Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 211 of 410
Found at i:64442945 original size:119 final size:119
Alignment explanation
Indices: 64442733--64442949 Score: 314
Period size: 119 Copynumber: 1.8 Consensus size: 119
64442723 CGGATGATAA
* * *
64442733 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCCGAAGGCATTTG
* *
64442798 TCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
66 GCGAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
64442852 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCTGAAGGCATTT
1 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGCCCCGAAGGCATTT
64442916 GAGCGAG-TAGCTATATCC-GGCTAAATCCCGAAGG
65 G-GCGAGTTA-CTATATCCGGGCTAAATCCCGAAGG
64442950 TACTTGGTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
118 2 0.02
119 73 0.84
120 12 0.14
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCCGAAGGCATTTG
GCGAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:64447056 original size:37 final size:36
Alignment explanation
Indices: 64447005--64447091 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
64446995 TATGAAATCT
64447005 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
*
64447041 GTACCCGGACGTAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
64447078 TCACCCGGAACATA
1 T-ACCCGG-ACATA
64447092 TTTCTAAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.89
38 4 0.09
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:64447232 original size:49 final size:49
Alignment explanation
Indices: 64447160--64447705 Score: 940
Period size: 49 Copynumber: 11.2 Consensus size: 49
64447150 TTTACCACAT
64447160 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
64447209 ATATGTATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
64447258 ATATATATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
64447307 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
64447356 ATATAT-TCACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATAT-ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
64447405 ATATATATACA-TGTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
64447454 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
64447503 ATATAT-TCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATAT-ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
64447552 --ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
64447599 ATATATACACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
64447648 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
64447697 ATATATATA
1 ATATATATA
64447706 TCTCATACAT
Statistics
Matches: 477, Mismatches: 12, Indels: 16
0.94 0.02 0.03
Matches are distributed among these distances:
47 45 0.09
48 4 0.01
49 426 0.89
50 2 0.00
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.33
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:64455199 original size:40 final size:40
Alignment explanation
Indices: 64455144--64455355 Score: 306
Period size: 40 Copynumber: 5.3 Consensus size: 40
64455134 ATGATAACCA
* *
64455144 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCG
64455184 GGCTAAG-CTCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTC-CCGAAGGCATTTGTGCGAGTTACTATATCCG
64455224 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
64455264 GGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
64455304 GGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGATATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
*
64455343 GGCTAAATCCCGA
1 GGCTAAGTCCCGA
64455356 TGGTACTTGG
Statistics
Matches: 159, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
39 15 0.09
40 142 0.89
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:64459093 original size:101 final size:97
Alignment explanation
Indices: 64458924--64459300 Score: 321
Period size: 101 Copynumber: 3.8 Consensus size: 97
64458914 GCATAGTAGC
** * * *
64458924 CTGCACTTAGTACTACACATGCAACCT-ATCAAGCTGGTACACGTAGTATCCTACACTTATTACT
1 CTGCACTTAGTACTACACATGTGA-CTAAT-AAACTGGTACACGTAGTAGCCTACACTTAGTACT
*
64458988 ACACACGTGACTTATCCTTCTGATACACGTAGTAG
64 ACACACGTGACTTATCCTTC-GATACACGTAATAG
* * * *
64459023 CTTGCACTTAGTACTACACATGTGATCGAAGTAAACGGGTACACATAGTAGCCTGCACTTAGTAC
1 C-TGCACTTAGTACTACACATGTGA-CTAA-TAAACTGGTACACGTAGTAGCCTACACTTAGTAC
* * * * * * *
64459088 TACACAAGCGGCCTATCAATGCGGTACACGTAATAG
63 TACACACGTGACTTATC-CTTCGATACACGTAATAG
* * * * *
64459124 CCTGCACTTAGTACTACACACGTGACTTATCCATA-TGTTACACGTAGTAGCCTGCACTTAGTAC
1 -CTGCACTTAGTACTACACATGTGACTAAT--AAACTGGTACACGTAGTAGCCTACACTTAGTAC
* ** ** *
64459188 TACACACGTGA-TCGAAACTATCGAGTATGCATAATAGG
63 TACACACGTGACT-TATCCT-TCGA-TACACGTAATA-G
64459226 CTGCACTTAGTACTACACATGTGAACTAA-AAATCTGGTACACGTAGTAGCCTACACTTAGTACT
1 CTGCACTTAGTACTACACATGTG-ACTAATAAA-CTGGTACACGTAGTAGCCTACACTTAGTACT
*
64459290 ACACACATGAC
64 ACACACGTGAC
64459301 CTAAAACTGT
Statistics
Matches: 219, Mismatches: 44, Indels: 27
0.76 0.15 0.09
Matches are distributed among these distances:
99 5 0.02
100 61 0.28
101 144 0.66
102 9 0.04
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (97 bp):
CTGCACTTAGTACTACACATGTGACTAATAAACTGGTACACGTAGTAGCCTACACTTAGTACTAC
ACACGTGACTTATCCTTCGATACACGTAATAG
Found at i:64459172 original size:151 final size:152
Alignment explanation
Indices: 64458909--64459300 Score: 531
Period size: 151 Copynumber: 2.6 Consensus size: 152
64458899 GAAGCTCTCT
* *
64458909 AGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAA-GCTGGTACACGTAGTAT
1 AGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATGCTGGTACACGTAGTAG
* * * *
64458973 CCTACACTTATTACTACACACGTGACTTATCCTTCTGATACACGTAGTAGCTTGCACTTAGTACT
66 CCTACACTTAGTACTACACACGTGACTTATCCATATGATACACGTAGTAGCCTGCACTTAGTACT
* *
64459038 ACACATGTGATCG-AAGTAAACG
131 ACACACGTGATCGAAACT-AACG
* * * * *
64459060 GGTACACATAGTAGCCTGCACTTAGTACTACACAAGCGGCCTATCAATGC-GGTACACGTAATAG
1 AGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATGCTGGTACACGTAGTAG
* *
64459124 CCTGCACTTAGTACTACACACGTGACTTATCCATATGTTACACGTAGTAGCCTGCACTTAGTACT
66 CCTACACTTAGTACTACACACGTGACTTATCCATATGATACACGTAGTAGCCTGCACTTAGTACT
*
64459189 ACACACGTGATCGAAACTATCG
131 ACACACGTGATCGAAACTAACG
* * * * * **
64459211 AGTATGCATAATAGGCTGCACTTAGTACTACACATGTGAACTAAAAAT-CTGGTACACGTAGTAG
1 AGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATGCTGGTACACGTAGTAG
*
64459275 CCTACACTTAGTACTACACACATGAC
66 CCTACACTTAGTACTACACACGTGAC
64459301 CTAAAACTGT
Statistics
Matches: 208, Mismatches: 30, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
150 1 0.00
151 202 0.97
152 5 0.02
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (152 bp):
AGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATGCTGGTACACGTAGTAG
CCTACACTTAGTACTACACACGTGACTTATCCATATGATACACGTAGTAGCCTGCACTTAGTACT
ACACACGTGATCGAAACTAACG
Found at i:64459305 original size:50 final size:50
Alignment explanation
Indices: 64458917--64459306 Score: 309
Period size: 50 Copynumber: 7.8 Consensus size: 50
64458907 CTAGTACGCA
* ** ** *
64458917 TAGTAGCCTGCACTTAGTACTACACATGCAACCTATCAAGCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAAATCTGGTACACG
* * * * **** *
64458967 TAGTATCCTACACTTATTACTACACACGTGACTTATCCTTCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAAATCTGGTACACG
* * * * * *
64459017 TAGTAGCTTGCACTTAGTACTACACATGTGATCGAAGTAAA-CGGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA--AAATCTGGTACACG
* * * **
64459068 TAGTAGCCTGCACTTAGTACTACACAAGCGGCCTATCAATGC-GGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAAAT-CTGGTACACG
* * *** * *
64459118 TAATAGCCTGCACTTAGTACTACACACGTGACTTATCCATATGTTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAAATCTGGTACACG
* * * ** *
64459168 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTATC-GAGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAA-AATCTG-GTACACG
* * * *
64459219 TAATAGGCTGCACTTAGTACTACACATGTGAACTAAAAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAAATCTGGTACACG
* *
64459269 TAGTAGCCTACACTTAGTACTACACACATGACCTAAAA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAA
64459307 CTGTCTTAAA
Statistics
Matches: 262, Mismatches: 70, Indels: 16
0.75 0.20 0.05
Matches are distributed among these distances:
49 2 0.01
50 185 0.71
51 75 0.29
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAAATCTGGTACACG
Found at i:64459730 original size:19 final size:20
Alignment explanation
Indices: 64459702--64459748 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
64459692 AAGAACATGT
64459702 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
64459723 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
64459742 TATATAT
1 TATATAT
64459749 ATATATACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:64461370 original size:11 final size:11
Alignment explanation
Indices: 64461354--64461379 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
64461344 CGAAGCCTAC
64461354 ATCACAATAAT
1 ATCACAATAAT
64461365 ATCACAATAAT
1 ATCACAATAAT
64461376 ATCA
1 ATCA
64461380 TACGTACAAT
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:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:64462090 original size:28 final size:30
Alignment explanation
Indices: 64462058--64462131 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 30
64462048 CATGCTTATG
*
64462058 GCCCACTAGGCCCAATCTCA-TTC-ATATC
1 GCCCACTAGGCCCAATCTCAGATCTATATC
* * *
64462086 GCCCATTAGGCCCAA-ATCAGATCTATATG
1 GCCCACTAGGCCCAATCTCAGATCTATATC
64462115 GCCCACTAGGCCCAATC
1 GCCCACTAGGCCCAATC
64462132 ACTTTTATAG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
27 3 0.08
28 16 0.43
29 18 0.49
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.22
Consensus pattern (30 bp):
GCCCACTAGGCCCAATCTCAGATCTATATC
Found at i:64462140 original size:28 final size:28
Alignment explanation
Indices: 64462054--64462140 Score: 102
Period size: 28 Copynumber: 3.1 Consensus size: 28
64462044 CATACATGCT
* *
64462054 TATGGCCCACTAGGCCCAATCTCATTCA
1 TATGGCCCACTAGGCCCAATCACATTTA
* * * *
64462082 TATCGCCCATTAGGCCCAAATCAGATCTA
1 TATGGCCCACTAGGCCC-AATCACATTTA
*
64462111 TATGGCCCACTAGGCCCAATCACTTTTA
1 TATGGCCCACTAGGCCCAATCACATTTA
64462139 TA
1 TA
64462141 GTCATGCTCA
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
28 25 0.53
29 22 0.47
ACGTcount: A:0.28, C:0.32, G:0.14, T:0.26
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATTTA
Found at i:64462391 original size:24 final size:24
Alignment explanation
Indices: 64462364--64462410 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
64462354 TTTAGCTTTT
64462364 GGCATTTCAGCTTTTTGGCATTTC
1 GGCATTTCAGCTTTTTGGCATTTC
*
64462388 GGCATTTCAGCTTTTTGGGATTT
1 GGCATTTCAGCTTTTTGGCATTT
