTC-GGGAATCGTGCCCTATC
* *
99734963 GTGCTAG-GTTGCGATTTCCTATTTGTTCAAAATAATCGAATATTCCCTTAGAATTTCACTCATG
65 GTGCT-GTGTTGCGATTTCCCATTTGTTCAAAACAATCGAATATTCCCTTAGAATTTCACTCATG
99735027 TTC
129 TTC
99735030 TTT
1 TTT
99735033 GAATTCTAAA
Statistics
Matches: 120, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
130 41 0.34
131 73 0.61
132 6 0.05
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (131 bp):
TTTAAAAATTCTTCAAAACGAAGGCAATACTCAATGTTTGGCAATTCGGGAATCGTGCCCTATCG
TGCTGTGTTGCGATTTCCCATTTGTTCAAAACAATCGAATATTCCCTTAGAATTTCACTCATGTT
C
Found at i:99735648 original size:17 final size:18
Alignment explanation
Indices: 99735623--99735659 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
99735613 TTTTTTTATT
99735623 AATTTTTTTGGTTAACCG
1 AATTTTTTTGGTTAACCG
99735641 AATTTTTTTGGTTAACCG
1 AATTTTTTTGGTTAACCG
99735659 A
1 A
99735660 CCGGTTTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.49
Consensus pattern (18 bp):
AATTTTTTTGGTTAACCG
Found at i:99738709 original size:57 final size:57
Alignment explanation
Indices: 99738647--99738760 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
99738637 TGCTCTACAA
99738647 AATCACTATCAAAGATGAATCTATTCCTACGCTTCCATAGTTTCCAACATAAAATAT
1 AATCACTATCAAAGATGAATCTATTCCTACGCTTCCATAGTTTCCAACATAAAATAT
99738704 AATCACTATCAAAGATGAATCTATTCCTACGCTTCCATAGTTTCCAACATAAAATAT
1 AATCACTATCAAAGATGAATCTATTCCTACGCTTCCATAGTTTCCAACATAAAATAT
99738761 TAAAGAGCAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.32
Consensus pattern (57 bp):
AATCACTATCAAAGATGAATCTATTCCTACGCTTCCATAGTTTCCAACATAAAATAT
Found at i:99748796 original size:31 final size:29
Alignment explanation
Indices: 99748760--99748832 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
99748750 ATTGTAAAAA
* *
99748760 TAGTCATTTTTATTTATTTAATATTACATTT
1 TAGTCATTTATATTTA--AAATATTACATTT
* *
99748791 TAGTCACTTATATTTAAAATATTATATTT
1 TAGTCATTTATATTTAAAATATTACATTT
99748820 TAGTCATTTATAT
1 TAGTCATTTATAT
99748833 ATTGATTTCG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 23 0.62
31 14 0.38
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (29 bp):
TAGTCATTTATATTTAAAATATTACATTT
Found at i:99759341 original size:14 final size:14
Alignment explanation
Indices: 99759322--99759348 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
99759312 GTACATGGTT
99759322 GAAAATCAGTAGAC
1 GAAAATCAGTAGAC
99759336 GAAAATCAGTAGA
1 GAAAATCAGTAGA
99759349 AAAACCCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.11, G:0.22, T:0.15
Consensus pattern (14 bp):
GAAAATCAGTAGAC
Found at i:99761532 original size:19 final size:21
Alignment explanation
Indices: 99761510--99761557 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
99761500 TCCCATTAGG
99761510 AAATTC-AA-GTTGGCACTTA
1 AAATTCTAATGTTGGCACTTA
*
99761529 AAA-TCTAATGTTGGTACTTA
1 AAATTCTAATGTTGGCACTTA
99761549 AAA-TCTAAT
1 AAATTCTAAT
99761558 TGAACTGCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 2 0.08
19 5 0.19
20 19 0.73
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (21 bp):
AAATTCTAATGTTGGCACTTA
Found at i:99761547 original size:20 final size:20
Alignment explanation
Indices: 99761518--99761557 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
99761508 GGAAATTCAA
99761518 GTTGGCACTTAAAATCTAAT
1 GTTGGCACTTAAAATCTAAT
*
99761538 GTTGGTACTTAAAATCTAAT
1 GTTGGCACTTAAAATCTAAT
99761558 TGAACTGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (20 bp):
GTTGGCACTTAAAATCTAAT
Found at i:99761703 original size:31 final size:29
Alignment explanation
Indices: 99761634--99761707 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
99761624 ACAAAATAAT
**
99761634 AACATAAGTGACTAAAATGTAACATTTCA
1 AACATAAGTGACTAAAATGTAACATAACA
*
99761663 AACATAAGTGACTAAAATGTAACCTGAAACA
1 AACATAAGTGACTAAAATGTAACAT--AACA
*
99761694 AACAAAAGTGACTA
1 AACATAAGTGACTA
99761708 TTTTTGTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (29 bp):
AACATAAGTGACTAAAATGTAACATAACA
Found at i:99761790 original size:18 final size:19
Alignment explanation
Indices: 99761767--99761804 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
99761757 ATTAATTAGT
99761767 ATCATCAATA-TTTTTGTA
1 ATCATCAATAGTTTTTGTA
99761785 ATCATCAATAGTTTTTGTA
1 ATCATCAATAGTTTTTGTA
99761804 A
1 A
99761805 ATATTAACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (19 bp):
ATCATCAATAGTTTTTGTA
Found at i:99763013 original size:17 final size:17
Alignment explanation
Indices: 99762979--99763022 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
99762969 TAATTGGTTG
* *
99762979 AGAAAATAATTTATTTA
1 AGAAAATAATTAAATTA
99762996 AGAAAATAATTAAATTA
1 AGAAAATAATTAAATTA
99763013 A-ATAAATAAT
1 AGA-AAATAAT
99763023 GCTTTGGGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 1 0.04
17 23 0.96
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (17 bp):
AGAAAATAATTAAATTA
Found at i:99767032 original size:25 final size:25
Alignment explanation
Indices: 99766958--99767023 Score: 114
Period size: 25 Copynumber: 2.6 Consensus size: 25
99766948 TATATATATT
* *
99766958 CGCACACATAGTGCCATAAAATTTC
1 CGCACACTTAGTGCCATACAATTTC
99766983 CGCACACTTAGTGCCATACAATTTC
1 CGCACACTTAGTGCCATACAATTTC
99767008 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
99767024 AGTCATTTCG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.24
Consensus pattern (25 bp):
CGCACACTTAGTGCCATACAATTTC
Found at i:99783913 original size:31 final size:31
Alignment explanation
Indices: 99783878--99783941 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
99783868 AGCTGAAAAT
99783878 TAACCAACAGTCTTGAAAACTAATTAACTGA
1 TAACCAACAGTCTTGAAAACTAATTAACTGA
*
99783909 TAACCAACAGTCTTGAAGACTAATTAACTGA
1 TAACCAACAGTCTTGAAAACTAATTAACTGA
99783940 TA
1 TA
99783942 CGTGAAACAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.27
Consensus pattern (31 bp):
TAACCAACAGTCTTGAAAACTAATTAACTGA
Found at i:99792118 original size:25 final size:26
Alignment explanation
Indices: 99792075--99792130 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 26
99792065 AAATATAGTG
* *
99792075 ATAAATTTAAATTATATTAATATTAA
1 ATAAATTTAAATTATATTAAAATAAA
99792101 ATAAATTT-AATTATATTAAAATAAA
1 ATAAATTTAAATTATATTAAAATAAA
99792126 ATAAA
1 ATAAA
99792131 AATCCACCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
ATAAATTTAAATTATATTAAAATAAA
Found at i:99802636 original size:57 final size:57
Alignment explanation
Indices: 99802568--99802682 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
99802558 TTATTTTTTT
*
99802568 TTAAATATCTTTAAATGATGTTGATAAGTTTTAACTCAATTAGTATAGGCGTTGTTG
1 TTAAATATCTTTAAATGATGTTGACAAGTTTTAACTCAATTAGTATAGGCGTTGTTG
*
99802625 TTAAATATCTTTAAATGATGTTGACGAGTTTTAACTCAATTAGTATAGGCGTTGTTG
1 TTAAATATCTTTAAATGATGTTGACAAGTTTTAACTCAATTAGTATAGGCGTTGTTG
99802682 T
1 T
99802683 CAATGCAGGA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.43
Consensus pattern (57 bp):
TTAAATATCTTTAAATGATGTTGACAAGTTTTAACTCAATTAGTATAGGCGTTGTTG
Found at i:99803470 original size:19 final size:20
Alignment explanation
Indices: 99803418--99803472 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
99803408 AGCTCGGCTC
99803418 AATAA-TTAAGCTT-AAAGTT
1 AATAACTTAA-CTTAAAAGTT
*
99803437 AATAACATATA-TTAAAAG-T
1 AATAACTTA-ACTTAAAAGTT
99803456 AATAACTTAACTTAAAA
1 AATAACTTAACTTAAAA
99803473 TATGTATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
18 1 0.03
19 22 0.73
20 6 0.20
21 1 0.03
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (20 bp):
AATAACTTAACTTAAAAGTT
Found at i:99808273 original size:30 final size:30
Alignment explanation
Indices: 99808237--99808302 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
99808227 AAAAGAATAA
