Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 284 of 343
Found at i:94109691 original size:19 final size:19
Alignment explanation
Indices: 94109667--94109704 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
94109657 ATGAACATAT
94109667 TCGTTTAATGTTTGTGAAC
1 TCGTTTAATGTTTGTGAAC
94109686 TCGTTTAATGTTTGTGAAC
1 TCGTTTAATGTTTGTGAAC
94109705 GTATTCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.21, T:0.47
Consensus pattern (19 bp):
TCGTTTAATGTTTGTGAAC
Found at i:94113636 original size:20 final size:20
Alignment explanation
Indices: 94113611--94113657 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
94113601 ACATATATAA
*
94113611 ATACATATATACA-GACATGC
1 ATACATAAATACATG-CATGC
94113631 ATACATAAATACATGCATGC
1 ATACATAAATACATGCATGC
*
94113651 ATGCATA
1 ATACATA
94113658 CAAAGAACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.26
Consensus pattern (20 bp):
ATACATAAATACATGCATGC
Found at i:94119612 original size:27 final size:27
Alignment explanation
Indices: 94119582--94119682 Score: 122
Period size: 27 Copynumber: 3.9 Consensus size: 27
94119572 AAAAAAACAA
94119582 AAACTGTTAAAAAAACTGATGTGAGAT
1 AAACTGTTAAAAAAACTGATGTGAGAT
*
94119609 AAACTGTTAAAAAAACTGATGTGA-CT
1 AAACTGTTAAAAAAACTGATGTGAGAT
* * *
94119635 ----TGTTAAAAAAACTAATGTAAGAG
1 AAACTGTTAAAAAAACTGATGTGAGAT
94119658 AAACTGTTAAAAAAAACTGATGTGA
1 AAACTGTT-AAAAAAACTGATGTGA
94119683 CAGGGATGGA
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
22 18 0.30
26 1 0.02
27 28 0.46
28 14 0.23
ACGTcount: A:0.50, C:0.08, G:0.17, T:0.26
Consensus pattern (27 bp):
AAACTGTTAAAAAAACTGATGTGAGAT
Found at i:94119645 original size:49 final size:50
Alignment explanation
Indices: 94119586--94119683 Score: 162
Period size: 49 Copynumber: 2.0 Consensus size: 50
94119576 AAACAAAAAC
* * *
94119586 TGTTAAAAAAACTGATGTGAGATAAACTGTT-AAAAAAACTGATGTGACT
1 TGTTAAAAAAACTAATGTAAGAGAAACTGTTAAAAAAAACTGATGTGACT
94119635 TGTTAAAAAAACTAATGTAAGAGAAACTGTTAAAAAAAACTGATGTGAC
1 TGTTAAAAAAACTAATGTAAGAGAAACTGTTAAAAAAAACTGATGTGAC
94119684 AGGGATGGAG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 28 0.62
50 17 0.38
ACGTcount: A:0.48, C:0.08, G:0.17, T:0.27
Consensus pattern (50 bp):
TGTTAAAAAAACTAATGTAAGAGAAACTGTTAAAAAAAACTGATGTGACT
Found at i:94119739 original size:27 final size:27
Alignment explanation
Indices: 94119699--94119766 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
94119689 TGGAGGGCAC
* *
94119699 GCCAGAGGCTGCACTG-GTGAAGCCTGT
1 GCCAGAGGCGGCAC-GAGTGAAGCCTAT
* *
94119726 GGCAGAGGCGGCACGAGTGAAGCTTAT
1 GCCAGAGGCGGCACGAGTGAAGCCTAT
*
94119753 GCCATAGGCGGCAC
1 GCCAGAGGCGGCAC
94119767 CCACTCCCCC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.22, C:0.25, G:0.38, T:0.15
Consensus pattern (27 bp):
GCCAGAGGCGGCACGAGTGAAGCCTAT
Found at i:94120278 original size:17 final size:17
Alignment explanation
Indices: 94120258--94120306 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
94120248 ATTGAGAAAA
94120258 TTTTTTAGTATTTTATT
1 TTTTTTAGTATTTTATT
*
94120275 TTTTTTGGTATTTTATT
1 TTTTTTAGTATTTTATT
* *
94120292 TTTTATAATATTTTA
1 TTTTTTAGTATTTTA
94120307 ATAAAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.73
Consensus pattern (17 bp):
TTTTTTAGTATTTTATT
Found at i:94120562 original size:26 final size:27
Alignment explanation
Indices: 94120510--94120562 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
94120500 CCCTCCATCC
*
94120510 CTGTCACATCAATTTTTTTAACTGTTT
1 CTGTCACATCAATTTTTTTAACAGTTT
94120537 CTGTCACATCAA-TTTTTTAACAGTTT
1 CTGTCACATCAATTTTTTTAACAGTTT
94120563 TTTTTAACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.25, C:0.19, G:0.08, T:0.49
Consensus pattern (27 bp):
CTGTCACATCAATTTTTTTAACAGTTT
Found at i:94120567 original size:13 final size:14
Alignment explanation
Indices: 94120549--94120583 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
94120539 GTCACATCAA
*
94120549 TTTTTTAAC-AGTT
1 TTTTTTAACTAATT
94120562 TTTTTTAACTAATT
1 TTTTTTAACTAATT
94120576 TTTTTTAA
1 TTTTTTAA
94120584 ACAGAGGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.66
Consensus pattern (14 bp):
TTTTTTAACTAATT
Found at i:94122116 original size:53 final size:53
Alignment explanation
Indices: 94122021--94122124 Score: 140
Period size: 53 Copynumber: 2.0 Consensus size: 53
94122011 GACCGAAAAG
* * * *