64462411 ACCGATCTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.13, C:0.17, G:0.23, T:0.47
Consensus pattern (24 bp):
GGCATTTCAGCTTTTTGGCATTTC
Found at i:64463856 original size:406 final size:404
Alignment explanation
Indices: 64462946--64464157 Score: 2187
Period size: 406 Copynumber: 3.0 Consensus size: 404
64462936 AGATCTAATT
*
64462946 CACTTACCGATTGCGAGATCGCTTGCCAACAAGAAATCAAACCCCCAAAGTGTATGACTCATCTT
1 CACTTACCGATTGCGAGATCGCTTGCCAACAAGAAATCAAACCCCCAAAGTGTATGACTCGTCTT
64463011 TTAAATGAAAAAGAAAAAGTTGGCTAAGTTGAAGAGGGAAGAGGTTGATTCGATTAAAATAGGGA
66 TTAAATGAAAAAGAAAAAGTTGGCTAAGTTGAAGAGGGAAGAGGTTGATTCGATTAAAATAGGGA
*
64463076 AGAAAAGATCAAGAGTTTGGCTTAAAGAAAAGAGGAGATGATATGCGACTAAAGCACACAAAAAC
131 AGAAAAGATCAAGAGTTTGGCTTAAAGAAAAGAGGAGATGATATGCGACTGAAGCACACAAAAAC
64463141 AACAAATGCCCTTACTTGCCCATACGACACACATATATATACTAAAAATAAATAAATAAATAAAT
196 AACAAATGCCCTTACTTGCCCATACGACACACATATATATACTAAAAATAAATAAATAAATAAAT
*
64463206 AAAAATACAAACCTACACTCCTCAATCGACTTAAACTCGTCCAGTTAAATTCCCTTCAATTTCTC
261 AAAAATACAAACCTACACTCCCCAATCGACTTAAACTCGTCCAGTTAAATTCCCTTCAATTTCTC
64463271 CAATTTTTATCATCATCATATCCACACTTAATCCTCATCCTAATCCCCTTGATTTTAGCCAACAA
326 CAATTTTTATCATCATCATATCCACACTTAATCCTCATCCTAATCCCCTTGATTTTAGCCAACAA
64463336 TTCCAATTTGAATG
391 TTCCAATTTGAATG
* * *
64463350 CACTTACCGATTGCAAGATCACTTGCCAACAAGAAATCAAACCCCCAAAGTGTATGACTTGTCTT
1 CACTTACCGATTGCGAGATCGCTTGCCAACAAGAAATCAAACCCCCAAAGTGTATGACTCGTCTT
* * *
64463415 TTAAATGAAAAAGAAACAGTTGGCTAAGCTGAAGAGGGAAGAGGTTGATTCAATTAAAATAGGGA
66 TTAAATGAAAAAGAAAAAGTTGGCTAAGTTGAAGAGGGAAGAGGTTGATTCGATTAAAATAGGGA
64463480 AGAAAAGATCAAGAGTTTGGCTTAAAGAAAAGAGGAGATGATATGCGACTGAAGCACACAAAAA-
131 AGAAAAGATCAAGAGTTTGGCTTAAAGAAAAGAGGAGATGATATGCGACTGAAGCACACAAAAAC
*
64463544 AACAAATGCCCTTACTTGCCCATACGACACAAATATATATACTAAAAATAAATAAATAAATAAAT
196 AACAAATGCCCTTACTTGCCCATACGACACACATATATATACTAAAAATAAATAAATAAATAAAT
64463609 AAAAATACAAACCTACACTCCCCAATCGACTTAAACTCGTCCAGTTAAATTCCCTTCAATTTCTC
261 AAAAATACAAACCTACACTCCCCAATCGACTTAAACTCGTCCAGTTAAATTCCCTTCAATTTCTC
* *
64463674 CAATTTTTATCATCATCATCATAACCACACTTAATCCTCATCCTAATCATCC-TGATTTTTGCCA
326 CAATTTTTATCATCATCAT-AT--CCACACTTAATCCTCATCCTAATC-CCCTTGATTTTAGCCA
*
64463738 ACAATTCGAATTTGAATG
387 ACAATTCCAATTTGAATG
*
64463756 CACTTACCGATTGCGAGATCGCTTGCCAACAAGAAACCAAACCCCCAAAGTGTATGACTCGTCTT
1 CACTTACCGATTGCGAGATCGCTTGCCAACAAGAAATCAAACCCCCAAAGTGTATGACTCGTCTT
* *
64463821 TTAAATGAAAAAGAAATAGTTAGCTAAGTTGAAGAGGGAAGAGGTTGATTCGATTAAAATAGGGA
66 TTAAATGAAAAAGAAAAAGTTGGCTAAGTTGAAGAGGGAAGAGGTTGATTCGATTAAAATAGGGA
* *
64463886 AGAAAAGATCAAGAGTTTGACTTAAAGAAAAGAGGAGATGATATACGACTGAAGCACACAAAAAC
131 AGAAAAGATCAAGAGTTTGGCTTAAAGAAAAGAGGAGATGATATGCGACTGAAGCACACAAAAAC
64463951 AACAAATGCCCTTACTTGCCCATACGACACACATATATATACTAAAAATAAATAAATAAATAAAT
196 AACAAATGCCCTTACTTGCCCATACGACACACATATATATACTAAAAATAAATAAATAAATAAAT
* *
64464016 AAAAATACAAACCTACACTCCCCAATCGGCTTAAACTCGTCCAGTTAAATTCCTTTCAATTTCTC
261 AAAAATACAAACCTACACTCCCCAATCGACTTAAACTCGTCCAGTTAAATTCCCTTCAATTTCTC
64464081 CAA-TTTTATCATCATCATATCCACACTTAATCCTCATCCTAATCCCCTTGATTTTAGCCAACAA
326 CAATTTTTATCATCATCATATCCACACTTAATCCTCATCCTAATCCCCTTGATTTTAGCCAACAA
64464145 TTCCAATTTGAAT
391 TTCCAATTTGAAT
64464158 TGCATTAAAA
Statistics
Matches: 773, Mismatches: 29, Indels: 13
0.95 0.04 0.02
Matches are distributed among these distances:
402 2 0.00
403 198 0.26
404 188 0.24
405 2 0.00
406 251 0.32
407 132 0.17
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (404 bp):
CACTTACCGATTGCGAGATCGCTTGCCAACAAGAAATCAAACCCCCAAAGTGTATGACTCGTCTT
TTAAATGAAAAAGAAAAAGTTGGCTAAGTTGAAGAGGGAAGAGGTTGATTCGATTAAAATAGGGA
AGAAAAGATCAAGAGTTTGGCTTAAAGAAAAGAGGAGATGATATGCGACTGAAGCACACAAAAAC
AACAAATGCCCTTACTTGCCCATACGACACACATATATATACTAAAAATAAATAAATAAATAAAT
AAAAATACAAACCTACACTCCCCAATCGACTTAAACTCGTCCAGTTAAATTCCCTTCAATTTCTC
CAATTTTTATCATCATCATATCCACACTTAATCCTCATCCTAATCCCCTTGATTTTAGCCAACAA
TTCCAATTTGAATG
Found at i:64468562 original size:18 final size:18
Alignment explanation
Indices: 64468535--64468569 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
64468525 AATTAATTAG
*
64468535 TAAAACAAAAAAAGATGA
1 TAAAAAAAAAAAAGATGA
*
64468553 TAAAAAAAAAATAGATG
1 TAAAAAAAAAAAAGATG
64468570 TTCATCTTTC
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:0.71, C:0.03, G:0.11, T:0.14
Consensus pattern (18 bp):
TAAAAAAAAAAAAGATGA
Found at i:64468868 original size:21 final size:21
Alignment explanation
Indices: 64468842--64468882 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
64468832 AGCTTAAATG
64468842 ATGGTTGAATAAGTA-GAATTC
1 ATGGTTGAA-AAGTATGAATTC
64468863 ATGGTTGAAAAGTATGAATT
1 ATGGTTGAAAAGTATGAATT
64468883 GAAATTGCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.34
Consensus pattern (21 bp):
ATGGTTGAAAAGTATGAATTC
Found at i:64471370 original size:40 final size:39
Alignment explanation
Indices: 64471279--64471429 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
64471269 ATCACGATTT
* *
64471279 GCACAAATGCCTTCTGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
64471319 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * * ** *
64471359 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
64471399 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
64471430 TCATTCAATT
Statistics
Matches: 90, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 84 0.93
41 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:64473540 original size:39 final size:39
Alignment explanation
Indices: 64473484--64473642 Score: 210
Period size: 39 Copynumber: 4.1 Consensus size: 39
64473474 CATGGTATTT
** * * *
64473484 GAAATATATCCACACATGAGGTTCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATGTGCTG
* *
64473523 GGAATATATCCGGACATGAGGTCCGCAGGCTATGTGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATGTGCTG
* *
64473562 GAAATATATCCGGACTTGAAGTCCGTAGGCTATGTGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATGTGCTG
* * *
64473601 GAAATATATCCGAACTTGAAGTCCGCAGGCTACGTGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATGTGCTG
64473640 GAA
1 GAA
64473643 TGGTACCCGG
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 108 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (39 bp):
GAAATATATCCGGACATGAAGTCCGCAGGCTATGTGCTG
Found at i:64480066 original size:21 final size:21
Alignment explanation
Indices: 64480040--64480080 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
64480030 AGCTTAAATG
64480040 ATGGTTGAATAAGTA-GAATTC
1 ATGGTTGAA-AAGTATGAATTC
64480061 ATGGTTGAAAAGTATGAATT
1 ATGGTTGAAAAGTATGAATT
64480081 GAAATTTCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.34
Consensus pattern (21 bp):
ATGGTTGAAAAGTATGAATTC
Found at i:64481413 original size:39 final size:39
Alignment explanation
Indices: 64481357--64481515 Score: 228
Period size: 39 Copynumber: 4.1 Consensus size: 39
64481347 CATGGTATTT
* *
64481357 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATGTGCTG
* * *
64481396 GGAATATATCCGGACATGAGGTCCGCAGGGTATGTGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATGTGCTG
* * *
64481435 GAAATATATCCAGACTTGAAGTCCGCAGGCTATGTGCTA
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATGTGCTG
* *
64481474 GAAATATATCCGGACTTGAAGTCCGCAGGCTACGTGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATGTGCTG
64481513 GAA
1 GAA
64481516 TGGTACCCGA
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 108 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (39 bp):
GAAATATATCCGGACATGAAGTCCGCAGGCTATGTGCTG
Found at i:64483855 original size:40 final size:40
Alignment explanation
Indices: 64483775--64483993 Score: 354
Period size: 40 Copynumber: 5.5 Consensus size: 40
64483765 TTCGGATGAC
*
64483775 ATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
64483814 ATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
64483854 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
64483894 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* *
64483934 ATCCGGGCTAAGTGCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
64483974 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
64483994 TACTTGGGTT
Statistics
Matches: 170, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
39 37 0.22
40 131 0.77
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:64485506 original size:42 final size:43
Alignment explanation
Indices: 64485438--64485550 Score: 149
Period size: 43 Copynumber: 2.6 Consensus size: 43
64485428 ATTGATTTGA
* *
64485438 GATTTACATGTAAGACCATGTCTGGGACA-TCGACATCG-TATTT
1 GATTT-CATGTATGACCATGTCTGGGACAGT-GACATCGATATTC
* *
64485481 GATTTCATGTATGACCCTGTTTGGGACAGTGACATCGATATTC
1 GATTTCATGTATGACCATGTCTGGGACAGTGACATCGATATTC
*
64485524 GATTACATGTATGACCATGTCTGGGAC
1 GATTTCATGTATGACCATGTCTGGGAC
64485551 TTGGCATTGT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (43 bp):
GATTTCATGTATGACCATGTCTGGGACAGTGACATCGATATTC
Found at i:64485549 original size:43 final size:42
Alignment explanation
Indices: 64485441--64485550 Score: 150
Period size: 42 Copynumber: 2.6 Consensus size: 42
64485431 GATTTGAGAT
* *
64485441 TTACATGTAAGACCATGTCTGGGACATCGACATCGTATTTGA
1 TTACATGTATGACCATGTCTGGGACATCGACATCGTATTCGA
* * *
64485483 TTTCATGTATGACCCTGTTTGGGACAGT-GACATCGATATTCGA
1 TTACATGTATGACCATGTCTGGGACA-TCGACATCG-TATTCGA
64485526 TTACATGTATGACCATGTCTGGGAC
1 TTACATGTATGACCATGTCTGGGAC
64485551 TTGGCATTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 29 0.50
43 29 0.50
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (42 bp):
TTACATGTATGACCATGTCTGGGACATCGACATCGTATTCGA
Found at i:64491937 original size:42 final size:42
Alignment explanation
Indices: 64491889--64491972 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
64491879 GTCAATTCAT
64491889 CATCTTAAAACTAAGCCACAACATGCCATTTCTGAACCATGA
1 CATCTTAAAACTAAGCCACAACATGCCATTTCTGAACCATGA
64491931 CATCTTAAAACTAAGCCACAACATGCCATTTCTGAACCATGA
1 CATCTTAAAACTAAGCCACAACATGCCATTTCTGAACCATGA
64491973 TACATCATTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.24
Consensus pattern (42 bp):
CATCTTAAAACTAAGCCACAACATGCCATTTCTGAACCATGA
Found at i:64492683 original size:42 final size:44
Alignment explanation
Indices: 64492610--64492732 Score: 121
Period size: 42 Copynumber: 2.9 Consensus size: 44
64492600 ACATATAACT
* * * *
64492610 CATAA-AATGCC-ATATCCCAGATATGTTCTTACATGTTA-TCA
1 CATAACAATGCCAATGTCCCAGACATGGTCTTACATGTAACTCA
*** *
64492651 CATATTGATG-CAATGTCCCAGACATGGTCTTACACG-AACTCA
1 CATAACAATGCCAATGTCCCAGACATGGTCTTACATGTAACTCA
* *
64492693 TATAACAATGCCAATGTCCCAGACATGGTCTAACATGTAA
1 CATAACAATGCCAATGTCCCAGACATGGTCTTACATGTAA
64492733 TTACATTTCG
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
41 6 0.09
42 32 0.50
43 24 0.38
44 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (44 bp):