99808237 CAAATTCAATTACGGAATAAACTTAAAAAT
1 CAAATTCAATTACGGAATAAACTTAAAAAT
99808267 CAAATTCAATTACGGAATAAACTTAAAAAT
1 CAAATTCAATTACGGAATAAACTTAAAAAT
99808297 CTAAAT
1 C-AAAT
99808303 AAATGCATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 31 0.89
31 4 0.11
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.27
Consensus pattern (30 bp):
CAAATTCAATTACGGAATAAACTTAAAAAT
Found at i:99809619 original size:29 final size:32
Alignment explanation
Indices: 99809568--99809633 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 32
99809558 CCAACTCGAA
99809568 TATATAATGTTATAAAAAATATTATAT-TAAT
1 TATATAATGTTATAAAAAATATTATATATAAT
* * *
99809599 TATAT-ATGTTA-AATAATTATTATATATATT
1 TATATAATGTTATAAAAAATATTATATATAAT
99809629 TATAT
1 TATAT
99809634 TAAATCACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 12 0.39
30 14 0.45
31 5 0.16
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (32 bp):
TATATAATGTTATAAAAAATATTATATATAAT
Found at i:99816094 original size:51 final size:51
Alignment explanation
Indices: 99816013--99816111 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
99816003 GATGCTAGGT
* *
99816013 TGGATCAGGCTGCTGAATCAAGAAAAGAAGTTGGAATATCTGGGAGAAGTG
1 TGGAGCAGGCTGCTGAATCAAGAAAAGAAGTTGGAATAACTGGGAGAAGTG
* *
99816064 TGGAGCAGGCTGCTGATTCAAGAAACGAAGTTGGAATAACTGGGAGAA
1 TGGAGCAGGCTGCTGAATCAAGAAAAGAAGTTGGAATAACTGGGAGAA
99816112 ATTTAGAGCC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.35, C:0.11, G:0.33, T:0.20
Consensus pattern (51 bp):
TGGAGCAGGCTGCTGAATCAAGAAAAGAAGTTGGAATAACTGGGAGAAGTG
Found at i:99816167 original size:60 final size:60
Alignment explanation
Indices: 99816071--99816240 Score: 216
Period size: 60 Copynumber: 2.8 Consensus size: 60
99816061 GTGTGGAGCA
* * * * * *
99816071 GGCTGCTGATTCAAGAAACGAAGTTGGAATAACTGGGAGAAATTTAGAGCCAAGTCAACT
1 GGCTGCTGAATCTAGAAAAGAAGTTGGAATAGCTGGGAGAAATTTAGAGCCAAGCCAACC
* *
99816131 TGCTGCTGAATCTAGAAAAGAAGTTGGAATAGCTGGGA-AGAGTTTAGAGCCAAGCCAACC
1 GGCTGCTGAATCTAGAAAAGAAGTTGGAATAGCTGGGAGA-AATTTAGAGCCAAGCCAACC
* * * *
99816191 GGCTGCTGAATCTAGAAAAGAAGCTGGAATAGTTGGGAGAACTTTGGAGC
1 GGCTGCTGAATCTAGAAAAGAAGTTGGAATAGCTGGGAGAAATTTAGAGC
99816241 AGGGAGCTGA
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
59 1 0.01
60 93 0.98
61 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.21
Consensus pattern (60 bp):
GGCTGCTGAATCTAGAAAAGAAGTTGGAATAGCTGGGAGAAATTTAGAGCCAAGCCAACC
Found at i:99827783 original size:14 final size:14
Alignment explanation
Indices: 99827764--99827790 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
99827754 TTTTTAATGC
99827764 CAAAAAAGAGAAAA
1 CAAAAAAGAGAAAA
99827778 CAAAAAAGAGAAA
1 CAAAAAAGAGAAA
99827791 TTCACAGAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.07, G:0.15, T:0.00
Consensus pattern (14 bp):
CAAAAAAGAGAAAA
Found at i:99828540 original size:31 final size:30
Alignment explanation
Indices: 99828472--99828542 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
99828462 AAAGTTGTTG
* * * **
99828472 ATTTAGTCCCTTTACTTTTATAATTTGTCA
1 ATTTAGTCCCTATACTTTGAAAATTTGAAA
99828502 ATATTAGTCCCTATACTTTGAAAATTTTGAAA
1 AT-TTAGTCCCTATACTTTGAAAA-TTTGAAA
99828534 ATTTAGTCC
1 ATTTAGTCC
99828543 TAACCCCAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 2 0.06
31 25 0.74
32 7 0.21
ACGTcount: A:0.30, C:0.15, G:0.08, T:0.46
Consensus pattern (30 bp):
ATTTAGTCCCTATACTTTGAAAATTTGAAA
Found at i:99836597 original size:12 final size:12
Alignment explanation
Indices: 99836580--99836604 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
99836570 CTCATGCATA
99836580 TGTGTGTTTGTG
1 TGTGTGTTTGTG
99836592 TGTGTGTTTGTG
1 TGTGTGTTTGTG
99836604 T
1 T
99836605 AATATATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.40, T:0.60
Consensus pattern (12 bp):
TGTGTGTTTGTG
Found at i:99837511 original size:22 final size:22
Alignment explanation
Indices: 99837486--99837534 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
99837476 TGATGTTGAG
99837486 GTATGGCAAAAATGAATTGTTT
1 GTATGGCAAAAATGAATTGTTT
99837508 GTATGGCAAAAATGAATTGTTT
1 GTATGGCAAAAATGAATTGTTT
99837530 GTATG
1 GTATG
99837535 TTTGTTCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (22 bp):
GTATGGCAAAAATGAATTGTTT
Found at i:99843493 original size:6 final size:6
Alignment explanation
Indices: 99843482--99843507 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
99843472 TATTCTGGCC
99843482 TGTCAT TGTCAT TGTCAT TGTCAT TG
1 TGTCAT TGTCAT TGTCAT TGTCAT TG
99843508 CGATATAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.19, T:0.50
Consensus pattern (6 bp):
TGTCAT
Found at i:99845727 original size:7 final size:7
Alignment explanation
Indices: 99845715--99845741 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
99845705 ATATATAAAG
99845715 AAATTTC
1 AAATTTC
99845722 AAATTTC
1 AAATTTC
99845729 AAATTTC
1 AAATTTC
99845736 AAATTT
1 AAATTT
99845742 TTTTCTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (7 bp):
AAATTTC
Found at i:99846466 original size:14 final size:15
Alignment explanation
Indices: 99846447--99846475 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
99846437 ATAATAATAA
99846447 ATTT-AATTTTTATT
1 ATTTAAATTTTTATT
99846461 ATTTAAATTTTTATT
1 ATTTAAATTTTTATT
99846476 CAATTTGGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTAAATTTTTATT
Found at i:99847436 original size:15 final size:17
Alignment explanation
Indices: 99847408--99847440 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
99847398 GATGAATATA
99847408 AAAAAATTTCATTAAAT
1 AAAAAATTTCATTAAAT
99847425 AAAAAA-TT-ATTAAAT
1 AAAAAATTTCATTAAAT
99847440 A
1 A
99847441 TTAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAAATTTCATTAAAT
Found at i:99847460 original size:22 final size:22
Alignment explanation
Indices: 99847418--99847481 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
99847408 AAAAAATTTC
* *
99847418 ATTAAATAAAAAATTATTAAAT
1 ATTAAAAAAAAAAATATTAAAT
99847440 ATTAAAAAAATAAAATA-TAAAT
1 ATTAAAAAAA-AAAATATTAAAT
***
99847462 ATTTTTAAAAAAAAT-TTAAA
1 ATTAAAAAAAAAAATATTAAA
99847482 ATATATAGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 9 0.26
22 21 0.60
23 5 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
ATTAAAAAAAAAAATATTAAAT
Found at i:99857818 original size:13 final size:13
Alignment explanation
Indices: 99857800--99857827 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
99857790 CTTCTCTTAA
99857800 AACCATCATATAG
1 AACCATCATATAG
99857813 AACCATCATATAG
1 AACCATCATATAG
99857826 AA
1 AA
99857828 ACCTGTAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.21, G:0.07, T:0.21
Consensus pattern (13 bp):
AACCATCATATAG
Found at i:99865005 original size:3 final size:3
Alignment explanation
Indices: 99864997--99865201 Score: 118
Period size: 3 Copynumber: 68.7 Consensus size: 3
99864987 GGGGAGAGTG
99864997 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA CTT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * * * * *
99865041 CTA TTA TT- CTA TTTA ATA TTA CTG TT- TTC TT- TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * *
99865084 TTA GTA GTA GTAA CGTA ATA GTG TTT TTA TTA TT- TTA TTA TTA TTA
1 TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
99865130 TT- TTA CCTTT TTA TTA CTA TTA TTA TTA TTA CTA TTA TTA TTA TTA
1 TTA TTA --TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
99865176 TTA TAA ATA TTA TAA ATA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
99865202 TTTTAAAACC
Statistics
Matches: 155, Mismatches: 35, Indels: 24
0.72 0.16 0.11
Matches are distributed among these distances:
2 13 0.08
3 134 0.86
4 6 0.04
5 2 0.01