94122021 ATGTGATAATGTGATTCCGTATAAGACTATAGCTGGGCTATGG-TATCGGTACA
1 ATGTGATAATGTGATTCCGTACAAGACCATAGCTAGGATATGGCT-TCGGTACA
94122074 ATGTGATAATGTGATTCCGTACAAGACCAT-GACTAGGATATGGCTTCGGTA
1 ATGTGATAATGTGATTCCGTACAAGACCATAG-CTAGGATATGGCTTCGGTA
94122125 TGATATGTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
52 1 0.02
53 43 0.96
54 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (53 bp):
ATGTGATAATGTGATTCCGTACAAGACCATAGCTAGGATATGGCTTCGGTACA
Found at i:94122946 original size:20 final size:20
Alignment explanation
Indices: 94122921--94122994 Score: 112
Period size: 20 Copynumber: 3.7 Consensus size: 20
94122911 TGCACATGGG
*
94122921 CAGGCCACAAGGGCATGTTC
1 CAGGCCACATGGGCATGTTC
*
94122941 CAGGCCATATGGGCATGTTC
1 CAGGCCACATGGGCATGTTC
94122961 CAGGCCACATGGGCATGTTC
1 CAGGCCACATGGGCATGTTC
* *
94122981 TAGGCCACACGGGC
1 CAGGCCACATGGGC
94122995 GTGTGCCCCT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.22, C:0.30, G:0.31, T:0.18
Consensus pattern (20 bp):
CAGGCCACATGGGCATGTTC
Found at i:94131391 original size:58 final size:57
Alignment explanation
Indices: 94131327--94131438 Score: 172
Period size: 58 Copynumber: 1.9 Consensus size: 57
94131317 ATAATTTTAA
* *
94131327 ATTTTAATA-AAATTATTATTAAATATAATTTAATAATAATAATAAATAATTTAATCAT
1 ATTTTAACATAAA-TATTATTAAATAAAATTTAATAA-AATAATAAATAATTTAATCAT
*
94131385 ATTTTAACATAAATATTATTAAATAAAATTTAATAAAATAATATATAATTTAAT
1 ATTTTAACATAAATATTATTAAATAAAATTTAATAAAATAATAAATAATTTAAT
94131439 AACATTCTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
57 17 0.34
58 30 0.60
59 3 0.06
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (57 bp):
ATTTTAACATAAATATTATTAAATAAAATTTAATAAAATAATAAATAATTTAATCAT
Found at i:94131490 original size:24 final size:23
Alignment explanation
Indices: 94131463--94131512 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
94131453 TATTACTAAA
*
94131463 ATATGAAT-TAATAAAAATCATAAT
1 ATAT-AATATAATAAAAATAAT-AT
*
94131487 ATATAATATTATAAAAATAATAT
1 ATATAATATAATAAAAATAATAT
94131510 ATA
1 ATA
94131513 ACTACTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATAATATAATAAAAATAATAT
Found at i:94134900 original size:6 final size:6
Alignment explanation
Indices: 94134889--94134913 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
94134879 GTCATGTGCA
94134889 TTAGTG TTAGTG TTAGTG TTAGTG T
1 TTAGTG TTAGTG TTAGTG TTAGTG T
94134914 GCATGAGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (6 bp):
TTAGTG
Found at i:94137702 original size:40 final size:40
Alignment explanation
Indices: 94137648--94137765 Score: 200
Period size: 40 Copynumber: 3.0 Consensus size: 40
94137638 CGGATGTAAC
* *
94137648 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
94137688 AACCCGCACGAATGCCTTCGGGACTTAACTCAGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
94137728 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
94137766 TTTTTTTTTC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:94139886 original size:46 final size:47
Alignment explanation
Indices: 94139819--94139993 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 47
94139809 TGTAACCCGC
* * *
94139819 CCATAAGTAAACTCGGACTCAACTCAACGAGCTCGGGC-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCAGTTCACAT
94139865 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-AGTTCACAT
* * * *
94139915 -C-TCA-CGAACTC-GACTCAACTCAACGAGTTCGGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCAGTTCACAT
94139958 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
94139994 ATGTTCAACC
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
45 2 0.02
46 61 0.55
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCAGTTCACAT
Found at i:94139987 original size:93 final size:93
Alignment explanation
Indices: 94139828--94139996 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
94139818 CCCATAAGTA
* *
94139828 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAAC
94139893 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACG
* *
94139921 AACTC-GACTCAACTCAACGAGTTCGGACATTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCGGACTCAACTCAACGAGCTCGGAC-GTTCACATCCATAAGTGAACTCGGACTCAACTCAA
94139985 CGAGTTCGGATG
65 CGAGTTCGGATG
94139997 TTCAACCATC
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 21 0.30
93 50 0.70
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:94147473 original size:47 final size:49