CATAACAATGCCAATGTCCCAGACATGGTCTTACATGTAACTCA
Found at i:64496087 original size:18 final size:17
Alignment explanation
Indices: 64496055--64496088 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
64496045 GTATTAAATA
*
64496055 TGCATTATTAATCATAT
1 TGCATTATGAATCATAT
64496072 TGCATATATGAATCATA
1 TGCAT-TATGAATCATA
64496089 CCTCAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (17 bp):
TGCATTATGAATCATAT
Found at i:64505601 original size:40 final size:40
Alignment explanation
Indices: 64505546--64505712 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
64505536 TGAATGATAC
* *
64505546 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
64505586 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
64505626 CCGGGCTAAGA-CCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
64505665 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
64505705 CC-GGCTAA
1 CCGGGCTAA
64505713 ATTCCGAAGA
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
38 1 0.01
39 35 0.34
40 66 0.63
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:64505678 original size:79 final size:80
Alignment explanation
Indices: 64505546--64505721 Score: 205
Period size: 79 Copynumber: 2.2 Consensus size: 80
64505536 TGAATGATAC
* * ** *
64505546 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGCTAAGTACCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATT-
*
64505610 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
64505626 CCGGGCTAAG-ACCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGTACCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATTG
**
64505690 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
* *
64505705 CC-GGCTAAATTCCGAAG
1 CCGGGCTAAGTACCGAAG
64505722 AGACTCGGTT
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 6 0.07
79 62 0.77
80 13 0.16
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTACCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:64513115 original size:19 final size:19
Alignment explanation
Indices: 64513091--64513128 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
64513081 AAACTTACAA
64513091 TTTCATATA-CAACATATAC
1 TTTCATATAGCAA-ATATAC
*
64513110 TTTCATTTAGCAAATATAC
1 TTTCATATAGCAAATATAC
64513129 ATATATCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.39
Consensus pattern (19 bp):
TTTCATATAGCAAATATAC
Found at i:64516651 original size:28 final size:28
Alignment explanation
Indices: 64516619--64516683 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
64516609 ATTTACTAGA
*
64516619 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
64516647 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
64516675 ATACCCCTA
1 ATACCCCTA
64516684 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:64516830 original size:28 final size:27
Alignment explanation
Indices: 64516789--64516876 Score: 110
Period size: 25 Copynumber: 3.2 Consensus size: 27
64516779 AGGAAGCGTC
64516789 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
*
64516817 CTGGTGGCCCTGCCAC-AAT-TCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
64516842 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
64516871 CTGGTG
1 CTGGTG
64516877 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
25 21 0.40
26 1 0.02
27 5 0.09
28 19 0.36
29 7 0.13
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:64517364 original size:19 final size:19
Alignment explanation
Indices: 64517340--64517378 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
64517330 TTTTAATTAT
* *
64517340 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
64517359 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
64517378 T
1 T
64517379 ATGATGAAAA
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:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:64517988 original size:11 final size:10
Alignment explanation
Indices: 64517960--64517993 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
64517950 AGCCTGTAAG
64517960 TATTCTGAAT
1 TATTCTGAAT
*
64517970 TTTTCTGAAT
1 TATTCTGAAT
64517980 ATATTCTGAAT
1 -TATTCTGAAT
64517991 TAT
1 TAT
64517994 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:64525020 original size:24 final size:24
Alignment explanation
Indices: 64524993--64525175 Score: 276
Period size: 24 Copynumber: 7.6 Consensus size: 24
64524983 CTTATTATGT
* * *
64524993 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
64525017 TCGCACACGTAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
64525041 TCGCACACTTAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
64525065 TCGCACACTTAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
64525089 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
64525113 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
64525137 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
64525161 TCGCACACATAGTGC
1 TCGCACACATAGTGC
64525176 ATTTGAGATA
Statistics
Matches: 152, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 152 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:64525030 original size:48 final size:47
Alignment explanation
Indices: 64524971--64525175 Score: 248
Period size: 48 Copynumber: 4.3 Consensus size: 47
64524961 ACCGAATGTG
* ** * * *
64524971 GCACACATAGTGCTTATTATGTTCGCACACATAGAGCTATAGCAAATC
1 GCACACATAGTGCTTAGTA-AATCGCACACATAGTGCCATAGTAAATC
* *
64525019 GCACACGTAGTGCTATAGTAAATCGCACACTTAGTGCCATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATCGCACACATAGTGCCATAGTAAATC
* * *
64525067 GCACACTTAGTGCCATAGTAAATCGCACACATAGTGCCATAGTGAATC
1 GCACACATAGTG-CTTAGTAAATCGCACACATAGTGCCATAGTAAATC
* * *
64525115 GCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTGAATC
1 GCACACATAGTG-CTTAGTAAATCGCACACATAGTGCCATAGTAAATC
64525163 GCACACATAGTGC
1 GCACACATAGTGC
64525176 ATTTGAGATA
Statistics
Matches: 141, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
47 1 0.01
48 135 0.96
49 5 0.04
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (47 bp):
GCACACATAGTGCTTAGTAAATCGCACACATAGTGCCATAGTAAATC
Found at i:64527424 original size:28 final size:28
Alignment explanation
Indices: 64527392--64527456 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
64527382 ATTTACTATA
*
64527392 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
64527420 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
*
64527448 ACACCCCTA
1 ATACCCCTA
64527457 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.32, C:0.29, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:64527605 original size:28 final size:28
Alignment explanation
Indices: 64527562--64527652 Score: 121
Period size: 28 Copynumber: 3.2 Consensus size: 28
64527552 AGGAAGCGTC
64527562 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
* * *
64527590 CTGGTGGCCCTTCCACAAATTTTCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
64527618 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
64527647 CTGGTG
1 CTGGTG
64527653 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 47 0.87
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:64527663 original size:29 final size:28
Alignment explanation
Indices: 64527562--64527663 Score: 100
Period size: 28 Copynumber: 3.6 Consensus size: 28
64527552 AGGAAGCGTC
*
64527562 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGTCACAAATTATCTGTT
* *
64527590 CTGGTGGCCCT-TCCACAAATTTTCTGTT
1 CTGGTGGCACTGT-CACAAATTATCTGTT
* *
64527618 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGTCACAAATTATCTGT-T
* *
64527647 CTGGTGACTCTGTCACA
1 CTGGTGGCACTGTCACA
64527664 TTTTCTGTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
28 45 0.75
29 15 0.25
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGTCACAAATTATCTGTT
Found at i:64527677 original size:56 final size:55
Alignment explanation
Indices: 64527562--64527677 Score: 139
Period size: 56 Copynumber: 2.1 Consensus size: 55
64527552 AGGAAGCGTC
* *
64527562 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTTCCACAAATTTTCTGTT
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTTCCAC-AATTTTCTGTT
*
64527618 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGT-CAC-ATTTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCT-TCCACAATTTTCTGT-T
64527674 CTGG
1 CTGG
64527678 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
55 10 0.19
56 29 0.55
57 13 0.25
58 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTTCCACAATTTTCTGTT
Found at i:64528140 original size:19 final size:19
Alignment explanation
Indices: 64528116--64528154 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
64528106 TTTTAATTAT
* *
64528116 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
64528135 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
64528154 T
1 T
64528155 ATGGTGAAAA
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:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:64530231 original size:43 final size:42
Alignment explanation
Indices: 64530112--64530247 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 42
64530102 CCTAGGCGTT
* * * *
64530112 GTCTTACATGCAATCACATATTGATGCC-ACTATCCCAGACA-G
1 GTCTTACACG-AATCAAATATCGATGCCAAC-GTCCCAGACATG
* * *
64530154 AGTCTTACACGAATCAAATA-CAATGCCAATGTCCCAAACATG
1 -GTCTTACACGAATCAAATATCGATGCCAACGTCCCAGACATG
**
64530196 GTCTTACACGTAATCAAATATCGATGCCAACGTCCCAGATGTG
1 GTCTTACACG-AATCAAATATCGATGCCAACGTCCCAGACATG
64530239 GTCTTACAC
1 GTCTTACAC
64530248 AAGAACACAT
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
41 23 0.30
42 19 0.25
43 35 0.45
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (42 bp):
GTCTTACACGAATCAAATATCGATGCCAACGTCCCAGACATG
Found at i:64534737 original size:48 final size:47
Alignment explanation
Indices: 64534670--64534884 Score: 190
Period size: 46 Copynumber: 4.6 Consensus size: 47
64534660 AAGCTGACAC
* * * * *
64534670 CATGTCCCAAATAGGTCTTACACTAGCTTGTAGATCGT-GAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TCTAGATC-TCAAGGCCGATG
* * *
64534718 CATGTCCTAGACATGTCTTACACTAGCTCTCG-TCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTAGATCTCAAGGCCGATG
* * * *
64534764 CATGTCCCAAACATGTCTTACACTGGCT-TAAATATCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT--AGATCTCAAGGCCGATG
* *
64534812 CATGTCCCAGACATGTCTTACACTAGCTCTCATGA--T-ATGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-A-GATCTCAAGGCCGATG
* *
64534858 CATGTCCTAGACAGGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
64534885 ACACATATCA
Statistics
Matches: 139, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
45 2 0.01
46 67 0.48
47 4 0.03
48 64 0.46
49 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTAGATCTCAAGGCCGATG
Found at i:64534778 original size:46 final size:46
Alignment explanation
Indices: 64534711--64534884 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
64534701 AGATCGTGAG
* *
64534711 GCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAT
* * *
64534757 GCCGATGCATGTCCCAAACATGTCTTACACTGGCT-TAAATATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT---CATCTCAAT
*
64534805 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCA--TGATAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCA-AT
* * *
64534850 GGCTGATGCATGTCCTAGACAGGTCTTACACTAGC
1 -GCCGATGCATGTCCCAGACATGTCTTACACTAGC
64534885 ACACATATCA
Statistics
Matches: 110, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
44 2 0.02
45 3 0.03
46 64 0.58
48 40 0.36
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAT
Found at i:64534858 original size:94 final size:93
Alignment explanation
Indices: 64534670--64534881 Score: 248
Period size: 94 Copynumber: 2.3 Consensus size: 93
64534660 AAGCTGACAC
* * ** * * * *
64534670 CATGTCCCAAATAGGTCTTACACTAGCTTGTAGATCGT-GAGGCCGATGCATGTCCTAGACATGT
1 CATGTCCCAAACAGGTCTTACACTGGCTTAAATATC-TCAATGCCGATGCATGTCCCAGACATGT
* *
64534734 CTTACACTAGCTCTCGTCTCAATGCCGATG
65 CTTACACTAGCTCTCATAT-AATGCCGATG
*
64534764 CATGTCCCAAACATGTCTTACACTGGCTTAAATATCTCAATGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAAACAGGTCTTACACTGGCTTAAATATCTCAATGCCGATGCATGTCCCAGACATGTC
*
64534829 TTACACTAGCTCTCATGAT-ATGGCTGATG
66 TTACACTAGCTCTCAT-ATAAT-GCCGATG
* *
64534858 CATGTCCTAGACAGGTCTTACACT
1 CATGTCCCAAACAGGTCTTACACT
64534882 AGCACACATA
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
93 3 0.03
94 96 0.96
95 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (93 bp):
CATGTCCCAAACAGGTCTTACACTGGCTTAAATATCTCAATGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTCATATAATGCCGATG
Found at i:64541863 original size:46 final size:45
Alignment explanation
Indices: 64541752--64541918 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 45
64541742 AAGCTGACGC
* * * *
64541752 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCGCGA-GGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TCT-CAT-GCTATGG-CGATG
* * *
64541800 CATGTCCCAGACTTGTCTT-CTACTAGCTCTCGT-CTCAATGTCGATG
1 CATGTCCCAGACATGTCTTAC-ACTAGCTCTCATGCT--ATGGCGATG
*
64541846 CATGTCCCAGACATGTCTTACACTGGCTCTCATGCTATGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATGCTATGGC-GATG
64541892 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
64541919 ACACATATCA
Statistics
Matches: 100, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
44 1 0.01
45 4 0.04
46 65 0.65
47 7 0.07
48 23 0.23
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATGCTATGGCGATG
Found at i:64548939 original size:55 final size:55
Alignment explanation
Indices: 64548819--64548941 Score: 131
Period size: 55 Copynumber: 2.3 Consensus size: 55
64548809 AAGCCTGCCA
* ** * * *
64548819 AAAC-AACACGGGCGTGCGACACACCTGTGTGGAAGACCCTTGGTTGAAACTAAG
1 AAACTAACACGGGCGTGCGACACACCTATGTCCAACACCCGTGGTTGAAACTAAC
* * * *
64548873 AAACTAGCACGGGCGTGCGACACGCCTATGTCCAACACCCGTGGTTGAACCTATC
1 AAACTAACACGGGCGTGCGACACACCTATGTCCAACACCCGTGGTTGAAACTAAC
**
64548928 AATTTAACACGGGC
1 AAACTAACACGGGC
64548942 ATGGGGCTTG
Statistics
Matches: 55, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
54 4 0.07
55 51 0.93
ACGTcount: A:0.29, C:0.28, G:0.25, T:0.18
Consensus pattern (55 bp):
AAACTAACACGGGCGTGCGACACACCTATGTCCAACACCCGTGGTTGAAACTAAC
Found at i:64554221 original size:49 final size:49
Alignment explanation
Indices: 64554139--64554363 Score: 261
Period size: 49 Copynumber: 4.5 Consensus size: 49
64554129 CTGGTATGCA
** * * * *
64554139 TAGTAGCCCACACATAGTACTAGACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
*
64554188 TAGTAGCTTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* ** * *
64554237 TAGTAGCCTGCAATTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * ** * *
64554287 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTTGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
64554338 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
64554364 TGCGACCTCA
Statistics
Matches: 150, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
49 73 0.49
50 42 0.28
51 34 0.23
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:64554309 original size:99 final size:101
Alignment explanation
Indices: 64554182--64554363 Score: 278
Period size: 99 Copynumber: 1.8 Consensus size: 101
64554172 AATTATCCGG
* *
64554182 TACACGTAGTAGCTTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACGTAGTAGCC
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAATTATCCGGTACACATAGTAGCC
64554245 TGCAATTAGTACTACACACGTGACCTAACCATCTGA
66 TGCAATTAGTACTACACACGTGACCTAACCATCTGA
* * ** *
64554281 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTTGGGTACGCATAGTAGCC
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAATTATCCGGTACACATAGTAGCC
*
64554346 TGCACTTAGTACTACACA
66 TGCAATTAGTACTACACA
64554364 TGCGACCTCA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
99 36 0.49
100 1 0.01
101 36 0.49
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (101 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAATTATCCGGTACACATAGTAGCC
TGCAATTAGTACTACACACGTGACCTAACCATCTGA
Found at i:64556544 original size:30 final size:29
Alignment explanation
Indices: 64556501--64556558 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
64556491 AAAGATAACA
*
64556501 AGAAAACCGAATAAAGAAATCCAAGATAG
1 AGAAAACCGAATAAAGAAACCCAAGATAG
*
64556530 AGAAACCCAGAATAAAGAAACCCAAGATA
1 AGAAAACC-GAATAAAGAAACCCAAGATA
64556559 CGATACTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.59, C:0.17, G:0.16, T:0.09
Consensus pattern (29 bp):
AGAAAACCGAATAAAGAAACCCAAGATAG
Found at i:64556548 original size:15 final size:15
Alignment explanation
Indices: 64556500--64556553 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
64556490 TAAAGATAAC
*
64556500 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
64556514 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
*
64556529 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
64556544 AAGAAACCCA
1 AAGAAACCCA
64556554 AGATACGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
14 9 0.27
15 23 0.70
16 1 0.03
ACGTcount: A:0.59, C:0.19, G:0.15, T:0.07
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:64559695 original size:50 final size:48
Alignment explanation
Indices: 64559531--64559752 Score: 277
Period size: 50 Copynumber: 4.5 Consensus size: 48
64559521 CTGGTACGCA
* * *
64559531 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGTACACG
64559579 TAGTAGCCTGCACTTAGTACTACACAC--GACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCC-GTACACG
** *
64559626 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCG-TACACG
* * * * *
64559676 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATC-CGTACACG
64559727 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
64559753 TGCGACCTCA
Statistics
Matches: 154, Mismatches: 12, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
46 12 0.08
47 34 0.22
48 25 0.16
49 5 0.03
50 42 0.27
51 34 0.22
52 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGTACACG
Found at i:64559760 original size:101 final size:96
Alignment explanation
Indices: 64559518--64559760 Score: 326
Period size: 101 Copynumber: 2.5 Consensus size: 96
64559508 TAGCCAAAGC
* * **
64559518 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCGTACACGTAG
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGTACACGTAG
64559582 TAGCCTGCACTTAGTACTACACACGACCAAT
66 TAGCCTGCACTTAGTACTACACACGACCAAT
* * * * *
64559613 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCG-TACACGTA
*
64559678 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
65 GTAGCCTGCACTTAGTACTACACAC--GA-C-CAAT
* *
64559714 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
64559761 CACAATAGAT
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
95 40 0.32
96 6 0.05
97 33 0.26
99 2 0.02
100 1 0.01
101 44 0.35
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (96 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGTACACGTAG
TAGCCTGCACTTAGTACTACACACGACCAAT
Found at i:64562969 original size:28 final size:28
Alignment explanation
Indices: 64562904--64563004 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
64562894 ATAGTGAATC
*
64562904 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
64562933 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
64562961 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
64562991 CGCACACTTAGTGC
1 CGCACACTTAGTGC
64563005 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:64570928 original size:28 final size:28
Alignment explanation
Indices: 64570863--64570963 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
64570853 ATAGTGAATC
*
64570863 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
64570892 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
64570920 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
64570950 CGCACACTTAGTGC
1 CGCACACTTAGTGC
64570964 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:64576110 original size:35 final size:35
Alignment explanation
Indices: 64576071--64576141 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
64576061 GTTATGTGAA
64576071 TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
1 TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
64576106 TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
1 TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
64576141 T
1 T
64576142 TATAAACAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.08, G:0.34, T:0.32
Consensus pattern (35 bp):
TGATGTGTTCATTAAGTGACCAGGATGTGGTAAGG
Found at i:64577062 original size:2 final size:2
Alignment explanation
Indices: 64577055--64577079 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
64577045 ATGACATGTG
64577055 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
64577080 GACTAGTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:64579376 original size:43 final size:42
Alignment explanation
Indices: 64579279--64579396 Score: 110
Period size: 43 Copynumber: 2.8 Consensus size: 42
64579269 GATTTGAGAT
* * *
64579279 TTACATGTAAGACCATGTCCGGGACATTGGCATAGTATATGA
1 TTACATGTAAGACCATGTCCAGGACAATGGCATAATATATGA
* * * * * *
64579321 TTTCGTGTAAGACCTTGTCTAGGATAATGGCATCAATATTTGA
1 TTACATGTAAGACCATGTCCAGGACAATGGCAT-AATATATGA
** * *
64579364 TTACATGTAAGACCACATCTAGGACATTGGCAT
1 TTACATGTAAGACCATGTCCAGGACAATGGCAT
64579397 TGTATGAGCT
Statistics
Matches: 59, Mismatches: 16, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
42 26 0.44
43 33 0.56