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:99865552 original size:3 final size:3
Alignment explanation
Indices: 99865510--99865561 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
99865500 TAAGCTTTAG
* * *
99865510 ATT ACTT ATT ATT -TAT ATT AAT ATT ATC ATT ATC ATT ATT ATT ATT
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
99865556 ATT ATT
1 ATT ATT
99865562 TAGGTTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
2 1 0.03
3 35 0.88
4 4 0.10
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:99867144 original size:16 final size:16
Alignment explanation
Indices: 99867123--99867153 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
99867113 TATTATATTT
99867123 TTTATTAGATTTTTTG
1 TTTATTAGATTTTTTG
*
99867139 TTTATTGGATTTTTT
1 TTTATTAGATTTTTT
99867154 TTTGTATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.13, T:0.71
Consensus pattern (16 bp):
TTTATTAGATTTTTTG
Found at i:99867317 original size:16 final size:16
Alignment explanation
Indices: 99867296--99867347 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
99867286 TTTGGTTCGC
99867296 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
99867312 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
99867328 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
99867344 TGTA
1 TGTA
99867348 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:99867394 original size:45 final size:44
Alignment explanation
Indices: 99867328--99867422 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
99867318 GGATTAGAGG
* * *
99867328 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACAA-TGTTTGGTTGAA
* *
99867373 TGTAATGGAATAGAGGCGTAATAGTAAAACTATGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACAATGTTTGGTTGAA
99867417 TGTAAT
1 TGTAAT
99867423 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACAATGTTTGGTTGAA
Found at i:99867605 original size:18 final size:17
Alignment explanation
Indices: 99867584--99867618 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
99867574 TTATTATTTA
*
99867584 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
99867602 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
99867619 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:99867612 original size:28 final size:27
Alignment explanation
Indices: 99867542--99867614 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
99867532 TTTATTATCA
*
99867542 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
99867570 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
99867597 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
99867615 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:99867752 original size:18 final size:17
Alignment explanation
Indices: 99867731--99867765 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
99867721 TTATTATTAA
*
99867731 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
99867749 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
99867766 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:99867777 original size:147 final size:149
Alignment explanation
Indices: 99867503--99867777 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
99867493 ATGATTATTG
*
99867503 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
99867568 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
99867633 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
99867652 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
99867715 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
99867778 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 95 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:99867811 original size:61 final size:61
Alignment explanation
Indices: 99867746--99867933 Score: 185
Period size: 61 Copynumber: 3.1 Consensus size: 61
99867736 TTTTAATTAA
99867746 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * ** * * *
99867807 AATATATGATACTGTAA-AATATAAATTAA-AA-TAATAATTATTAAAT--ATATTA-T--AATT
1 AATATAT-A-A-TTTAATAAAAT-TCTTAATAATTAAT-ATTCTTATATGAAT-TTACTCAAATC
*
99867864 AA
60 AT
*
99867866 AATATATAATTTAATAAAATTCTTAATAATTAATAGTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
99867927 AATATAT
1 AATATAT
99867934 GATACTATAA
Statistics
Matches: 96, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
56 8 0.08
57 14 0.15
58 8 0.08
59 14 0.15
61 21 0.22
62 8 0.08
63 15 0.16
64 8 0.08
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:99867853 original size:120 final size:120
Alignment explanation
Indices: 99867709--99868006 Score: 492
Period size: 120 Copynumber: 2.5 Consensus size: 120
99867699 ATTTAATCAT
*
99867709 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAA-ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
99867774 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
65 ATTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
*
99867831 A-TTAAAATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
99867895 TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
99867950 ATTTGAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
99868007 TAAAATAATT
Statistics
Matches: 166, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
119 3 0.02
120 154 0.93
121 8 0.05
122 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.42
Consensus pattern (120 bp):
ATTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:99867870 original size:16 final size:16
Alignment explanation
Indices: 99867830--99867875 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
99867820 GTAAAATATA
99867830 AATTAAAATA-ATAAT
1 AATTAAAATATATAAT
* *
99867845 TATT-AAATATATTAT
1 AATTAAAATATATAAT
99867860 AATTAAAATATATAAT
1 AATTAAAATATATAAT
99867876 TTAATAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
14 5 0.20
15 10 0.40
16 10 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTAAAATATATAAT
Found at i:99868017 original size:54 final size:54
Alignment explanation
Indices: 99867824--99868017 Score: 144
Period size: 54 Copynumber: 3.4 Consensus size: 54
99867814 GATACTGTAA
* *
99867824 AATATAAA-TTAAAATAA-TAATTATTAAATATATTATAATTAAAATATATAATTT
1 AATA-AAATTTAAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTT
* * * *
99867878 AATAAAATTCT-TAATAATTAATAGTCT-TATATGAATTTACTCAAATCATAATATATGATACTA
1 AATAAAATT-TAAAATAATTAATA-T-TAAATAT--ATTT--T--AATTAAAATATATGAT--T-
99867941 T
54 T
* *
99867942 AAAAGAAAATTTGAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
1 --AATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
99867998 AATAAAATTTAAAATAATTA
1 AATAAAATTTAAAATAATTA
99868018 TAACTAATAA
Statistics
Matches: 109, Mismatches: 13, Indels: 36
0.69 0.08 0.23
Matches are distributed among these distances:
53 3 0.03
54 30 0.28
55 9 0.08
56 2 0.02
57 4 0.04
59 15 0.14
61 14 0.13
63 5 0.05
64 2 0.02
65 6 0.06
66 19 0.17
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (54 bp):
AATAAAATTTAAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTT
Found at i:99868744 original size:16 final size:16
Alignment explanation
Indices: 99868723--99868758 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
99868713 TAAGAAATCA
99868723 CAGCCATGTACTCCTG
1 CAGCCATGTACTCCTG
99868739 CAGCCATGTACTCCTG
1 CAGCCATGTACTCCTG
99868755 CAGC
1 CAGC
99868759 TCCTGAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.39, G:0.19, T:0.22
Consensus pattern (16 bp):
CAGCCATGTACTCCTG
Found at i:99872780 original size:31 final size:31
Alignment explanation
Indices: 99872745--99872810 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
99872735 GTCACTGAAT
99872745 TATTCGAAAA-TTTTCAATTAAGTCACTAGGC
1 TATTC-AAAAGTTTTCAATTAAGTCACTAGGC
* * * *