Alignment explanation
Indices: 94147391--94147523 Score: 161
Period size: 47 Copynumber: 2.8 Consensus size: 49
94147381 TGTAACCCGC
* *
94147391 CCATAAGTGAACTCGGACTCAACTCAACGAATTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG-C-AGTTCACAT
* *
94147441 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
*
94147485 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
94147524 TTCAACCATC
Statistics
Matches: 71, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
43 3 0.04
44 5 0.07
45 1 0.01
46 2 0.03
47 57 0.80
48 2 0.03
49 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
Found at i:94147977 original size:30 final size:30
Alignment explanation
Indices: 94147943--94148002 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
94147933 CCTTAATACG
94147943 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
94147973 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
94148003 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:94151405 original size:22 final size:22
Alignment explanation
Indices: 94151363--94151407 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
94151353 ATAACAAAGC
* *
94151363 TGATTTATTGTTTATATTTTTT
1 TGATTTATTGTTTACAATTTTT
94151385 TGATTTATT-TATTACAATTTTT
1 TGATTTATTGT-TTACAATTTTT
94151407 T
1 T
94151408 TTTCATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (22 bp):
TGATTTATTGTTTACAATTTTT
Found at i:94154531 original size:11 final size:12
Alignment explanation
Indices: 94154507--94154535 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
94154497 TGGTTAATTT
94154507 AATTTAAGTTAA
1 AATTTAAGTTAA
94154519 AATTTAA-TTAA
1 AATTTAAGTTAA
94154530 AATTTA
1 AATTTA
94154536 CATTTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (12 bp):
AATTTAAGTTAA
Found at i:94160407 original size:630 final size:631
Alignment explanation
Indices: 94158929--94160531 Score: 2976
Period size: 630 Copynumber: 2.5 Consensus size: 631
94158919 CCCTTGATCG
*
94158929 ATGCACATTGTTGCATACATTATGATAGATCATCACTATTAAGTATATTAGCTTGGATAGTTTGG
1 ATGCACATTGTTGCATACATTATGATAGATCATCACTATTAAGTATATTAGCGTGGATAGTTTGG
**
94158994 ACTTTAAGGTGATGATATGGCATTGTAGCTAGTAACATCTCTTTATTGAAATATACATTTGAGAA
66 ACTTTAAGGTGATGATATGGCATTGTAGCTAGTAACATCTCTTTATTGAAATATTTATTTGAGAA
*
94159059 CCTGTGTAGTTCTTTGGCCAAATCACTTTAGTTTTTTCATTTCTACTTGCTCTTTATTTGTTTCC
131 CCAGTGTAGTTCTTTGGCCAAATCACTTTAGTTTTTTCATTTCTACTTGCTCTTTATTTGTTTCC
*** * * *
94159124 CTGTTTCATCCCCCCCCCAAAAAAAAAAAGAAAAATAATAGTAATAATAAAAGGATAAAGGAGCA
196 CTGTTTCATCCCCCCCCC---CCCAAAAA-AAAAATAATAATAATAATAAAAGAAAAAAGGAGCA
*
94159189 TTCCTCACTTTCTCTGCCCTTGTAAGTTTTCTTTCTGTCTTTTACCTTCAAAATCCCATATCAGC
257 TTCCTCACTTTCTCTGCCCTTGTAAGTTTTCTTTCTGTCTTTTACCTTCAAAGTCCCATATCAGC
94159254 TATCAAACAATGAACACGAAAAAATGAGAGGAATTCCTATGATTTGCTTTTTGTAACAACAGTAA
322 TATCAAACAATGAACACGAAAAAATGAGAGGAATTCCTATGATTTGCTTTTTGTAACAACAGTAA
94159319 GAAAAACCATCTCAATGAATCTCAAAAGTAACTGGATCAACTAACGAAATAAATTCTGGAGCATA
387 GAAAAACCATCTCAATGAATCTCAAAAGTAACTGGATCAACTAACGAAATAAATTCTGGAGCATA
94159384 GAGAAACTTTGGCCAAATCATCCAAATAAATCAAAATTTGCCAGTCTACCAACCATCTTCATCTG
452 GAGAAACTTTGGCCAAATCATCCAAATAAATCAAAATTTGCCAGTCTACCAACCATCTTCATCTG
94159449 TTGTCATCTTCTTCTGCAATGCACCAGTTTCAAACTCAAATGTTGGAACTCGCAAACCCAAAGAC
517 TTGTCATCTTCTTCTGCAATGCACCAGTTTCAAACTCAAATGTTGGAACTCGCAAACCCAAAGAC
94159514 ATGATGTATCTGTGAAATGGGATCTGTATACCTCAAATCTATTGGCACAT
582 ATGATGTATCTGTGAAATGGGATCTGTATACCTCAAATCTATTGGCACAT
94159564 ATGCACATTGTTGCATACATTATGATAGATCATCACTATTAAGTATATTAGCGTGGATAGTTTGG
1 ATGCACATTGTTGCATACATTATGATAGATCATCACTATTAAGTATATTAGCGTGGATAGTTTGG
94159629 ACTTTAAGGTGATGATATGGCATTGTAGCTAGTAACATCTCTTTATTGAAATATTTATTTGAGAA
66 ACTTTAAGGTGATGATATGGCATTGTAGCTAGTAACATCTCTTTATTGAAATATTTATTTGAGAA
*
94159694 CCAGTGTAGTTCTTTGGCCAAATCACTTTGGTTTTTTCATTTCTACTTGCTCTTTATTTGTTTCC
131 CCAGTGTAGTTCTTTGGCCAAATCACTTTAGTTTTTTCATTTCTACTTGCTCTTTATTTGTTTCC
*
94159759 CTGTTTCAT-CCACCCCCCCCAAAAAAAAAATAATAATAATAATAAAAGAAAAAAGGAGCATTCC
196 CTGTTTCATCCCCCCCCCCCCAAAAAAAAAATAATAATAATAATAAAAGAAAAAAGGAGCATTCC
* *
94159823 TCACTTTCTCTGCCCTTGTAAGTTTTCTTTCTGTCTTTTACCTTCAAAGTCTCACATCAGCTATC
261 TCACTTTCTCTGCCCTTGTAAGTTTTCTTTCTGTCTTTTACCTTCAAAGTCCCATATCAGCTATC
94159888 AAACAATGAACACGAAAAAATGAGAGGAATTCCTATGATTTGCTTTTTGTAACAACAGTAAGAAA