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCCAGGACAATGGCATAATATATGA
Found at i:64583783 original size:30 final size:30
Alignment explanation
Indices: 64583747--64583803 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
64583737 TAGGCACTTC
*
64583747 CACACGGGTAAACCACACGCCCGTGTGCCT
1 CACACGGGCAAACCACACGCCCGTGTGCCT
*
64583777 CACACGGGCAGACCACACGCCCGTGTG
1 CACACGGGCAAACCACACGCCCGTGTG
64583804 TCATGGCTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.23, C:0.40, G:0.26, T:0.11
Consensus pattern (30 bp):
CACACGGGCAAACCACACGCCCGTGTGCCT
Found at i:64588147 original size:40 final size:40
Alignment explanation
Indices: 64588084--64588260 Score: 261
Period size: 40 Copynumber: 4.5 Consensus size: 40
64588074 CGGATGATAA
* *
64588084 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTGACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
64588123 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
64588163 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
64588203 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
64588243 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
64588261 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 27 0.21
40 100 0.79
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:64593326 original size:6 final size:6
Alignment explanation
Indices: 64593274--64593317 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
64593264 TTAAGTCCAG
64593274 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TT
64593318 TTAATTTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:64594341 original size:4 final size:4
Alignment explanation
Indices: 64594334--64594374 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
64594324 CTTAAAAAAA
64594334 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
64594375 TTGGTATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:64597815 original size:39 final size:40
Alignment explanation
Indices: 64597736--64597821 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 40
64597726 ATATATGGTG
64597736 ATTATATCCGGACTTAAGGTTCCGTAGGCTATATGAGGGA
1 ATTATATCCGGACTTAAGGTTCCGTAGGCTATATGAGGGA
*
64597776 ATTATATCCGGACTTAAGG-TCCGTAGGCTATATGCGGGA
1 ATTATATCCGGACTTAAGGTTCCGTAGGCTATATGAGGGA
*
64597815 ATCATAT
1 ATTATAT
64597822 TCGAACTTCG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
39 25 0.57
40 19 0.43
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (40 bp):
ATTATATCCGGACTTAAGGTTCCGTAGGCTATATGAGGGA
Found at i:64599320 original size:20 final size:20
Alignment explanation
Indices: 64599295--64599340 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
64599285 AACAATTTAC
64599295 GGAACTAGATTTCGAGTTTT
1 GGAACTAGATTTCGAGTTTT
64599315 GGAACTAGATTTCGAGTTTT
1 GGAACTAGATTTCGAGTTTT
64599335 GGAACT
1 GGAACT
64599341 CGAGATATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (20 bp):
GGAACTAGATTTCGAGTTTT
Found at i:64600028 original size:42 final size:43
Alignment explanation
Indices: 64599960--64600089 Score: 116
Period size: 37 Copynumber: 3.2 Consensus size: 43
64599950 GATTTACGTA
* *
64599960 TAAGACCATGTCTAGGACATCAGCATCG-TATCTG-ATTTTGTG
1 TAAGACCATGTCTAGGACATCAGCATCGATAT-TGAATTATATG
* * *
64600002 TAAGACCTTGTCTGGGACA-GAGGCATCGATATTGAATTATATG
1 TAAGACCATGTCTAGGACATCA-GCATCGATATTGAATTATATG
* *
64600045 TAAGACCACGTCCAGG-----A-CATCGATATTGAATTATATG
1 TAAGACCATGTCTAGGACATCAGCATCGATATTGAATTATATG
64600082 TAAGACCA
1 TAAGACCA
64600090 CGTCCGGGAC
Statistics
Matches: 76, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
37 28 0.37
39 1 0.01
41 1 0.01
42 25 0.33
43 21 0.28
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (43 bp):
TAAGACCATGTCTAGGACATCAGCATCGATATTGAATTATATG
Found at i:64600075 original size:37 final size:37
Alignment explanation
Indices: 64600025--64600108 Score: 159
Period size: 37 Copynumber: 2.3 Consensus size: 37
64600015 GGGACAGAGG
64600025 CATCGATATTGAATTATATGTAAGACCACGTCCAGGA
1 CATCGATATTGAATTATATGTAAGACCACGTCCAGGA
*
64600062 CATCGATATTGAATTATATGTAAGACCACGTCCGGGA
1 CATCGATATTGAATTATATGTAAGACCACGTCCAGGA
64600099 CATCGATATT
1 CATCGATATT
64600109 CTATTTGTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (37 bp):
CATCGATATTGAATTATATGTAAGACCACGTCCAGGA
Found at i:64607996 original size:29 final size:27
Alignment explanation
Indices: 64607962--64608064 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
64607952 TACTCGATCA
*
64607962 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* ** *
64607991 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
64608020 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
64608049 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
64608065 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:64612174 original size:29 final size:29
Alignment explanation
Indices: 64612112--64612214 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
64612102 GTGACGAGAT
* * *
64612112 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
64612141 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
64612170 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
64612199 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
64612215 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:64620190 original size:29 final size:29
Alignment explanation
Indices: 64620128--64620230 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
64620118 GTGACGAGAT
* * *
64620128 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
64620157 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
64620186 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
64620215 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
64620231 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:64629434 original size:42 final size:42
Alignment explanation
Indices: 64629333--64629488 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 42
64629323 TAAGACATCG
* * * *
64629333 TGTAAGACTATCTCTGGGACA-CAGGCCTCGAT-TGAGATTTACA
1 TGTAAGACCATGTCTGGGACATC-GGCATCGATAT-TGATTT-CA
*
64629376 TATAAGACCATGTCTGGGACATCGGCATC-ATATCTGATTTCA
1 TGTAAGACCATGTCTGGGACATCGGCATCGATAT-TGATTTCA
* **
64629418 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTAT-A
1 TGTAAGACCATGTCTGGGACATCGGCATCGATATTG-ATT-TCA
* *
64629461 TGTAAGACCATGTCCGGGACGTCGGCAT
1 TGTAAGACCATGTCTGGGACATCGGCAT
64629489 TGTACTTGTT
Statistics
Matches: 93, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 31 0.33
43 60 0.65
44 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTCA
Found at i:64634231 original size:13 final size:13
Alignment explanation
Indices: 64634213--64634237 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64634203 TATGTGATAT
64634213 GTGTGAAAATTTC
1 GTGTGAAAATTTC
64634226 GTGTGAAAATTT
1 GTGTGAAAATTT
64634238 TATCATTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:64635502 original size:43 final size:43
Alignment explanation
Indices: 64635346--64635502 Score: 119
Period size: 43 Copynumber: 3.7 Consensus size: 43
64635336 ATGAGATTTT
* *
64635346 GTGTAAAACCACGTCTAGGACGTTGGCATCAATTTGA-GATTTAC
1 GTGTAAGACCACGTCTAGGACATTGGCATCAATTT-ATGA-TTAC
* * * *
64635390 GTGTAAGACCATGT-TCGAGACATTGGCATC-GTTTATGATTTC
1 GTGTAAGACCACGTCTAG-GACATTGGCATCAATTTATGATTAC
* **
64635432 GTGGAAGACCTTGTCT-GG-CATAGTGGCATCAATGTT-TGATTAC
1 GTGTAAGACCACGTCTAGGACAT--TGGCATCAAT-TTATGATTAC
* *
64635475 ATGTAAGACCACGTCTAGGACGTTGGCA
1 GTGTAAGACCACGTCTAGGACATTGGCA
64635503 CTGTACGAAC
Statistics
Matches: 89, Mismatches: 15, Indels: 19
0.72 0.12 0.15
Matches are distributed among these distances:
40 3 0.03
41 1 0.01
42 24 0.27
43 32 0.36
44 27 0.30
45 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCACGTCTAGGACATTGGCATCAATTTATGATTAC
Found at i:64647746 original size:29 final size:29
Alignment explanation
Indices: 64647714--64647786 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
64647704 CTTCGAGCTC
*
64647714 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
64647743 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
64647772 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
64647787 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:64654967 original size:29 final size:29
Alignment explanation
Indices: 64654935--64655007 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
64654925 CTTCGAGCTC
*
64654935 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
64654964 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
64654993 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
64655008 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:64662606 original size:39 final size:39
Alignment explanation
Indices: 64662560--64662714 Score: 247
Period size: 39 Copynumber: 3.9 Consensus size: 39
64662550 AATGTGCAAA
64662560 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
*
64662599 TTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTGCGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
* *
64662638 CTATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
1 TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
* * *
64662677 ATGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
64662715 GGTTACCATA
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 90 0.84
40 17 0.16
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.23
Consensus pattern (39 bp):
TTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAG
Found at i:64662730 original size:40 final size:39
Alignment explanation
Indices: 64662563--64662745 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
64662553 GTGCAAATTG
*
64662563 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
64662602 TGATATCCGGGCTAAGCCCGAAGGCAATGGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
64662641 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGATG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
64662680 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
64662720 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
64662746 GTTTGAACGA
Statistics
Matches: 127, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 87 0.69
40 40 0.31
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:64664667 original size:17 final size:18
Alignment explanation
Indices: 64664625--64664673 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
64664615 AGTTGAAAAG
64664625 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
64664644 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
64664661 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
64664674 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:64665561 original size:40 final size:40
Alignment explanation