99872776 TATTCAAAAGTTTTTATTTAAGTCATTGGGC
1 TATTCAAAAGTTTTCAATTAAGTCACTAGGC
99872807 TATT
1 TATT
99872811 AAGTTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (31 bp):
TATTCAAAAGTTTTCAATTAAGTCACTAGGC
Found at i:99877915 original size:15 final size:15
Alignment explanation
Indices: 99877891--99877950 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 15
99877881 AAAACTTAAA
*
99877891 TTCAACACTTAATTT
1 TTCAATACTTAATTT
*
99877906 TTCAGTACTT-ATTT
1 TTCAATACTTAATTT
* *
99877920 TT-AATACTCATTTT
1 TTCAATACTTAATTT
**
99877934 TTCACCACTTAATTT
1 TTCAATACTTAATTT
99877949 TT
1 TT
99877951 TTAATCTAAC
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
13 5 0.15
14 11 0.32
15 18 0.53
ACGTcount: A:0.27, C:0.18, G:0.02, T:0.53
Consensus pattern (15 bp):
TTCAATACTTAATTT
Found at i:99878065 original size:3 final size:3
Alignment explanation
Indices: 99878057--99878091 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
99878047 AGTGAGTAGT
*
99878057 TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
99878092 TATAAATGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:99878354 original size:18 final size:19
Alignment explanation
Indices: 99878331--99878368 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
99878321 ACCCTTAAAA
*
99878331 TTGAATTATT-AAATTTTT
1 TTGAATGATTAAAATTTTT
*
99878349 TTGAATGCTTAAAATTTTT
1 TTGAATGATTAAAATTTTT
99878368 T
1 T
99878369 AAATATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.58
Consensus pattern (19 bp):
TTGAATGATTAAAATTTTT
Found at i:99885026 original size:25 final size:25
Alignment explanation
Indices: 99884979--99885027 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
99884969 TTGAAATATT
* * *
99884979 TTAATTCGATTAATATTTTAAAAAA
1 TTAATTCGATTAAAAATTAAAAAAA
99885004 TTAATTCGATTAAAAATTAAAAAA
1 TTAATTCGATTAAAAATTAAAAAA
99885028 TAAAAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (25 bp):
TTAATTCGATTAAAAATTAAAAAAA
Found at i:99885185 original size:16 final size:17
Alignment explanation
Indices: 99885155--99885187 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
99885145 TTAATTTTTG
99885155 TGATAAAAAACAAATGA
1 TGATAAAAAACAAATGA
*
99885172 TGATTAAAAA-AAATGA
1 TGATAAAAAACAAATGA
99885188 AAACCTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.64, C:0.03, G:0.12, T:0.21
Consensus pattern (17 bp):
TGATAAAAAACAAATGA
Found at i:99887797 original size:21 final size:21
Alignment explanation
Indices: 99887773--99887813 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
99887763 AATACAAAAC
*
99887773 AAAATATACACGTAATATATT
1 AAAATATACACATAATATATT
*
99887794 AAAATATATACATAATATAT
1 AAAATATACACATAATATAT
99887814 ATATATGATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (21 bp):
AAAATATACACATAATATATT
Found at i:99888854 original size:33 final size:33
Alignment explanation
Indices: 99888812--99888878 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
99888802 GGCTATTAGA
99888812 TTTTGACTCTCTATTTGGACTGTTTTCTGCCTT
1 TTTTGACTCTCTATTTGGACTGTTTTCTGCCTT
99888845 TTTTGACTCTCTATTTGGACTGTTTTCTGCCTT
1 TTTTGACTCTCTATTTGGACTGTTTTCTGCCTT
99888878 T
1 T
99888879 GATATTGCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.09, C:0.21, G:0.15, T:0.55
Consensus pattern (33 bp):
TTTTGACTCTCTATTTGGACTGTTTTCTGCCTT
Found at i:99897194 original size:10 final size:10
Alignment explanation
Indices: 99897179--99897204 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
99897169 AAGTAAATGA
99897179 TATTTATTAT
1 TATTTATTAT
99897189 TATTTATTAT
1 TATTTATTAT
99897199 TATTTA
1 TATTTA
99897205 AATAGATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TATTTATTAT
Found at i:99897580 original size:17 final size:17
Alignment explanation
Indices: 99897558--99897612 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 17
99897548 ATATTAAGTT
99897558 AATAAAATAAATAAAAG
1 AATAAAATAAATAAAAG
*
99897575 AATAAAATGAAAGACAAAAG
1 AATAAAAT--AA-ATAAAAG
99897595 AA-AAAA-AAAGTAAAAG
1 AATAAAATAAA-TAAAAG
99897611 AA
1 AA
99897613 CAGAGAAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
15 1 0.03
16 9 0.28
17 8 0.25
19 6 0.19
20 8 0.25
ACGTcount: A:0.76, C:0.02, G:0.11, T:0.11
Consensus pattern (17 bp):
AATAAAATAAATAAAAG
Found at i:99903179 original size:24 final size:20
Alignment explanation
Indices: 99903146--99903199 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 20
99903136 AAAAAGATAT
*
99903146 AAAACATAAATCTTCAAAAATA
1 AAAAAATAAAT-TT-AAAAATA
99903168 AATAAAATTAAA-TTAAAAATA
1 AA-AAAA-TAAATTTAAAAATA
99903189 AAAAAATAAAT
1 AAAAAATAAAT
99903200 GGACTCAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
19 4 0.14
20 4 0.14
21 9 0.32
22 4 0.14
23 3 0.11
24 4 0.14
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAAATAAATTTAAAAATA
Found at i:99903185 original size:21 final size:19
Alignment explanation
Indices: 99903161--99903199 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
99903151 ATAAATCTTC
99903161 AAAAATAAATAAAATTAAATT
1 AAAAATAAA-AAAA-TAAATT
99903182 AAAAATAAAAAAATAAAT
1 AAAAATAAAAAAATAAAT
99903200 GGACTCAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 4 0.22
21 9 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAATAAAAAAATAAATT
Found at i:99904938 original size:61 final size:59
Alignment explanation
Indices: 99904831--99904967 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 59
99904821 CAGTGTTAAC
* * * *
99904831 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATGGCCCTTTAC-AGTATC-AGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTAGGCCATAGACCTTTACAAG--TCGAGA-TATAT
* * *
99904892 TGGGCCTAGCCCATATCAGTATCAATCTAGGCCGTAGACTTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTAGGCCATAGACCT-TTACAAGTCGAGATATAT
*
99904952 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
99904968 TAACATAGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
60 50 0.77
61 13 0.20
62 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTAGGCCATAGACCTTTACAAGTCGAGATATAT
Found at i:99912576 original size:549 final size:550
Alignment explanation
Indices: 99910658--99912857 Score: 4071
Period size: 550 Copynumber: 4.0 Consensus size: 550
99910648 ATCAAATTTG
* * *
99910658 CAAGCTGACCTATTTGAGTTTCGAGCCCTTGAATTGATGCTTGCTGAATTTTAAGTGCTGTTTCG
1 CAAGCTGACCTATTTGAGTTTCGAGCCCTTGAATCGATGCTTGCTGATTTTTAAGTGCTATTTCG
* *
99910723 GTATTCTGAAAACGAGTTGT-TAACACCGAGATAAATTTTGTAAGCATCTCTTCAAGGTTCGGCT
66 GTATTCTAAAAATGAGTT-TCTAACACCGAGATAAATTTTGTAAGCATCTCTTCAAGGTTCGGCT
* * * *
99910787 TTTTCTCCTATTGGTAAGGTGGTTAATGAAAACCTAGAGGGTGTTGTGGTATTTGATTCCTTTGA
130 TTTTCTCCTGTTGGTAAGGTGGTTAATGAAAACCTAGAAGGTGTTGTGGTCTTTGATTCCTTGGA
* *
99910852 CCACCCCACGAAAAATTGGGATGGTTCCTCCAACCTGTATTGTAAGTGTTACTATAAGGGTTATT
195 CCACCCCACGAAAAATTGGGATGGTTCCTCCAACCTGCATTGTAAATGTTACTATAAGGGTTATT
* *
99910917 CTAAGGTATGGAATTGTTACCCATATAGTGGACTTGTTCTCCCTCGTTGCTGGGGTTGAAGGATG
260 CTAAGGTCTAGAATTGTTACCCATATAGTGGACTTGTTCTCCCTCGTTGCTGGGGTTGAAGGATG
*
99910982 GATAATCTGTGTTTTGCATTCCTCCTCTATTTGAATCACACCTCATCACTGGATGTACTTGAATA
325 GATAATCTGTGTTTTGCATTCCTCCTCCATTTGAATCACACCTCATCACTGGATGTACTTGAATA
*
99911047 GAATCATACAAACCATCAATATTTTTATTCAATACTTCCACCTGGTTAGATAGCATAGTGACCGC
390 GAATCATACAAACCATCAATATTTTTATTCAATACTTCCACCTAGTTAGATAGCATAGTGACCGC
*
99911112 GTCGAGGTTGAAAACACCAGTTGCTTTTGTTGGCTTTGTTCTCATTACTTGCCACTGATAGTTTT
455 GTCGAGGTTGAAAACACCAGTTGCTTTTGTTGGCTTTGTTCTCATTACTTGCCACTGATAGTTGT
99911177 TTAGTGACCTCTCTTCAATAAATTCGTAAGC
520 TTAGTGACCTCTCTTCAATAAATTCGTAAGC
*
99911208 CAAGCTGACCTATTTGAGTTTCGAGCCCTTGAATCGATGCTTGCTGATTTTTAAGTGCTGTTTCG
1 CAAGCTGACCTATTTGAGTTTCGAGCCCTTGAATCGATGCTTGCTGATTTTTAAGTGCTATTTCG
99911273 GTATTCTAAAAATGAGTTTCTAACACCGAGATAAATTTTGTAAGCATCTCTTCAAGGTTCGGCTT