326 AAACAATGAACACGAAAAAATGAGAGGAATTCCTATGATTTGCTTTTTGTAACAACAGTAAGAAA
94159953 AACCATCTCAATGAATCTCAAAAGTAACTGGATCAACTAACGAAATAAATTCTGGAGCATAGAGA
391 AACCATCTCAATGAATCTCAAAAGTAACTGGATCAACTAACGAAATAAATTCTGGAGCATAGAGA
*
94160018 AACTTTGGCCAAATCATCCAAATAAATCAAAATTTGCCAGTCTACCAACCATCTTTATCTGTTGT
456 AACTTTGGCCAAATCATCCAAATAAATCAAAATTTGCCAGTCTACCAACCATCTTCATCTGTTGT
*
94160083 CATCTTCTTCTGCAATGCACCAGTTTCAAACTCAAATGTT-GAACTCGCAAACCCAAAGACGTGA
521 CATCTTCTTCTGCAATGCACCAGTTTCAAACTCAAATGTTGGAACTCGCAAACCCAAAGACATGA
*
94160147 TGTATCTGTGAATTGGGATCTGTATACCTCAAATCTATTGGCACAT
586 TGTATCTGTGAAATGGGATCTGTATACCTCAAATCTATTGGCACAT
94160193 ATGCACATTGTTGCATACATTATGATAGATCATCACTATTAAGTATATTAGCGTGGATAGTTTGG
1 ATGCACATTGTTGCATACATTATGATAGATCATCACTATTAAGTATATTAGCGTGGATAGTTTGG
94160258 ACTTTAAGGTGATGATATGGCATTGTAGCTAGTAACATCTCTTTATTGAAATATTTATTTGAGAA
66 ACTTTAAGGTGATGATATGGCATTGTAGCTAGTAACATCTCTTTATTGAAATATTTATTTGAGAA
94160323 CCAGTGTAGTTCTTTGGCCAAATCACTTTAGTTTTTTCATTTCTACTTGCTCTTTATTTGTTTCC
131 CCAGTGTAGTTCTTTGGCCAAATCACTTTAGTTTTTTCATTTCTACTTGCTCTTTATTTGTTTCC
*
94160388 CTGTTTCATCCCCCCCCCCCCAAAAAAAATAATAATAATAATAATAAAAGAAAAAAGGAGCATTT
196 CTGTTTCATCCCCCCCCCCCCAAAAAAAA-AATAATAATAATAATAAAAGAAAAAAGGAGCATTC
94160453 CTCACTTTCTCTGCCCTTGTAAGTTTTCTTTCTGTCTTTTACCTTCAAAGTCCCATATCAGCTAT
260 CTCACTTTCTCTGCCCTTGTAAGTTTTCTTTCTGTCTTTTACCTTCAAAGTCCCATATCAGCTAT
94160518 CAAACAATGAACAC
325 CAAACAATGAACAC
94160532 TTTGCTTTTT
Statistics
Matches: 943, Mismatches: 23, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
629 271 0.29
630 350 0.37
631 116 0.12
634 7 0.01
635 199 0.21
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.34
Consensus pattern (631 bp):
ATGCACATTGTTGCATACATTATGATAGATCATCACTATTAAGTATATTAGCGTGGATAGTTTGG
ACTTTAAGGTGATGATATGGCATTGTAGCTAGTAACATCTCTTTATTGAAATATTTATTTGAGAA
CCAGTGTAGTTCTTTGGCCAAATCACTTTAGTTTTTTCATTTCTACTTGCTCTTTATTTGTTTCC
CTGTTTCATCCCCCCCCCCCCAAAAAAAAAATAATAATAATAATAAAAGAAAAAAGGAGCATTCC
TCACTTTCTCTGCCCTTGTAAGTTTTCTTTCTGTCTTTTACCTTCAAAGTCCCATATCAGCTATC
AAACAATGAACACGAAAAAATGAGAGGAATTCCTATGATTTGCTTTTTGTAACAACAGTAAGAAA
AACCATCTCAATGAATCTCAAAAGTAACTGGATCAACTAACGAAATAAATTCTGGAGCATAGAGA
AACTTTGGCCAAATCATCCAAATAAATCAAAATTTGCCAGTCTACCAACCATCTTCATCTGTTGT
CATCTTCTTCTGCAATGCACCAGTTTCAAACTCAAATGTTGGAACTCGCAAACCCAAAGACATGA
TGTATCTGTGAAATGGGATCTGTATACCTCAAATCTATTGGCACAT
Found at i:94161187 original size:48 final size:48
Alignment explanation
Indices: 94161117--94161275 Score: 230
Period size: 48 Copynumber: 3.3 Consensus size: 48
94161107 AAGGTATATT
* * * * * *
94161117 TGTCTTTCACTATTTGCGCTCTTAGAGTTGGTAC-TTTATTATATGGCA
1 TGTCATTCATTATTTTCACTCTTAGATTTGGTACTTTTA-TGTATGGCA
94161165 TGTCATTCATTATTTTCACTCTTAGATTTGGTACTTTTATGTATGGCA
1 TGTCATTCATTATTTTCACTCTTAGATTTGGTACTTTTATGTATGGCA
* *
94161213 TGTTATTCATTATTTTCACTCTTAGATTTTGTACTTTTATGTATGGCA
1 TGTCATTCATTATTTTCACTCTTAGATTTGGTACTTTTATGTATGGCA
94161261 TGTCATTCATTATTT
1 TGTCATTCATTATTT
94161276 ATATTGATAA
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
48 97 0.96
49 4 0.04
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.51
Consensus pattern (48 bp):
TGTCATTCATTATTTTCACTCTTAGATTTGGTACTTTTATGTATGGCA
Found at i:94166283 original size:3 final size:3
Alignment explanation
Indices: 94166275--94166301 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
94166265 CACACCAAAA
94166275 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
94166302 GGTAAGAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:94166776 original size:12 final size:12
Alignment explanation
Indices: 94166759--94166783 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
94166749 TATTTTCCAG
94166759 AAACTTGAGCAA
1 AAACTTGAGCAA
94166771 AAACTTGAGCAA
1 AAACTTGAGCAA
94166783 A
1 A
94166784 GAAGCCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (12 bp):
AAACTTGAGCAA
Found at i:94172349 original size:13 final size:14
Alignment explanation
Indices: 94172324--94172357 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
94172314 TAAAGGTCTT
94172324 TCTTTATTTTAATA
1 TCTTTATTTTAATA
94172338 TCTTTA-TTTAATA
1 TCTTTATTTTAATA
94172351 TCATTTA
1 TC-TTTA
94172358 GAAAATAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (14 bp):
TCTTTATTTTAATA
Found at i:94179411 original size:20 final size:20
Alignment explanation
Indices: 94179386--94179425 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