Indices: 64665495--64665661 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
64665485 AAATTGAATG
* * *
64665495 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
64665534 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
64665574 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
64665614 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
64665654 ATATCCGG
1 ATATCCGG
64665662 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:64672663 original size:17 final size:18
Alignment explanation
Indices: 64672621--64672669 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
64672611 AGTTGAAAAG
64672621 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
64672640 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
64672657 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
64672670 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:64673557 original size:40 final size:40
Alignment explanation
Indices: 64673491--64673657 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
64673481 AAATTGAATG
* * *
64673491 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
64673530 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
64673570 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
64673610 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
64673650 ATATCCGG
1 ATATCCGG
64673658 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:64676726 original size:24 final size:24
Alignment explanation
Indices: 64676694--64676743 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
64676684 ACAACAAAGA
*
64676694 ACCCATCCATAAAGAACGAAGTTT
1 ACCCATCCATAAAGAACGAAGGTT
*
64676718 ACCCATCCATGAAGAACGAAGGTT
1 ACCCATCCATAAAGAACGAAGGTT
64676742 AC
1 AC
64676744 AAATCGAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.18
Consensus pattern (24 bp):
ACCCATCCATAAAGAACGAAGGTT
Found at i:64679342 original size:40 final size:40
Alignment explanation
Indices: 64679297--64679485 Score: 256
Period size: 40 Copynumber: 4.7 Consensus size: 40
64679287 ATAACCACAA
* *
64679297 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
64679337 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
64679377 GCACAAATGCCTTCGGGTCTTAAGCCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAA-CCCGGATATAGCAACTC
* *
64679418 TGCACAAATGCCTTCGGGTCTTAACCCGGATATAATC-ACTA
1 -GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* * *
64679459 GCATAAATGCCTT-GGGACTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
64679486 GTATCATTCA
Statistics
Matches: 135, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 12 0.09
40 70 0.52
41 28 0.21
42 25 0.19
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:64679451 original size:82 final size:80
Alignment explanation
Indices: 64679281--64679485 Score: 290
Period size: 82 Copynumber: 2.5 Consensus size: 80
64679271 CGGAATTTAG
* * *
64679281 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAA-CCCGGGTATAGCAACTCGCACAAAT
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAAGCCCGGATATAGCAACTCGCACAAAT
*
64679345 GCCTTCGGGTCTTAGC
65 GCCTTCGGGTCTTAAC
*
64679361 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAGCCCGGATATAGCAACTCTGCACAAA
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAAGCCCGGATATAGCAACTC-GCACAAA
64679426 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTCTTAAC
* *
64679443 CCGGATATAATCACTAGCATAAATGCCTT-GGGACTT-AGCCCGG
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAAGCCCGG
64679486 GTATCATTCA
Statistics
Matches: 113, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
79 1 0.01
80 41 0.36
81 22 0.19
82 48 0.42
83 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAAGCCCGGATATAGCAACTCGCACAAATG
CCTTCGGGTCTTAAC
Found at i:64682391 original size:40 final size:40
Alignment explanation
Indices: 64682336--64682582 Score: 374
Period size: 40 Copynumber: 6.2 Consensus size: 40
64682326 TGAATGATAC
* * *
64682336 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
64682376 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
64682416 CCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
64682455 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
64682495 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
64682535 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
64682575 CC-GGCTAA
1 CCGGGCTAA
64682583 ATTCCGAAGA
Statistics
Matches: 192, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
39 44 0.23
40 146 0.76
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:64682547 original size:119 final size:120
Alignment explanation
Indices: 64682336--64682582 Score: 383
Period size: 119 Copynumber: 2.1 Consensus size: 120
64682326 TGAATGATAC
* *
64682336 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTG
* * *
64682401 TGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTTGTTATAT
66 TGCGAGTTGCTATACCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGGTTATAT
*
64682455 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTT
* **
64682519 GTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
65 GTGCGAGTTGCTATACCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGGTTATAT
64682575 CC-GGCTAA
1 CCGGGCTAA
64682583 ATTCCGAAGA
Statistics
Matches: 117, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
119 97 0.83
120 20 0.17
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGCTATACCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGGTTATAT
Found at i:64682591 original size:79 final size:80
Alignment explanation
Indices: 64682336--64682582 Score: 374
Period size: 79 Copynumber: 3.1 Consensus size: 80
64682326 TGAATGATAC
* * *
64682336 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTT
64682400 GTGCGAGTTGTTATAT
65 GTGCGAGTTGTTATAT
64682416 CCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
64682480 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
* * * *
64682495 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
** *
64682560 TGCTTGTGGTTATAT
66 TGCGAGTTGTTATAT
64682575 CC-GGCTAA
1 CCGGGCTAA
64682583 ATTCCGAAGA
Statistics
Matches: 155, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
79 80 0.52
80 75 0.48
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGTTATAT
Found at i:64690619 original size:40 final size:40
Alignment explanation
Indices: 64690564--64690769 Score: 285
Period size: 39 Copynumber: 5.2 Consensus size: 40
64690554 TGAATGATAC
* * *
64690564 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
64690604 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
64690644 CCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
64690683 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA-
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
64690722 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
64690762 CC-GGCTAA
1 CCGGGCTAA
64690770 ATTCGAAGAA
Statistics
Matches: 150, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 76 0.51
40 72 0.48
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:64690698 original size:79 final size:78
Alignment explanation
Indices: 64690564--64690769 Score: 290
Period size: 79 Copynumber: 2.6 Consensus size: 78
64690554 TGAATGATAC
* *
64690564 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGGCA-TTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTC
*
64690628 GTGCGAGTTGTTATA
64 GTGCGAGTTGCTATA
* *
64690643 TCCGGGCTAAGACCCGAAGGCATTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
1 -CCGGGCTAAGACCCGAAGGCATTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCG
64690708 TGCGAGTTGCTATA
65 TGCGAGTTGCTATA
* * *
64690722 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGC-ATTGTGCTAGTTGTTATATCCGGGCTAA
64690770 ATTCGAAGAA
Statistics
Matches: 115, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
78 25 0.22
79 68 0.59
80 22 0.19
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGACCCGAAGGCATTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCGT
GCGAGTTGCTATA
Found at i:64704770 original size:49 final size:50
Alignment explanation
Indices: 64704701--64704946 Score: 298
Period size: 49 Copynumber: 4.9 Consensus size: 50
64704691 AGCTATTGTG
* *
64704701 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
64704751 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
64704801 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
64704851 AGGTCACGTATGTAGTACTAAGTGCAGCCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
64704901 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
64704947 GCTTCGGCTA
Statistics
Matches: 164, Mismatches: 30, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 80 0.49
50 46 0.28
51 38 0.23
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:64707607 original size:38 final size:37
Alignment explanation
Indices: 64707548--64707648 Score: 115
Period size: 31 Copynumber: 2.8 Consensus size: 37
64707538 TCAATCATGC
*
64707548 ACTGGGCCGTAGCCCTTTTCATAATTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCAT-ATTCATATTTCATAAT
*
64707587 ACTGGGCCGAAGCC---T--T-TTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTCATATTTCATAAT
64707618 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATA-TTCATATT
64707649 ACTGGGCCGA
Statistics
Matches: 53, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
31 28 0.53
33 1 0.02
34 1 0.02
35 1 0.02
36 1 0.02
38 10 0.19
39 11 0.21
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.39
Consensus pattern (37 bp):
ACTGGGCCGAAGCCTTTTCATATTCATATTTCATAAT
Found at i:64707610 original size:31 final size:31
Alignment explanation
Indices: 64707572--64707665 Score: 179
Period size: 31 Copynumber: 3.0 Consensus size: 31
64707562 CTTTTCATAA
*
64707572 TTCATATTTCATAATACTGGGCCGAAGCCTT
1 TTCATATTTCATATTACTGGGCCGAAGCCTT
64707603 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATATTACTGGGCCGAAGCCTT
64707634 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATATTACTGGGCCGAAGCCTT
64707665 T
1 T
64707666 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTCATATTTCATATTACTGGGCCGAAGCCTT
Found at i:64707908 original size:24 final size:24
Alignment explanation
Indices: 64707857--64707975 Score: 161
Period size: 24 Copynumber: 5.0 Consensus size: 24
64707847 GCTTTATCAT
*
64707857 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
64707882 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
64707906 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
* *
64707929 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
64707953 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
64707976 TCACTTCCTC
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
23 22 0.26