66 GTATTCTAAAAATGAGTTTCTAACACCGAGATAAATTTTGTAAGCATCTCTTCAAGGTTCGGCTT
99911338 TTTCTCCTGTTGGTAAGGTGGTTAATGAAAACCTAGAAGGTGTTGTGGTCTTTGATTCCTTGGAC
131 TTTCTCCTGTTGGTAAGGTGGTTAATGAAAACCTAGAAGGTGTTGTGGTCTTTGATTCCTTGGAC
* **
99911403 CACCCCACGAAAAATTGGGATGGTTCTTAAAACCTGCATTGTAAATGTTACTATAAGGGTTATTC
196 CACCCCACGAAAAATTGGGATGGTTCCTCCAACCTGCATTGTAAATGTTACTATAAGGGTTATTC
99911468 TAAGGTCTAGAATTGTTACCCATATAGTGGACTTGTTCTCCCTCGTTGCTGGGGTTGAAGGATGG
261 TAAGGTCTAGAATTGTTACCCATATAGTGGACTTGTTCTCCCTCGTTGCTGGGGTTGAAGGATGG
99911533 ATAATCTGTGTTTTGCATTCCTCCTCCATTTGAATCACACCTCATCACTGGATGTACTTGAATAG
326 ATAATCTGTGTTTTGCATTCCTCCTCCATTTGAATCACACCTCATCACTGGATGTACTTGAATAG
*
99911598 AATCATACAAACCATCAATATTTTTATTCAATACTTCCACCTGGTTAGATAGCATAGTGACCGCG
391 AATCATACAAACCATCAATATTTTTATTCAATACTTCCACCTAGTTAGATAGCATAGTGACCGCG
99911663 TCGAGGTTGAAAACACCAGTTGCTTTTGTTGGCTTTGTTCTCATTACTTGCCACTGATAGTTGTT
456 TCGAGGTTGAAAACACCAGTTGCTTTTGTTGGCTTTGTTCTCATTACTTGCCACTGATAGTTGTT
99911728 TAGTGACCTCTCTTCAATAAATTCGTAAGC
521 TAGTGACCTCTCTTCAATAAATTCGTAAGC
99911758 CAAGCTGACCTATTTGAGTTTCGAGCCCTTGAATCGATGCTTGCTGATTTTTAAGTGCTATTTCG
1 CAAGCTGACCTATTTGAGTTTCGAGCCCTTGAATCGATGCTTGCTGATTTTTAAGTGCTATTTCG
99911823 GTATTCTAAAAATGAGTTTCTAACACCGAGATAAATTTTGTAAGCATCTCTTCAAGGTTCGGCTT
66 GTATTCTAAAAATGAGTTTCTAACACCGAGATAAATTTTGTAAGCATCTCTTCAAGGTTCGGCTT
* *
99911888 TTTCTCCTGTTGATAAGGTGGTTAATGAAAACCTAGAAGGTGTTGTGGTTTTTGATTCCTTGGAC
131 TTTCTCCTGTTGGTAAGGTGGTTAATGAAAACCTAGAAGGTGTTGTGGTCTTTGATTCCTTGGAC
*
99911953 CACCCCATGAAAAATTGGGATGGTTCCTCCAACCTGCATTGTAAATGTTACTATAAGGGTTATTC
196 CACCCCACGAAAAATTGGGATGGTTCCTCCAACCTGCATTGTAAATGTTACTATAAGGGTTATTC
99912018 TAAGGTCTAGAATTGTTACCCATATAGTGGACTTGTTCTCCCTCGTTGCTGGGGTTGAAGGATGG
261 TAAGGTCTAGAATTGTTACCCATATAGTGGACTTGTTCTCCCTCGTTGCTGGGGTTGAAGGATGG
99912083 ATAATCTGTGTTTTGCATTCCTCCTCCATTTGAATCACACCTCATCACTGGATGTACTTGAATAG
326 ATAATCTGTGTTTTGCATTCCTCCTCCATTTGAATCACACCTCATCACTGGATGTACTTGAATAG
99912148 AATCATACAAACCATCAATATTTTTATTCAATACTTCCACCTAGTTAGATAGCATAGTGACCGCG
391 AATCATACAAACCATCAATATTTTTATTCAATACTTCCACCTAGTTAGATAGCATAGTGACCGCG
99912213 TCGAGGTTGAAAACACCAGTTGCTTTTGTTGGCTTTGTTCTCATTACTTGCCACTGATAGTT-TT
456 TCGAGGTTGAAAACACCAGTTGCTTTTGTTGGCTTTGTTCTCATTACTTGCCACTGATAGTTGTT
99912277 TAGTGACCTCTCTTCAATAAATTCGTAAGC
521 TAGTGACCTCTCTTCAATAAATTCGTAAGC
99912307 CAAGCTGACCTATTTGAGTTTCGAGCCCTTGAATCGATGCTTGCTGATTTTTAAGTGCTATTTCG
1 CAAGCTGACCTATTTGAGTTTCGAGCCCTTGAATCGATGCTTGCTGATTTTTAAGTGCTATTTCG
* *
99912372 GTATTCTAAAAATGAGTTTCTAACACCGAGAAAAATTTTGTAAGCATCTCTTCAAGGTTCGACTT
66 GTATTCTAAAAATGAGTTTCTAACACCGAGATAAATTTTGTAAGCATCTCTTCAAGGTTCGGCTT
*
99912437 TTTCTCCTGTTGGTAAGGTGGTTAATGAAAACCTAGAAGGTGTTGTGGTCTTTGATTCCTTTGAC
131 TTTCTCCTGTTGGTAAGGTGGTTAATGAAAACCTAGAAGGTGTTGTGGTCTTTGATTCCTTGGAC
* * * *
99912502 CACCCCACGAAAAATTAGAATGGTTCCTCCAACCTACATTGTAAGTGTTACTATAAGGGTTATTC
196 CACCCCACGAAAAATTGGGATGGTTCCTCCAACCTGCATTGTAAATGTTACTATAAGGGTTATTC
*
99912567 TAAGGTCTAGAATTGTTACCCATATAGTGGACTTGTTCTTCCTCGTTGCTGGGGTTGAAGGATGG
261 TAAGGTCTAGAATTGTTACCCATATAGTGGACTTGTTCTCCCTCGTTGCTGGGGTTGAAGGATGG
99912632 ATAATCTGTGTTTTGCATTCCTCCTCCATTTGAATCACACCTCATCACTGGATGTACTTGAATAG
326 ATAATCTGTGTTTTGCATTCCTCCTCCATTTGAATCACACCTCATCACTGGATGTACTTGAATAG
99912697 AATCATACAAACCATCAATATTTTTATTCAATACTTCCACCTAGTTAGATAGCATAGTGACCGCG
391 AATCATACAAACCATCAATATTTTTATTCAATACTTCCACCTAGTTAGATAGCATAGTGACCGCG
*
99912762 TCGAGGTTGAAAACACCAGTTGTTTTTGTTGGCTTTGTTCTCATTACTTGCCACTGATAGTTGTT
456 TCGAGGTTGAAAACACCAGTTGCTTTTGTTGGCTTTGTTCTCATTACTTGCCACTGATAGTTGTT
*
99912827 TAGTGACCTCTCTTTAATAAATTCGTAAGC
521 TAGTGACCTCTCTTCAATAAATTCGTAAGC
99912857 C
1 C
99912858 TCTTTAGGTG
Statistics
Matches: 1610, Mismatches: 38, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
549 538 0.33
550 1072 0.67
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (550 bp):
CAAGCTGACCTATTTGAGTTTCGAGCCCTTGAATCGATGCTTGCTGATTTTTAAGTGCTATTTCG
GTATTCTAAAAATGAGTTTCTAACACCGAGATAAATTTTGTAAGCATCTCTTCAAGGTTCGGCTT
TTTCTCCTGTTGGTAAGGTGGTTAATGAAAACCTAGAAGGTGTTGTGGTCTTTGATTCCTTGGAC
CACCCCACGAAAAATTGGGATGGTTCCTCCAACCTGCATTGTAAATGTTACTATAAGGGTTATTC
TAAGGTCTAGAATTGTTACCCATATAGTGGACTTGTTCTCCCTCGTTGCTGGGGTTGAAGGATGG
ATAATCTGTGTTTTGCATTCCTCCTCCATTTGAATCACACCTCATCACTGGATGTACTTGAATAG
AATCATACAAACCATCAATATTTTTATTCAATACTTCCACCTAGTTAGATAGCATAGTGACCGCG
TCGAGGTTGAAAACACCAGTTGCTTTTGTTGGCTTTGTTCTCATTACTTGCCACTGATAGTTGTT
TAGTGACCTCTCTTCAATAAATTCGTAAGC
Found at i:99913591 original size:50 final size:50
Alignment explanation
Indices: 99913532--99913632 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
99913522 ATATCGGTCA
99913532 CGGCCTCTTGCTCTTCCTCTATATACTGTAGGCTTCGCCTTATTTCTCTT
1 CGGCCTCTTGCTCTTCCTCTATATACTGTAGGCTTCGCCTTATTTCTCTT
99913582 CGGCCTCTTGCTCTTCCTCTATATACTGTAGGCTTCGCCTTATTTCTCTT
1 CGGCCTCTTGCTCTTCCTCTATATACTGTAGGCTTCGCCTTATTTCTCTT
99913632 C
1 C
99913633 AATTTCTGCG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.10, C:0.33, G:0.14, T:0.44
Consensus pattern (50 bp):
CGGCCTCTTGCTCTTCCTCTATATACTGTAGGCTTCGCCTTATTTCTCTT
Found at i:99916533 original size:20 final size:21
Alignment explanation
Indices: 99916508--99916550 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
99916498 TGTAGAAGAG
*
99916508 TTGAACC-GATAAAAACTCAA
1 TTGAACCAGATAAAAAATCAA
*
99916528 TTGAACCAGGTAAAAAATCAA
1 TTGAACCAGATAAAAAATCAA
99916549 TT
1 TT
99916551 AAAAACATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.23
Consensus pattern (21 bp):
TTGAACCAGATAAAAAATCAA
Found at i:99917435 original size:21 final size:20
Alignment explanation
Indices: 99917402--99917440 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
99917392 AATATGTTTT
99917402 TTTTAAATAAAATGTTTTTAA
1 TTTTAAATAAAAT-TTTTTAA
* *
99917423 TTTTAATTTAAATTTTTT
1 TTTTAAATAAAATTTTTT
99917441 GTCATGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTAAATAAAATTTTTTAA
Found at i:99920841 original size:19 final size:19
Alignment explanation
Indices: 99920819--99920866 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
99920809 ATTATAGAAG
99920819 ATTTTAAAATTTT-TGTAAA
1 ATTTTAAAATTTTCT-TAAA
*
99920838 ATTTCAAAATTTTCTTAAA
1 ATTTTAAAATTTTCTTAAA
99920857 ATTATTAAAA
1 ATT-TTAAAA
99920867 ATTATTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (19 bp):
ATTTTAAAATTTTCTTAAA
Found at i:99920888 original size:30 final size:30
Alignment explanation
Indices: 99920854--99920924 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
99920844 AAATTTTCTT
*
99920854 AAAATTATTAAAAATTATTTAAA-TTA-TTTA
1 AAAATTATAAAAAATTA--TAAATTTATTTTA
99920884 AAAATTCA-AAAAAATTATAAATTTATTTTA
1 AAAATT-ATAAAAAATTATAAATTTATTTTA
99920914 AAAATTATAAA
1 AAAATTATAAA
99920925 TTTATTCCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
28 4 0.11
29 4 0.11
30 27 0.75
31 1 0.03
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (30 bp):
AAAATTATAAAAAATTATAAATTTATTTTA
Found at i:99920918 original size:20 final size:20
Alignment explanation
Indices: 99920893--99920930 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
99920883 AAAAATTCAA
99920893 AAAAATTATAAATTTATTTT
1 AAAAATTATAAATTTATTTT
99920913 AAAAATTATAAATTTATT
1 AAAAATTATAAATTTATT
99920931 CCATGATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAAATTATAAATTTATTTT
Found at i:99926493 original size:18 final size:18
Alignment explanation
Indices: 99926444--99926493 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
99926434 TACAAAATAG
99926444 ACCCACT-ACCCAAACCT
1 ACCCACTAACCCAAACCT
*
99926461 ACCCAAC-AGACCCAAACTT
1 ACCC-ACTA-ACCCAAACCT
99926480 ACCCACTAACCCAA
1 ACCCACTAACCCAA
99926494 TACTAACCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 4 0.14