94179376 ATAAGTGTAC
94179386 GTGCGAATCATGTAATAAAG
1 GTGCGAATCATGTAATAAAG
94179406 GTGCGAATCATGTAATAAAG
1 GTGCGAATCATGTAATAAAG
94179426 TTATGAGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (20 bp):
GTGCGAATCATGTAATAAAG
Found at i:94181159 original size:48 final size:48
Alignment explanation
Indices: 94181103--94181198 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
94181093 AACCTAATAT
94181103 TATTATTCAAATATTTCTAATTTTAGAATGAAAAACCCAACTCATAAA
1 TATTATTCAAATATTTCTAATTTTAGAATGAAAAACCCAACTCATAAA
* *
94181151 TATTATTCAAATATTTCTAATTTTAGAATGAATAACCCAACTCGTAAA
1 TATTATTCAAATATTTCTAATTTTAGAATGAAAAACCCAACTCATAAA
94181199 CAAGTATACA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (48 bp):
TATTATTCAAATATTTCTAATTTTAGAATGAAAAACCCAACTCATAAA
Found at i:94186334 original size:3 final size:3
Alignment explanation
Indices: 94186326--94186351 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
94186316 ACCATGCATG
94186326 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
94186352 ATTGTAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:94187852 original size:18 final size:18
Alignment explanation
Indices: 94187829--94187871 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
94187819 GAATAGATTT
94187829 TTAATTAAATAAAATT-AA
1 TTAATTAAA-AAAATTAAA
*
94187847 TTAATTAAAAAATTTAAA
1 TTAATTAAAAAAATTAAA
94187865 TTAATTA
1 TTAATTA
94187872 CACTTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAATTAAAAAAATTAAA
Found at i:94189486 original size:126 final size:125
Alignment explanation
Indices: 94189247--94189686 Score: 440
Period size: 126 Copynumber: 3.5 Consensus size: 125
94189237 GTAGAAGGTC
*
94189247 GCTATGAGAAGGATCAAAATACATCCAGAGATAGTGATGGTGATGGTGAAATGCTTGATGAAAAT
1 GCTACGAGAAGGATCAAAATACATCCAGAGATAGTGATGGTGA---T---ATGCTTGATGAAAAT
** * * * * * *
94189312 AGATCTACTGGCTCTCATAGTGAGGAGCAAGATCAGCACTTATTGGTAGAAGGGCGACGTAATGG
60 AGATCTACTGATTCTCATAGCGAGGAGCACGGTAAGAACTTATCGGTAGAAGGGC-ACGTAATGG
*
94189377 TT
124 TA
* * * *
94189379 GCTATGAGAAGGAACAAAATGCATCCAGAGATAGTGATGGTGATATGCTCGATGAAAATAGATCT
1 GCTACGAGAAGGATCAAAATACATCCAGAGATAGTGATGGTGATATGCTTGATGAAAATAGATCT
* * * * *
94189444 ACTGATTCTCGTAGCAAGGAGCACGGTGAGAAGC-TATCGGTAGAAGGCCAATGTAATGG-A
66 ACTGATTCTCATAGCGAGGAGCACGGTAAGAA-CTTATCGGTAGAAGGGC-ACGTAATGGTA
* * * * ** *
94189504 CGCTACGAGAAAGATCAAAATACTTCCAGAGATGGTGATGGTGATATGGTTGATGAAAGGAGGTC
1 -GCTACGAGAAGGATCAAAATACATCCAGAGATAGTGATGGTGATATGCTTGATGAAAATAGATC
* *
94189569 TATTGATTCTCATAGCGAGGAGCACGGTAAGAACTTATCGGTAGAA-GGC-CATAATGGTA
65 TACTGATTCTCATAGCGAGGAGCACGGTAAGAACTTATCGGTAGAAGGGCACGTAATGGTA
* * * * * *
94189628 GCTACGAGGCA-GATCAAATTGCGTCCAGAGATGGTGATGGTGATATGGTTGATGAAAAT
1 GCTACGA-GAAGGATCAAAATACATCCAGAGATAGTGATGGTGATATGCTTGATGAAAAT
94189687 GGACCAAATG
Statistics
Matches: 262, Mismatches: 41, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
123 56 0.21
124 3 0.01
125 3 0.01
126 157 0.60
127 1 0.00
129 1 0.00
132 41 0.16
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.24
Consensus pattern (125 bp):
GCTACGAGAAGGATCAAAATACATCCAGAGATAGTGATGGTGATATGCTTGATGAAAATAGATCT
ACTGATTCTCATAGCGAGGAGCACGGTAAGAACTTATCGGTAGAAGGGCACGTAATGGTA
Found at i:94196926 original size:25 final size:27
Alignment explanation
Indices: 94196889--94196942 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
94196879 TCAAACATGC
94196889 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
94196915 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
94196941 AT
1 AT
94196943 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:94196950 original size:26 final size:27
Alignment explanation
Indices: 94196906--94196981 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
94196896 TCAATTTAAC
* * *
94196906 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
94196932 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
94196960 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
94196982 ATCTATTCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:94198454 original size:26 final size:26
Alignment explanation
Indices: 94198423--94198530 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
94198413 TGAAATGCCC
*
94198423 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
94198449 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