24 51 0.60
25 12 0.14
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:64707936 original size:47 final size:48
Alignment explanation
Indices: 64707857--64707975 Score: 161
Period size: 47 Copynumber: 2.5 Consensus size: 48
64707847 GCTTTATCAT
*
64707857 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
** **
64707906 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
64707953 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
64707976 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
47 43 0.67
48 9 0.14
49 12 0.19
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:64708051 original size:20 final size:20
Alignment explanation
Indices: 64708026--64708085 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
64708016 TATGATTACC
64708026 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
64708046 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
64708066 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
64708086 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:64708056 original size:11 final size:11
Alignment explanation
Indices: 64708026--64708080 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
64708016 TATGATTACC
64708026 TCATGTGCATA
1 TCATGTGCATA
*
64708037 TCA--TACATA
1 TCATGTGCATA
64708046 TCATGTGCATA
1 TCATGTGCATA
* *
64708057 TCA--TACATT
1 TCATGTGCATA
64708066 TCATGTGCATA
1 TCATGTGCATA
64708077 TCAT
1 TCAT
64708081 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:64709995 original size:40 final size:40
Alignment explanation
Indices: 64709887--64710096 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
64709877 CGGGATTTAA
* * * * *
64709887 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
64709927 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
64709967 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
64710007 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
64710047 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
64710087 CCGGATATAT
1 CCGGATATAT
64710097 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:64720105 original size:40 final size:40
Alignment explanation
Indices: 64719979--64720107 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
64719969 ATGCTGGAAA
* *
64719979 TTATATCC-GGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
64720018 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
64720058 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
64720098 TTATATCCGG
1 TTATATCCGG
64720108 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 10 0.13
40 65 0.87
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:64721958 original size:21 final size:19
Alignment explanation
Indices: 64721928--64722004 Score: 66
Period size: 21 Copynumber: 3.8 Consensus size: 19
64721918 TTGAAAATTT
64721928 TTTATAATATTTAAATTGATAA
1 TTTA-AATATTTAAATT-AT-A
*
64721950 TTTAAATATTTAATAATATTA
1 TTTAAATATTTAA-ATTA-TA
* *
64721971 TTTTAATATTTTAATTATA
1 TTTAAATATTTAAATTATA
64721990 TTT-AATAATTTAAAT
1 TTTAAAT-ATTTAAAT
64722005 AATAAATATT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 3 0.06
19 12 0.26
20 3 0.06
21 22 0.47
22 7 0.15
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (19 bp):
TTTAAATATTTAAATTATA
Found at i:64721983 original size:22 final size:21
Alignment explanation
Indices: 64721949--64721991 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
64721939 TAAATTGATA
64721949 ATTTAAATATTTAATAATATT
1 ATTTAAATATTTAATAATATT
* *
64721970 ATTTTAATATTTTAATTATATT
1 ATTTAAATA-TTTAATAATATT
64721992 TAATAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTAAATATTTAATAATATT
Found at i:64721995 original size:18 final size:17
Alignment explanation
Indices: 64721946--64722002 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 17
64721936 ATTTAAATTG
*
64721946 ATAATTTAAATA-TTTA
1 ATAATTTAATTATTTTA
64721962 ATAA--T-ATTATTTTA
1 ATAATTTAATTATTTTA
*
64721976 ATATTTTAATTATATTTA
1 ATAATTTAATTAT-TTTA
64721994 ATAATTTAA
1 ATAATTTAA
64722003 ATAATAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
13 3 0.09
14 8 0.24
16 5 0.15
17 5 0.15
18 12 0.36
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATAATTTAATTATTTTA
Found at i:64722346 original size:28 final size:25
Alignment explanation
Indices: 64722310--64722389 Score: 70
Period size: 28 Copynumber: 2.9 Consensus size: 25
64722300 TAAATCTTAA
* *
64722310 AATTATATATAATTTTGTTTTAGTATGT
1 AATTTTATATAATTTTGATTT-G--TGT
64722338 AATTTTATACATGAATTTTGATTTGTGT
1 AATTTTAT--AT-AATTTTGATTTGTGT
64722366 AATTATATATATAATTTTGATTTG
1 AATT-T-TATATAATTTTGATTTG
64722390 ATTCAATTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
27 12 0.27
28 16 0.36
29 1 0.02
30 6 0.13
31 10 0.22
ACGTcount: A:0.33, C:0.01, G:0.11, T:0.55
Consensus pattern (25 bp):
AATTTTATATAATTTTGATTTGTGT
Found at i:64723045 original size:14 final size:15
Alignment explanation
Indices: 64723026--64723056 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
64723016 TTGTGTGTTC
64723026 TTTA-TTTTTATTTT
1 TTTATTTTTTATTTT
64723040 TTTATTTTTTATTTT
1 TTTATTTTTTATTTT
64723055 TT
1 TT
64723057 CATAAATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTATTTTTTATTTT
Found at i:64730072 original size:136 final size:137
Alignment explanation
Indices: 64729714--64730113 Score: 635
Period size: 137 Copynumber: 2.9 Consensus size: 137
64729704 CTAAAGCTTG
* * * ** * * * *
64729714 ACTCA-CTCTCGCAATATGAGCTGATTTTTTTGAACAGTAGGAATTGAAAAGCAGAAATTGAAAG
1 ACTCACCTCTCGCAATATGAGTTGA-TTTTTTAAAAAACAGGAATTGGAAAGTAGAAACTGAAAA
* * *
64729778 TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGGGTTGATTTTTTGAAAAACAAA
65 TACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAACAAA
64729843 AAGGTACA
130 AAGGTACA
64729851 ACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAACAGGAATTGGAAAGTAGAAACTGAAAAT
1 ACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAACAGGAATTGGAAAGTAGAAACTGAAAAT
64729916 ACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAACAAAA
66 ACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAACAAAA
64729981 AGGTACA
131 AGGTACA
* *
64729988 ACTCACCTTTTGCAATATGAGTTGA-TTTTTAAAAAACAGGAATTGGAAAGTAGAAACTGAAAAT
1 ACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAACAGGAATTGGAAAGTAGAAACTGAAAAT
64730052 ACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTTTGAAACAACA
66 ACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAA-AACA
64730114 GGAATTAAAA
Statistics
Matches: 247, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
135 9 0.04
136 91 0.37
137 129 0.52
138 18 0.07
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.26
Consensus pattern (137 bp):
ACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAACAGGAATTGGAAAGTAGAAACTGAAAAT
ACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAACAAAA
AGGTACA
Found at i:64730166 original size:73 final size:71
Alignment explanation
Indices: 64730047--64730249 Score: 264
Period size: 73 Copynumber: 2.8 Consensus size: 71
64730037 GTAGAAACTG
* * *
64730047 AAAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAACAA
1 AAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAC-A
64730112 CAGGAATT-
65 CA--AATTA
** ** * *
64730120 AAAATACCTCAGCGTGACCTGAGGCTTGACTCACCTCTCACAATATGAGTCAAATTTTGAAACAT
1 AAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAACAC
64730185 AAATTA
66 AAATTA
*
64730191 AAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAAATACCTCAGC--GTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
64730250 CTTGGAAAAC
Statistics
Matches: 112, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
70 4 0.04
71 13 0.12
72 2 0.02
73 93 0.83
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (71 bp):
AAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAACAC
AAATTA
Found at i:64730367 original size:55 final size:57
Alignment explanation
Indices: 64730303--64730460 Score: 243
Period size: 58 Copynumber: 2.8 Consensus size: 57
64730293 GCGTGCCTTG
* *
64730303 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAAACA-A-AAGTTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACATATAAATTGAA
*
64730358 AGGCTCAACTCACCTCTCGCAATATGGGTTGATTTATTTGAAAAAA-ATATAAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT-TTTGAAAAAACATATAAATTGAA
64730416 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-AAAAAACA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACA
64730461 GGAATTAAAA
Statistics
Matches: 94, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
55 36 0.38
56 7 0.07
57 13 0.14
58 38 0.40
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (57 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACATATAAATTGAA
Found at i:64730563 original size:201 final size:200
Alignment explanation
Indices: 64730214--64730579 Score: 555
Period size: 201 Copynumber: 1.8 Consensus size: 200
64730204 GTGTGACCTG
** *
64730214 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGGAAAACATGAATTAAAAAGCAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTAAAAAACAGGAATTAAAAAGCAGAAA
*
64730279 TTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAA
66 TTGAAAATACCTCAGCGTGCC-TAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAA
*
64730344 AAACAAAAGTTGAAAGGCTCAACTCACCTCTCGCAATATGGGTTGATTTATTTGAAAAAAATATA
130 AAACAAAAGTTAAAAGGCTCAACTCACCT-TCGCAATATGGGTTGATTTATTTGAAAAAAATATA
64730409 AATTGAA
194 AATTGAA
64730416 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTAAAAAACAGGAATTAAAAA-CAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTAAAAAACAGGAATTAAAAAGCAGAAA
*
64730478 TTGAAAATAGCTCAGCACGTGAGCC-AAGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTTT
66 TTGAAAATACCTCAG--CGT--GCCTAAGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTTT
*
64730541 GAAAAAACAGAAA-TTAAAAGGCTTAACTCACCTTCGCAA
126 GAAAAAACA-AAAGTTAAAAGGCTCAACTCACCTTCGCAA
64730580 GATGAATCAA
Statistics
Matches: 151, Mismatches: 7, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
199 20 0.13
200 25 0.17
201 68 0.45
202 35 0.23
203 3 0.02
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (200 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTAAAAAACAGGAATTAAAAAGCAGAAA
TTGAAAATACCTCAGCGTGCCTAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAA
AACAAAAGTTAAAAGGCTCAACTCACCTTCGCAATATGGGTTGATTTATTTGAAAAAAATATAAA
TTGAA
Found at i:64730886 original size:159 final size:156
Alignment explanation
Indices: 64730608--64730978 Score: 669
Period size: 159 Copynumber: 2.4 Consensus size: 156
64730598 ACATAAACTA
64730608 AAAATACCTCAGCGTGCCC-GAGGCTCAACTCAC-TCTCGCAATATGAGTTGA-TTTTGAACATA
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAACATA
64730670 AATTAAATTACCTCAACGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTGGA
66 AATTAAATTACCTCAACGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTGGA
*
64730735 AAACATGAATTAAAAAGCAGAAATTG
131 AAACATGAACTAAAAAGCAGAAATTG
64730761 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACAT
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AACAT
64730826 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA-CTCTCGCAATATGAGCTGATTTTCT
65 AAATT-AAATTACCTCAAC--GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCT
64730890 TGGAAAACATGAACTAAAAAGCAGAAATTG
127 TGGAAAACATGAACTAAAAAGCAGAAATTG
64730920 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
64730979 GAAAAAACAA
Statistics
Matches: 210, Mismatches: 1, Indels: 8
0.96 0.00 0.04
Matches are distributed among these distances:
153 19 0.09
154 14 0.07
155 18 0.09
156 5 0.02
157 10 0.05
158 13 0.06
159 113 0.54
160 18 0.09
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (156 bp):
AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAACATA
AATTAAATTACCTCAACGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCTTGGA
AAACATGAACTAAAAAGCAGAAATTG
Found at i:64731009 original size:88 final size:88
Alignment explanation
Indices: 64730826--64730991 Score: 228
Period size: 88 Copynumber: 1.9 Consensus size: 88
64730816 TTTGAAACAT
* * *
64730826 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTCTCGCAATATGAGCTGATTTTCTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACTCTCGCAATATGAGCTGATTTTCTT
* ** *
64730891 GGAAAACATGAACTAAAAAGCAG
66 GGAAAAAACAAAATAAAAAGCAG
* *
64730914 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTT-T
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCAC-TCTCGCAATATGAGCTGATTTTCT
64730977 TGGAAAAAACAAAAT
65 TGGAAAAAACAAAAT
64730992 TGGAGGACAG
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
87 12 0.18
88 39 0.57
89 17 0.25
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (88 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACTCTCGCAATATGAGCTGATTTTCTT
GGAAAAAACAAAATAAAAAGCAG
Found at i:64743748 original size:63 final size:63
Alignment explanation
Indices: 64743671--64743797 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
64743661 TAGTCTATTC
64743671 CTCTTGTATTGATTCAATTTTTCGACATAGTGAATTTTCTTTTTCTCTGCCCCTGGTTTTTTT
1 CTCTTGTATTGATTCAATTTTTCGACATAGTGAATTTTCTTTTTCTCTGCCCCTGGTTTTTTT
64743734 CTCTTGTATTGATTCAATTTTTCGACATAGTGAATTTTCTTTTTCTCTGCCCCTGGTTTTTTT
1 CTCTTGTATTGATTCAATTTTTCGACATAGTGAATTTTCTTTTTCTCTGCCCCTGGTTTTTTT
64743797 C
1 C
64743798 CGTAAGGGTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.14, C:0.20, G:0.13, T:0.54
Consensus pattern (63 bp):
CTCTTGTATTGATTCAATTTTTCGACATAGTGAATTTTCTTTTTCTCTGCCCCTGGTTTTTTT
Found at i:64743853 original size:13 final size:14
Alignment explanation
Indices: 64743830--64743859 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
64743820 TTGTGTGTTC
64743830 TTTATTTTTATTTT
1 TTTATTTTTATTTT
64743844 TTTA-TTTTATTTT
1 TTTATTTTTATTTT
64743857 TTT
1 TTT
64743860 CACAGATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTATTTTTATTTT
Found at i:64744943 original size:6 final size:6
Alignment explanation
Indices: 64744934--64744960 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
64744924 TTATTTTTTG
64744934 TATAAA TATAAA TATAAA TATAAA TAT
1 TATAAA TATAAA TATAAA TATAAA TAT
64744961 TAAAATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
TATAAA
Found at i:64746443 original size:29 final size:30
Alignment explanation
Indices: 64746397--64746464 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
64746387 ATAGTATTAT
* * * *
64746397 TTATATTTATATATTATAGACAT-AAATAA
1 TTATATTTATACAATATAAAAATAAAATAA
*
64746426 TTATATTTATCCAATATAAAAATAAAATAA
1 TTATATTTATACAATATAAAAATAAAATAA
64746456 TT-TATTTAT
1 TTATATTTAT
64746465 TTCTTTAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 25 0.76
30 8 0.24
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (30 bp):
TTATATTTATACAATATAAAAATAAAATAA
Found at i:64750181 original size:93 final size:93
Alignment explanation
Indices: 64749944--64750297 Score: 538
Period size: 93 Copynumber: 3.9 Consensus size: 93
64749934 TGGATATTTG
* * * *
64749944 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCGAGCTCGTTGAC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
64750009 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* * *
64750037 GGCATCTGAACTC-----GTTGAGTCCGAGTTCACTTATGGATGCGAATGTTTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
* *
64750097 TTGAGTCTGAGTTTGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
**
64750125 GGCATCCGAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
64750190 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* * * *
64750218 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCTGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
64750283 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
64750298 CTTATGGGCG
Statistics
Matches: 234, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
88 79 0.34
93 155 0.66
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:64750250 original size:47 final size:47
Alignment explanation
Indices: 64750085--64750250 Score: 185
Period size: 47 Copynumber: 3.6 Consensus size: 47
64750075 GCGAATGTTT
* *
64750085 GAACTCGTTGAGTTGAGTCTGAGTTTGTGAAATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCC
** * * * * * * * *
64750132 GAACTCGTTGAGTTGAGTTTGAGTTCACT--TATGGATGCGA-ACGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCATCC
64750178 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCC
64750225 GAACTCGTTGAGTTGAGTCCGAGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTC
64750251 ACTTATGGAT
Statistics
Matches: 94, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
45 1 0.01
46 33 0.35
47 59 0.63
48 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (47 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCC
Found at i:64753044 original size:41 final size:41
Alignment explanation
Indices: 64752987--64753067 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
64752977 GTTACCTGTG
64752987 TATCTGATTTATGTTACTATAGTTCATCGGGCTAAAAAAAC
1 TATCTGATTTATGTTACTATAGTTCATCGGGCTAAAAAAAC
64753028 TATCTGATTTATGTTACTATAGTTCATCGGGCTAAAAAAA
1 TATCTGATTTATGTTACTATAGTTCATCGGGCTAAAAAAA
64753068 TTTAAGAATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.37
Consensus pattern (41 bp):
TATCTGATTTATGTTACTATAGTTCATCGGGCTAAAAAAAC
Found at i:64754069 original size:13 final size:13
Alignment explanation
Indices: 64754051--64754075 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64754041 TAATGGTATA
64754051 TTGAATCCATGAT
1 TTGAATCCATGAT
64754064 TTGAATCCATGA
1 TTGAATCCATGA
64754076 AAATTTAGTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:64755643 original size:48 final size:48
Alignment explanation
Indices: 64755584--64756045 Score: 870
Period size: 48 Copynumber: 9.6 Consensus size: 48
64755574 AAAGTGTAAT
*
64755584 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
64755632 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
64755680 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
*
64755728 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
64755776 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
64755824 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
64755872 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
*
64755920 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
* * *
64755968 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGAA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
64756016 TATGTGGTAAAGCCGAATGGCTAATGTGAA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAA
64756046 TGTTGTAACA
Statistics
Matches: 408, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 408 1.00
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.32
Consensus pattern (48 bp):
TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
Found at i:64756140 original size:37 final size:37
Alignment explanation
Indices: 64756090--64756175 Score: 154
Period size: 37 Copynumber: 2.3 Consensus size: 37
64756080 GGAAATATAT
* *
64756090 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACATGTAGAGATTATG
64756127 TCCGGGTAAGACCCGATGACTACATGTAGAGATTATG
1 TCCGGGTAAGACCCGATGACTACATGTAGAGATTATG
64756164 TCCGGGTAAGAC
1 TCCGGGTAAGAC
64756176 TTCGTAATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACATGTAGAGATTATG
Found at i:64762373 original size:20 final size:20
Alignment explanation
Indices: 64762350--64762388 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
64762340 AGTACTGGCA
* *
64762350 GTTTATCTACATTACTGGTG
1 GTTTATCCACAATACTGGTG
*
64762370 GTTTGTCCACAATACTGGT
1 GTTTATCCACAATACTGGT
64762389 AACTTGTTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (20 bp):
GTTTATCCACAATACTGGTG
Found at i:64762445 original size:39 final size:40
Alignment explanation
Indices: 64762380--64762457 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 40
64762370 GTTTGTCCAC
*
64762380 AATACTGGTAACTTGTTTGCATTATTGGCAATTTATCTGT
1 AATACTGGTAACTTGTCTGCATTATTGGCAATTTATCTGT
* * *
64762420 AATACTGGTAGC-TGTCTGCATTATTGGGAGTTTATCTG
1 AATACTGGTAACTTGTCTGCATTATTGGCAATTTATCTG
64762458 CATTATTGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 23 0.68
40 11 0.32
ACGTcount: A:0.23, C:0.13, G:0.22, T:0.42
Consensus pattern (40 bp):
AATACTGGTAACTTGTCTGCATTATTGGCAATTTATCTGT
Found at i:64762471 original size:39 final size:39
Alignment explanation
Indices: 64762379--64762471 Score: 96
Period size: 39 Copynumber: 2.4 Consensus size: 39
64762369 GGTTTGTCCA
* * *
64762379 CAATACTGGTAACTTGTTTGCATTATTGGCAATTTATCTG
1 CAATACTGATAGC-TGTCTGCATTATTGGCAATTTATCTG
* * * *
64762419 TAATACTGGTAGCTGTCTGCATTATTGGGAGTTTATCTG
1 CAATACTGATAGCTGTCTGCATTATTGGCAATTTATCTG
* *
64762458 CATTATTGATAGCT
1 CAATACTGATAGCT
64762472 TGTCCATATT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 33 0.75
40 11 0.25
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (39 bp):
CAATACTGATAGCTGTCTGCATTATTGGCAATTTATCTG
Found at i:64765775 original size:9 final size:9
Alignment explanation
Indices: 64765761--64765824 Score: 56
Period size: 9 Copynumber: 6.9 Consensus size: 9
64765751 ATTTTAAAAG
64765761 TTTTATATA
1 TTTTATATA
* *
64765770 TATTATTTA
1 TTTTATATA
*
64765779 TTTTAAACTA
1 TTTTATA-TA
*
64765789 TTTTATTTA
1 TTTTATATA
* *
64765798 TTTTAAATT
1 TTTTATATA
64765807 TTTATATATA
1 TTT-TATATA
64765817 TTTTATAT
1 TTTTATAT
64765825 TAAACTATTT
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
9 27 0.66
10 14 0.34
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (9 bp):
TTTTATATA
Done.