18 10 0.36
19 14 0.50
ACGTcount: A:0.40, C:0.48, G:0.02, T:0.10
Consensus pattern (18 bp):
ACCCACTAACCCAAACCT
Found at i:99927700 original size:16 final size:16
Alignment explanation
Indices: 99927673--99927712 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
99927663 ATCTACATAG
99927673 TATTTT-TTTTAAAAT
1 TATTTTATTTTAAAAT
99927688 TATTTTATTTTAAAAT
1 TATTTTATTTTAAAAT
*
99927704 TATTATATT
1 TATTTTATT
99927713 ATGTTTACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTTATTTTAAAAT
Found at i:99927744 original size:3 final size:3
Alignment explanation
Indices: 99927736--99927829 Score: 50
Period size: 3 Copynumber: 30.3 Consensus size: 3
99927726 TAAATTTCTG
* * * *
99927736 TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTACA TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T TAT
* * *
99927784 TAT T-T ATAC TA- TATT TAA TAT TAT TAT TAT TA- TATT TAC TAT TAT
1 TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
99927829 T
1 T
99927830 TATAAATATT
Statistics
Matches: 69, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
2 5 0.07
3 53 0.77
4 11 0.16
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:99927762 original size:13 final size:13
Alignment explanation
Indices: 99927736--99927770 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
99927726 TAAATTTCTG
99927736 TATTATTA-TTAT
1 TATTATTACTTAT
*
99927748 TATTGTTACTTAT
1 TATTATTACTTAT
99927761 TATTATTACT
1 TATTATTACT
99927771 GTTATGTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (13 bp):
TATTATTACTTAT
Found at i:99927762 original size:19 final size:19
Alignment explanation
Indices: 99927738--99927774 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
99927728 AATTTCTGTA
*
99927738 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
99927757 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
99927775 TGTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:99927806 original size:21 final size:21
Alignment explanation
Indices: 99927780--99927833 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
99927770 TGTTATGTAC
99927780 ATATTATTTATACTATATTTA
1 ATATTATTTATACTATATTTA
*
99927801 ATATTA-TTATTATTATATTTA
1 ATATTATTTA-TACTATATTTA
*
99927822 CTATTATTTATA
1 ATATTATTTATA
99927834 AATATTAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 3 0.10
21 23 0.79
22 3 0.10
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATTATTTATACTATATTTA
Found at i:99932914 original size:12 final size:13
Alignment explanation
Indices: 99932899--99932928 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
99932889 AAAGGCGGCC
99932899 AAAAA-GGAAAGA
1 AAAAAGGGAAAGA
99932911 AAAAAGGGAAAGA
1 AAAAAGGGAAAGA
99932924 AAAAA
1 AAAAA
99932929 TAAAAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAAGGGAAAGA
Found at i:99934658 original size:64 final size:66
Alignment explanation
Indices: 99934551--99934680 Score: 192
Period size: 65 Copynumber: 2.0 Consensus size: 66
99934541 CATACAATAG
*
99934551 CACATCTAGTTAGGAGAATTTAATTTCATTTCAATCATAGCATCCTAATT-ATTTGACATAAGCA
1 CACATCTAGTTAGGAGAATTTAATTTCATCTCAATCATAGCATCCTAATTGATTTGACATAAGCA
99934615 T
66 T
* * * * *
99934616 CACATCTAGTTAGGAGCATTTGA-TTCATCTCGATCATAGCATCCTAATTGTTTTGGCATAAGCA
1 CACATCTAGTTAGGAGAATTTAATTTCATCTCAATCATAGCATCCTAATTGATTTGACATAAGCA
99934680 T
66 T
99934681 AGATACATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
64 24 0.41
65 34 0.59
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (66 bp):
CACATCTAGTTAGGAGAATTTAATTTCATCTCAATCATAGCATCCTAATTGATTTGACATAAGCA
T
Found at i:99935271 original size:45 final size:46
Alignment explanation
Indices: 99935214--99935310 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 46
99935204 AGTTGCAGGA
*
99935214 AGCAGA-CTGAAAATTAC-AGATCTTATCTCCATGTATAGGCTATAG
1 AGCAGATCTGAAAATGACGAG-TCTTATCTCCATGTATAGGCTATAG
* * *
99935259 AGCAGATC-GAAAATGGCGAGTCTTATCTCCATGTATCGGCTATGG
1 AGCAGATCTGAAAATGACGAGTCTTATCTCCATGTATAGGCTATAG
*
99935304 AGTAGAT
1 AGCAGAT
99935311 TTTAGCCACC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
45 42 0.93
46 3 0.07
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (46 bp):
AGCAGATCTGAAAATGACGAGTCTTATCTCCATGTATAGGCTATAG
Found at i:99935357 original size:177 final size:176
Alignment explanation
Indices: 99934817--99936083 Score: 1756
Period size: 177 Copynumber: 7.2 Consensus size: 176
99934807 AGTTGCAGTG
*
99934817 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGGAAATTACAGAT
1 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGAT
*
99934882 CTTATCTCCATGTATTGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCT
66 CTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCT
* * *
99934947 ATAGAGCATATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGA
131 ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAG-AAGA
* *
99934994 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGCAGGAAGAAGACTGAAAATTACAGAT
1 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGAT
* * **
99935059 ATTATCT-CATGTATCGGCTATGGAGTAGATCGAAAATGGTAAGTCTTATCTCCATGTATCGGCT
66 CTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCT
* *
99935123 ATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGAAAAA
131 ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAG-AAGA
*
99935170 AAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGAT
1 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGAT
* *
99935235 CTTATCTCCATGTATAGGCTATAGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCT
66 CTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCT
* * * * *
99935300 ATGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTTGTAGTG
131 ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGAAG-A
* *
99935347 GAGTAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAATTACAGAT
1 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGAT
*
99935412 CTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGG-GAAGTCTTATCTCCATTTATCGGC
66 CTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCG-AGTCTTATCTCCATGTATCGGC
* *
99935476 TATAGAGTAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGA
130 TATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAG-AAGA
* *
99935524 GAGCAGGTTGAAAATACAAGTCTTATCTTCCTGAAGTTACAGGAAGCAGACTGAAAATTACAGAT
1 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGAT
* * *
99935589 CTTATCTCCATGTATCGGCTATGGAGTAGATTGAAAATGGTGAGTCTTATCTCCATGTATCGGCT
66 CTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCT
99935654 ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGA
131 ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAG-AAGA
* *
99935701 GAGCAAGTTAAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGAT
1 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGAT
* * * * *
99935766 CTTATCTTCATGTATCGGCTATGAAGCGGATC-ATAAATGGCGAGTTTTATCTCCATGTATTGGC
66 CTTATCTCCATGTATCGGCTATGGAGCAGATCGA-AAATGGCGAGTCTTATCTCCATGTATCGGC
* * *
99935830 TATGGAGTAGATTTTGGCCACCAGCCTTATCTTTCTGAGGTAGTAAGA
130 TATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAG-AAGA
* * * * * * *
99935878 GAGTAGGTTGAAGGTACAAGTCTTATCTTCCAGAGGTAGCAAGAAAGCAGACTAAAAATTACAGA
1 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGC-AGGAAGCAGACTGAAAATTACAGA
* * *
99935943 TCTTA--T-C-----TC--C-ATGGAGCAGATTGAAAATGGCGAGTCTTATCTCCAAGTATTGGC
65 TCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGC
* ** * * * * * *
99935997 TATGGAGCATATTTTAGCCGTCAACCTTATCTCCCTGAAGTTGCAGTG
130 TATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGAAG-A
* *
99936045 GAGCAAGTTGAAG-TCACAA-ACATTATCTTCCTGAAGTTG
1 GAGCAGGTTGAAGAT-ACAAGTC-TTATCTTCCTGAAGTTG