94198475 ATTATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
94198501 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
94198527 ATCA
1 ATCA
94198531 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:94201091 original size:24 final size:24
Alignment explanation
Indices: 94201063--94201109 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
94201053 ATTGAAATGG
94201063 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
94201087 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
94201110 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:94203303 original size:41 final size:41
Alignment explanation
Indices: 94203252--94203585 Score: 449
Period size: 41 Copynumber: 8.2 Consensus size: 41
94203242 GTTTAGAATA
* *
94203252 AAACGCCACTAAAAACTGAGCAATAGCAGCGTTTCAGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
*
94203293 AAACGCCACTAAAAATCGAGCAATAGCGGCGTTTCAGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* * *
94203334 AAATGCCACTAAAAACCGAGCAATAGCGACGTTTCATGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* * * ** *
94203375 AAGCGCCACTAAAAACTGAGCAATAGTGATGTTTCAGTTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* *
94203416 AAACGCCACTAAAAATCGAGCAATAGTGGCGTTTCAGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
*
94203457 -AACGCCACTAAAAACCAAGCAATAGCGGCGTTTC-GAGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAG-GTCC
* * *
94203497 AAACGCCACTAAAAACCGAGCAATAGTGGCGTTTCTGGTCA
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
* *
94203538 AAACGCCACTAAAAACCGAGCAATAGCAGCGTTTCTA-GTCA
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTC-AGGTCC
94203579 AAACGCC
1 AAACGCC
94203586 GTAAAATTTT
Statistics
Matches: 260, Mismatches: 29, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
39 1 0.00
40 35 0.13
41 223 0.86
42 1 0.00
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (41 bp):
AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTCC
Found at i:94203754 original size:18 final size:17
Alignment explanation
Indices: 94203722--94203756 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
94203712 ATTTTCTTAT
*
94203722 TTTTGTTTTGAATTTGA
1 TTTTATTTTGAATTTGA
94203739 TTTTATTTTGATATTTGA
1 TTTTATTTTGA-ATTTGA
94203757 AACTAACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.66
Consensus pattern (17 bp):
TTTTATTTTGAATTTGA
Found at i:94204141 original size:14 final size:14
Alignment explanation
Indices: 94204098--94204160 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
94204088 TTTATTTTTG
*
94204098 GGTTTAGGGTTTAA
1 GGTTTATGGTTTAA
** *
94204112 TATTTAAGGTTTAA
1 GGTTTATGGTTTAA
94204126 GGTTTATGGTTTAA
1 GGTTTATGGTTTAA
*
94204140 GGTTTTATAGTTTAA
1 GG-TTTATGGTTTAA
*
94204155 GCTTTA
1 GGTTTA
94204161 ATAGCCATAG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
14 28 0.70
15 12 0.30
ACGTcount: A:0.25, C:0.02, G:0.24, T:0.49
Consensus pattern (14 bp):
GGTTTATGGTTTAA
Found at i:94204161 original size:7 final size:7
Alignment explanation
Indices: 94204098--94204144 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
94204088 TTTATTTTTG
*
94204098 GGTTTAG
1 GGTTTAA
94204105 GGTTTAA
1 GGTTTAA
**
94204112 TATTTAA
1 GGTTTAA
94204119 GGTTTAA
1 GGTTTAA
*
94204126 GGTTTAT
1 GGTTTAA
94204133 GGTTTAA
1 GGTTTAA
94204140 GGTTT
1 GGTTT
94204145 TATAGTTTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (7 bp):
GGTTTAA
Found at i:94204530 original size:20 final size:21
Alignment explanation
Indices: 94204479--94204531 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
94204469 TTAAGTTTAT
94204479 GGTTTAAGGTTTGTTATTTTG
1 GGTTTAAGGTTTGTTATTTTG
* **
94204500 GGCTTGGGGTTTG-TATTTTG
1 GGTTTAAGGTTTGTTATTTTG
94204520 GGTTTAAGGTTT
1 GGTTTAAGGTTT
94204532 AGGGTATATA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.11, C:0.02, G:0.34, T:0.53
Consensus pattern (21 bp):
GGTTTAAGGTTTGTTATTTTG
Found at i:94204912 original size:21 final size:21
Alignment explanation
Indices: 94204886--94204979 Score: 56
Period size: 21 Copynumber: 4.5 Consensus size: 21
94204876 TATAAAATTA
*
94204886 TAAAAATTAATTTTATTTTAT
1 TAAAAATTAATTTAATTTTAT
94204907 TAAAAAGTTTAA--TAATTTTAT
1 TAAAAA--TTAATTTAATTTTAT
**
94204928 T-AAAATT--TTATAAAATTA-
1 TAAAAATTAATT-TAATTTTAT
* *
94204946 TACAAATTAATTTTATTTTATT
1 TAAAAATTAATTTAATTTTA-T