99936084 TTGTAAGACT
Statistics
Matches: 983, Mismatches: 96, Indels: 32
0.88 0.09 0.03
Matches are distributed among these distances:
166 4 0.00
167 99 0.10
168 2 0.00
170 2 0.00
175 1 0.00
176 168 0.17
177 677 0.69
178 30 0.03
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (176 bp):
GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGAT
CTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATCTCCATGTATCGGCT
ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGAAGA
Found at i:99935970 original size:34 final size:34
Alignment explanation
Indices: 99935923--99935987 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
99935913 GTAGCAAGAA
*
99935923 AGCAGACTAAAAATTAC-AGATCTTATCTCCATGG
1 AGCAGACTAAAAATGACGAG-TCTTATCTCCATGG
* * *
99935957 AGCAGATTGAAAATGGCGAGTCTTATCTCCA
1 AGCAGACTAAAAATGACGAGTCTTATCTCCA
99935988 AGTATTGGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
34 24 0.92
35 2 0.08
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (34 bp):
AGCAGACTAAAAATGACGAGTCTTATCTCCATGG
Found at i:99939296 original size:13 final size:13
Alignment explanation
Indices: 99939278--99939311 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
99939268 TTAAAAAAAC
99939278 ATAATTTATACTA
1 ATAATTTATACTA
99939291 ATAATTTATACTA
1 ATAATTTATACTA
99939304 ATAATTTA
1 ATAATTTA
99939312 ACTCAAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (13 bp):
ATAATTTATACTA
Found at i:99940977 original size:37 final size:37
Alignment explanation
Indices: 99940915--99941019 Score: 133
Period size: 37 Copynumber: 2.8 Consensus size: 37
99940905 CTTTTAATAG
99940915 ATATTATGTATATATTTTTATATATTAT-TTTTAACTT-T
1 ATATTATGTATATATTTTTA-ATATTATATTTT--CTTAT
*
99940953 ATATTATGTATATATTTTTAATATTATATTTTTTTAT
1 ATATTATGTATATATTTTTAATATTATATTTTCTTAT
* * *
99940990 ATATTATGTACATATTTTCAATACTATATT
1 ATATTATGTATATATTTTTAATATTATATT
99941020 ATTTATGTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
36 2 0.03
37 35 0.57
38 24 0.39
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (37 bp):
ATATTATGTATATATTTTTAATATTATATTTTCTTAT
Found at i:99940993 original size:17 final size:17
Alignment explanation
Indices: 99940923--99940996 Score: 71
Period size: 16 Copynumber: 4.2 Consensus size: 17
99940913 AGATATTATG
99940923 TATATATTTTTATATAT
1 TATATATTTTTATATAT
*
99940940 TAT-TTTTAACTTTATATTAT
1 TATATATT---TTTATA-TAT
99940960 GTATATATTTTTA-ATAT
1 -TATATATTTTTATATAT
*
99940977 TATATTTTTTTATATAT
1 TATATATTTTTATATAT
99940994 TAT
1 TAT
99940997 GTACATATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
16 14 0.30
17 13 0.28
18 1 0.02
19 10 0.21
20 3 0.06
21 3 0.06
22 3 0.06
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (17 bp):
TATATATTTTTATATAT
Found at i:99941034 original size:27 final size:27
Alignment explanation
Indices: 99941004--99941056 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
99940994 TATGTACATA
99941004 TTTTCAATACTATATTAT-TTATGTATTT
1 TTTTC-ATAC-ATATTATCTTATGTATTT
*
99941032 TTTTCTTACATATTATCTTATGTAT
1 TTTTCATACATATTATCTTATGTAT
99941057 ATATATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
27 11 0.48
28 5 0.22
ACGTcount: A:0.26, C:0.09, G:0.04, T:0.60
Consensus pattern (27 bp):
TTTTCATACATATTATCTTATGTATTT
Found at i:99941227 original size:15 final size:15
Alignment explanation
Indices: 99941187--99941221 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
99941177 CATTTTGTAC
99941187 ATATTATGTATATAT
1 ATATTATGTATATAT
99941202 ATATTATGTATATAT
1 ATATTATGTATATAT
99941217 ATATT
1 ATATT
99941222 TAGTATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (15 bp):
ATATTATGTATATAT
Found at i:99941238 original size:19 final size:18
Alignment explanation
Indices: 99941188--99941238 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 18
99941178 ATTTTGTACA
99941188 TATTATGTATATATATAT
1 TATTATGTATATATATAT
*
99941206 TATGTATATATATATTTAGTAT
1 TAT-TATGTATATA--TA-TAT
99941228 TATTATGTATA
1 TATTATGTATA
99941239 CACTTTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 3 0.11
19 9 0.33
21 9 0.33
22 6 0.22
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (18 bp):
TATTATGTATATATATAT
Found at i:99943764 original size:20 final size:20
Alignment explanation
Indices: 99943735--99943775 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
99943725 TTTTTTATCA
99943735 AATGATTATTATTATTATTTT
1 AATGATTATTATTATT-TTTT
*
99943756 AATGA-TATTTTTATTTTTT
1 AATGATTATTATTATTTTTT
99943775 A
1 A
99943776 TACTTTTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 9 0.47
21 5 0.26
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
AATGATTATTATTATTTTTT
Found at i:99947344 original size:5 final size:5
Alignment explanation
Indices: 99947334--99947376 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
99947324 ATATTTGTGA
99947334 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
99947377 GAACATACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:99951771 original size:5 final size:5
Alignment explanation
Indices: 99951761--99951788 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
99951751 CAATTTGTGA
99951761 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
99951789 GGACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:99952141 original size:3 final size:3
Alignment explanation
Indices: 99952133--99952159 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
99952123 ATGTTTTTAC
99952133 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
99952160 TTTGGAATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:99952525 original size:3 final size:3
Alignment explanation
Indices: 99952519--99952580 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
99952509 ATTCATGTTG
99952519 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
99952567 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
99952581 TTACATTTTG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:99952920 original size:29 final size:27
Alignment explanation
Indices: 99952850--99952925 Score: 66
Period size: 28 Copynumber: 2.7 Consensus size: 27
99952840 AAAAATTCAA
*
99952850 AAAAATATAAAAACTATT-TTTAAAAATT
1 AAAAATA-AAAAA-AATTATTTAAAAATT
* **
99952878 AAAAATCATTAAAATTATTTAAAAAGTAT
1 AAAAATAAAAAAAATTATTTAAAAA-T-T
99952907 AAAAATAAAAAAAA-TATTT
1 AAAAATAAAAAAAATTATTT
99952926 TTTTAATTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
26 3 0.08
27 11 0.29
28 12 0.32
29 12 0.32
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (27 bp):
AAAAATAAAAAAAATTATTTAAAAATT
Found at i:99957890 original size:31 final size:30
Alignment explanation
Indices: 99957824--99957891 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
99957814 GTTAACAACC
** **
99957824 TAGTGACTTAAATAAATTTTTTGAATAGTT
1 TAGTGACTTAAATAAAACTTTCAAATAGTT
*
99957854 TAGTGACTTAAATGAAAACTTTCAAATATTT
1 TAGTGACTTAAAT-AAAACTTTCAAATAGTT
99957885 TAGTGAC
1 TAGTGAC
99957892 CAAATTGTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 13 0.41
31 19 0.59
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.41
Consensus pattern (30 bp):
TAGTGACTTAAATAAAACTTTCAAATAGTT
Found at i:99960084 original size:9 final size:10
Alignment explanation
Indices: 99960070--99960188 Score: 60
Period size: 10 Copynumber: 12.4 Consensus size: 10
99960060 AAATGGAAAG
99960070 AAAATATTA-
1 AAAATATTAT
99960079 AAAATATTAT
1 AAAATATTAT
*
99960089 AAAATTTTAGCT
1 AAAATATTA--T
*
99960101 AAAA-GTTATT
1 AAAATATTA-T
99960111 AAAATATTA-
1 AAAATATTAT
*
99960120 AAAAAATGT-T
1 AAAATAT-TAT
*
99960130 GAAA-ATTAT
1 AAAATATTAT
99960139 ACAAA-A-TAT
1 A-AAATATTAT
99960148 AAAAT-TTAT
1 AAAATATTAT
* *
99960157 TAAATATCAT
1 AAAATATTAT
99960167 AAAAT-TT-T
1 AAAATATTAT
*
99960175 AAAAAATTAT
1 AAAATATTAT
99960185 AAAA
1 AAAA
99960189 ACTATTAAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 25
0.70 0.10 0.20
Matches are distributed among these distances:
8 9 0.11
9 32 0.38
10 33 0.39
11 6 0.07
12 5 0.06
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (10 bp):
AAAATATTAT
Found at i:99960811 original size:11 final size:11
Alignment explanation
Indices: 99960805--99960836 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
99960795 TGAAATTTTC
99960805 TCAAAATTCTA
1 TCAAAATTCTA
99960816 TCAAAATTCTA
1 TCAAAATTCTA
99960827 TCAAAATTCT
1 TCAAAATTCT
99960837 TTGTTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:99961033 original size:48 final size:47
Alignment explanation
Indices: 99960969--99961080 Score: 147
Period size: 48 Copynumber: 2.3 Consensus size: 47
99960959 AGTGATAATT
99960969 TTAAATTTTCAATACTATTCGATATTATT-TTAATTTATGCAAATT-TAA
1 TTAAA-TTTCAATACTATTCGATATT-TTATTAATTTATGC-AATTATAA
* *
99961017 TTAAATTTGCAATACTATTTGATATTTTATTCATTTATGCAATTATAA
1 TTAAATTT-CAATACTATTCGATATTTTATTAATTTATGCAATTATAA
99961065 TTACAATTTCAATACT
1 TTA-AATTTCAATACT
99961081 GCTTGATTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
47 9 0.16
48 44 0.76
49 5 0.09
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (47 bp):
TTAAATTTCAATACTATTCGATATTTTATTAATTTATGCAATTATAA
Found at i:99961087 original size:48 final size:45
Alignment explanation
Indices: 99960969--99961103 Score: 146
Period size: 48 Copynumber: 2.8 Consensus size: 45
99960959 AGTGATAATT
*
99960969 TTAAATTTTCAATACTATTCGATATTATTTTAATTTATGCAAATTTAA
1 TTAAA-TTTCAATACTATT-GATATT-TTTTCATTTATGCAAATTTAA
99961017 TTAAATTTGCAATACTATTTGATATTTTATTCATTTATGC-AATTATAA
1 TTAAATTT-CAATACTA-TTGATATTTT-TTCATTTATGCAAATT-TAA
* *
99961065 TTACAATTTCAATACTGCTTGATTTTTTTTTCATTTATG
1 TTA-AATTTCAATACT-ATTGA-TATTTTTTCATTTATG
99961104 ATGTTTGCAT
Statistics
Matches: 77, Mismatches: 3, Indels: 14
0.82 0.03 0.15
Matches are distributed among these distances:
47 9 0.12
48 56 0.73
49 12 0.16
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.52
Consensus pattern (45 bp):
TTAAATTTCAATACTATTGATATTTTTTCATTTATGCAAATTTAA
Found at i:99962662 original size:18 final size:18
Alignment explanation
Indices: 99962639--99962682 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
99962629 TGCCAGGTAC
*
99962639 GTATCCTTGCCCTTATAT
1 GTATCCTTACCCTTATAT
*
99962657 GTATCCTAACCCTTATAT
1 GTATCCTTACCCTTATAT
*
99962675 GTTTCCTT
1 GTATCCTT
99962683 TTCCTAGTCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.18, C:0.27, G:0.09, T:0.45
Consensus pattern (18 bp):
GTATCCTTACCCTTATAT
Found at i:99966329 original size:126 final size:125
Alignment explanation
Indices: 99966177--99966684 Score: 827
Period size: 126 Copynumber: 4.0 Consensus size: 125
99966167 TTATAACCTC
* *
99966177 ATTTTTTTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTGTTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
* * *
99966242 ACAGTGCATCCTGCTTGAAGCATTTTCGGCACTATTTATTCAGAAACGTCTACTTAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCAGCACTATTT-TTCAGAAACGTCTACTCAGAATT
99966303 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
* * *
99966368 ACAGTACATCCTGCTTGAAACGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCAGCACTATTT-TTCAGAAACGTCTACTCAGAATT
* *
99966429 ATTTTTCTATGAACTACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTTTTCTAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
99966494 ACAGTGCATCCTGCTTGAAGCGTTTTCAGCACTATTTTTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCAGCACTA-TTTTTCAGAAACGTCTACTCAGAATT
* * *
99966555 ATTTTTCTACGAACTACTGTAGCAAAAGAACGTCCACGTGGGAGCTTTTTCTATAAATTTTGTTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
* * *
99966620 ACAGTGCATCCTGCTTGAAGCGTTTTCCAACACTATTTTTCCAGAAACATCTGCTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTT-CAGCACTATTTTT-CAGAAACGTCTACTCAGAATT
99966682 ATT
1 ATT
99966685 CTTGCAGAAA
Statistics
Matches: 359, Mismatches: 20, Indels: 5
0.93 0.05 0.01
Matches are distributed among these distances:
126 327 0.91
127 32 0.09
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (125 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTCAGCACTATTTTTCAGAAACGTCTACTCAGAATT
Found at i:99967008 original size:20 final size:20
Alignment explanation
Indices: 99966983--99967055 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
99966973 TCTTGTATGT
99966983 ATCAATTAACCTTAAATTTA
1 ATCAATTAACCTTAAATTTA
* *
99967003 ATCAATTAACCCTAAACCTTAA
1 ATCAATTAACCTTAAA--TTTA
*
99967025 ATCAA-T--CCAT-AATTTA
1 ATCAATTAACCTTAAATTTA
*
99967041 ATCAATTAACTTTAA
1 ATCAATTAACCTTAA
99967056 TACCCTAAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
16 8 0.20
17 1 0.02
18 2 0.05
19 5 0.12
20 16 0.39
21 1 0.02
22 8 0.20
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (20 bp):
ATCAATTAACCTTAAATTTA
Found at i:99975796 original size:18 final size:18
Alignment explanation
Indices: 99975773--99975807 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
99975763 GTCAATTCTA
99975773 AAATCAAATTAAAAATTT
1 AAATCAAATTAAAAATTT
* *
99975791 AAATCAATTTTAAAATT
1 AAATCAAATTAAAAATT
99975808 AGATTAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATCAAATTAAAAATTT
Found at i:99976193 original size:125 final size:128
Alignment explanation
Indices: 99976051--99976291 Score: 326
Period size: 127 Copynumber: 1.9 Consensus size: 128
99976041 AGTATATCAA
* * * * *
99976051 AGATATTATGTTATATACCACAATTT-TAAGGGA-ATACCAATATTTCTAAGAAATCTCATTAGA
1 AGATATTATGATATATACCACAATTTCAAAAGGATATACCAAAATTTCTAAGAAACCTCATTAGA
* **
99976114 AATTTTGGTATATC-AAATCATGTTACACAAGCTTTTACCAAAATTTTTAAGAGTTCAACTTT
66 AATTTTGGTATACCAAAATCATGTTACACAAGCTAATACCAAAATTTTTAAGAGTTCAACTTT
* * * * *
99976176 AGATATTTTGATATATACCACAATTTCAAAAGTATATATCAAAATTTCTAAGGAACCTCGTTAGA
1 AGATATTATGATATATACCACAATTTCAAAAGGATATACCAAAATTTCTAAGAAACCTCATTAGA
* *
99976241 AATTTTGGTATACCAAAATCATGTTGCACAAGCTAATACCAAGATTTTTAA
66 AATTTTGGTATACCAAAATCATGTTACACAAGCTAATACCAAAATTTTTAA
99976292 TGGATTGCTA
Statistics
Matches: 98, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
125 24 0.24
126 4 0.04
127 38 0.39
128 32 0.33
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (128 bp):
AGATATTATGATATATACCACAATTTCAAAAGGATATACCAAAATTTCTAAGAAACCTCATTAGA
AATTTTGGTATACCAAAATCATGTTACACAAGCTAATACCAAAATTTTTAAGAGTTCAACTTT
Found at i:99977400 original size:34 final size:34
Alignment explanation
Indices: 99977362--99977445 Score: 159
Period size: 34 Copynumber: 2.4 Consensus size: 34
99977352 AAAAATAATA
99977362 AATCGATTGTTATATTGGAATATAGCTTCTTTTG
1 AATCGATTGTTATATTGGAATATAGCTTCTTTTG
99977396 AATCGATTGTTATATTGGAATATAGCTTCTTTTG
1 AATCGATTGTTATATTGGAATATAGCTTCTTTTG
99977430 AATCGATTGTTTATAT
1 AATCGATTG-TTATAT
99977446 GTTTAAATCG
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 43 0.88
35 6 0.12
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.48
Consensus pattern (34 bp):
AATCGATTGTTATATTGGAATATAGCTTCTTTTG
Found at i:99985826 original size:30 final size:30
Alignment explanation
Indices: 99985790--99985890 Score: 157
Period size: 30 Copynumber: 3.4 Consensus size: 30
99985780 ACTTTTCTCA
*
99985790 ACTAGCCACACCTTTTCCACCACCAACTTC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
99985820 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
99985850 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
99985880 ACTAGTCACAC
1 ACTAGCCACAC
99985891 TTGCTCCATT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.28, C:0.48, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Done.