94204968 TAAAAGATTAAT
1 TAAAA-ATTAAT
94204980 AAAATTAATT
Statistics
Matches: 54, Mismatches: 8, Indels: 20
0.66 0.10 0.24
Matches are distributed among these distances:
18 3 0.06
19 11 0.20
20 9 0.17
21 17 0.31
22 4 0.07
23 10 0.19
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (21 bp):
TAAAAATTAATTTAATTTTAT
Found at i:94204990 original size:32 final size:32
Alignment explanation
Indices: 94204888--94204990 Score: 92
Period size: 32 Copynumber: 3.3 Consensus size: 32
94204878 TAAAATTATA
* *
94204888 AAAATTAATTTTATTTTATTAAAAAGTTTAAT
1 AAAATTAATTTTATTTTATTTAAAAGATTAAT
* * **
94204920 -AATTTTATTAAAATTTTA--T-AAA-ATT-AT
1 AAAATTAATT-TTATTTTATTTAAAAGATTAAT
94204947 ACAAATTAATTTTATTTTATTTAAAAGATTAAT
1 A-AAATTAATTTTATTTTATTTAAAAGATTAAT
94204980 AAAATTAATTT
1 AAAATTAATTT
94204991 ACTTTTAAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 16
0.67 0.13 0.20
Matches are distributed among these distances:
27 2 0.04
28 8 0.15
29 10 0.19
30 1 0.02
31 10 0.19
32 19 0.36
33 3 0.06
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (32 bp):
AAAATTAATTTTATTTTATTTAAAAGATTAAT
Found at i:94204997 original size:60 final size:59
Alignment explanation
Indices: 94204874--94205290 Score: 216
Period size: 60 Copynumber: 7.1 Consensus size: 59
94204864 TCGTCCACAA
* * * * *
94204874 TTTATAAAATTATAAAAATTAATTTTATTTTATTAAAAAGTTTAAT-AATTTTATTAAAAT
1 TTTATAAAATTAT-AAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATT-TAAT
*
94204934 TTTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACT
1 TTTATAAAATTATA-AAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTAAT
* ** *
94204994 TTTA-AATAA-AATAAAATT-A-TTTA--AAAGTTTAAATA-ATT-ATACAAATTAATTTTAT
1 TTTATAA-AATTATAAAATTAATTTTATTTTA-TTTAAA-AGATTAATA-AAATTAATTTAAT
**
94205049 TTTATTTAAAAGTT-T--AA-TAATTTTATTAAAATTTTATAAA-ATT-ATACAAATTAATTT-A
1 TTTA--TAAAA-TTATAAAATTAATTTTATT-TTA-TTTA-AAAGATTAATA-AAATTAATTTAA
94205107 T
59 T
* ** * * * *
94205108 TTTATATAAACTTTTAATAA--AA--TTATTGAACTTTTAAATA-AAATAAAATT-ATTTAAAAG
1 TTTATA-AAA-TTATAA-AATTAATTTTATTTTA-TTTAAAAGATTAATAAAATTAATTT--AAT
* * * * *
94205167 TTTATATAATTATACAAATTAATTTTATTTTATTTAAAAG-TTCAAT-AATTTTATTAAAAG
1 TTTATAAAATTATA-AAATTAATTTTATTTTATTTAAAAGATT-AATAAAATTAATT-TAAT
* *
94205227 TTTATATAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACT
1 TTTATAAAATTATA-AAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTAAT
94205287 TTTA
1 TTTA
94205291 AATAAAATAA
Statistics
Matches: 286, Mismatches: 33, Indels: 76
0.72 0.08 0.19
Matches are distributed among these distances:
54 4 0.01
55 25 0.09
56 12 0.04
57 23 0.08
58 25 0.09
59 27 0.09
60 136 0.48
61 32 0.11
62 2 0.01
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.48
Consensus pattern (59 bp):
TTTATAAAATTATAAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTAAT
Found at i:94205091 original size:21 final size:21
Alignment explanation
Indices: 94205047--94205091 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
94205037 AATTAATTTT
*
94205047 ATTTTATTTAAAAGTTTAATA
1 ATTTTATTTAAAAGTTTAAAA
*
94205068 ATTTTA-TTAAAATTTTATAAA
1 ATTTTATTTAAAAGTTTA-AAA
94205089 ATT
1 ATT
94205092 ATACAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
ATTTTATTTAAAAGTTTAAAA
Found at i:94205133 original size:21 final size:21
Alignment explanation
Indices: 94205109--94205151 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
94205099 TTAATTTATT
94205109 TTATATAAACTTTT-AATAAAA
1 TTAT-TAAACTTTTAAATAAAA
*
94205130 TTATTGAACTTTTAAATAAAA
1 TTATTAAACTTTTAAATAAAA
94205151 T
1 T
94205152 AAAATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (21 bp):
TTATTAAACTTTTAAATAAAA
Found at i:94205143 original size:59 final size:60
Alignment explanation
Indices: 94205003--94205143 Score: 178
Period size: 59 Copynumber: 2.4 Consensus size: 60
94204993 TTTTAAATAA
* *
94205003 AATAAAATTATTTAAAAGTTTA-AATAATTATACAAATTAATTTTATTTTATTTAAAAGTTT
1 AATAAAATTA-TTAAAATTTTATAA-AATTATACAAATTAATTTTATTTTATATAAAAGTTT
** **
94205064 AATAATTTTATTAAAATTTTATAAAATTATACAAATTAA-TTTATTTTATATAAACTTTT
1 AATAAAATTATTAAAATTTTATAAAATTATACAAATTAATTTTATTTTATATAAAAGTTT
* *
94205123 AATAAAATTATTGAACTTTTA
1 AATAAAATTATTAAAATTTTA
94205144 AATAAAATAA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
59 34 0.49
60 25 0.36
61 10 0.14
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (60 bp):
AATAAAATTATTAAAATTTTATAAAATTATACAAATTAATTTTATTTTATATAAAAGTTT
Found at i:94205179 original size:20 final size:20
Alignment explanation
Indices: 94205154--94205239 Score: 70
Period size: 20 Copynumber: 4.3 Consensus size: 20
94205144 AATAAAATAA
94205154 AATTATTTAAAAGTTTATAT
1 AATTATTTAAAAGTTTATAT
** *
94205174 AATTATACAAATTAATTT-TAT
1 AATTATTTAAA--AGTTTATAT
* *
94205195 -TTTATTTAAAAGTTCA-AT
1 AATTATTTAAAAGTTTATAT
*
94205213 AATTTTATTAAAAGTTTATAT
1 AATTAT-TTAAAAGTTTATAT
94205234 AATTAT
1 AATTAT
94205240 ACAAATTAAT
Statistics
Matches: 48, Mismatches: 12, Indels: 11
0.68 0.17 0.15
Matches are distributed among these distances:
18 5 0.10
19 3 0.06
20 26 0.54
21 10 0.21
22 4 0.08
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.50
Consensus pattern (20 bp):
AATTATTTAAAAGTTTATAT
Found at i:94205184 original size:146 final size:147
Alignment explanation
Indices: 94204881--94205360 Score: 820
Period size: 147 Copynumber: 3.3 Consensus size: 147
94204871 CAATTTATAA
* *
94204881 AATTATAAAAATTAATTTTATTTTATTAAAAAGTTTAATAATTTTATTAAAATTTTATAAAATTA
1 AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAATTTTATAAAATTA
94204946 TACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAATAAAAT
66 TACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAATAAAAT
94205011 TATTTAAAAGTTTAAAT
131 TATTTAAAAGTTTAAAT
94205028 AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAATTTTATAAAATTA
1 AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAATTTTATAAAATTA
* *** *
94205093 TACAAATTAA-TTTATTTTATATAAACTTTTAATAAAATT-ATTGAACTTTTAAATAAAATAAAA
66 TACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATT-TACTTTTAAATAAAATAAAA
*
94205156 TTATTTAAAAGTTTATAT
130 TTATTTAAAAGTTTAAAT
* * *
94205174 AATTATACAAATTAATTTTATTTTATTTAAAAGTTCAATAATTTTATTAAAAGTTTATATAATTA
1 AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAATTTTATAAAATTA
94205239 TACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAATAAAAT
66 TACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAATAAAAT
94205304 TATTTAAAAGTTTAAAT
131 TATTTAAAAGTTTAAAT
**
94205321 AATTATATGAATTAATTTTATTTTATTTAAAAGTTTAATA
1 AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATA
94205361 CAAATTATTT
Statistics
Matches: 310, Mismatches: 20, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
145 3 0.01
146 133 0.43
147 171 0.55
148 3 0.01
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (147 bp):
AATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAATTTTATAAAATTA
TACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAATAAAAT
TATTTAAAAGTTTAAAT
Found at i:94205217 original size:21 final size:21
Alignment explanation
Indices: 94205193--94205237 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
94205183 AATTAATTTT
94205193 ATTTTATTTAAAAGTTCA-ATA
1 ATTTTA-TTAAAAGTTCATATA
*
94205214 ATTTTATTAAAAGTTTATATA
1 ATTTTATTAAAAGTTCATATA
94205235 ATT
1 ATT
94205238 ATACAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (21 bp):
ATTTTATTAAAAGTTCATATA
Found at i:94206598 original size:16 final size:16
Alignment explanation
Indices: 94206556--94206613 Score: 82
Period size: 17 Copynumber: 3.6 Consensus size: 16
94206546 ATTTGCCCGG
94206556 CCCAAAACCCAACTAT
1 CCCAAAACCCAACTAT
*
94206572 CCCTTAAACCCAACTAT
1 CCC-AAAACCCAACTAT
*
94206589 CCCAAAACCCAAC-AA
1 CCCAAAACCCAACTAT
94206604 CCCAAAACCC
1 CCCAAAACCC
94206614 TTTTAACCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.29
16 12 0.32
17 15 0.39
ACGTcount: A:0.43, C:0.47, G:0.00, T:0.10
Consensus pattern (16 bp):
CCCAAAACCCAACTAT
Found at i:94207700 original size:21 final size:21
Alignment explanation
Indices: 94207689--94207750 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 21
94207679 ATCATTAAAT
94207689 TAATTATTTTTAATATTAATA
1 TAATTATTTTTAATATTAATA
* *
94207710 TAATTATTATATCATATTTAATA
1 TAATTATT-TTTAATA-TTAATA
* * *
94207733 TTATTATTATTATTATTA
1 TAATTATTTTTAATATTA
94207751 TTAGGTTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
21 11 0.34
22 8 0.25
23 13 0.41
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TAATTATTTTTAATATTAATA
Found at i:94207953 original size:11 final size:11
Alignment explanation
Indices: 94207937--94207964 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
94207927 TAATAATATT
94207937 ATTATTATTAC
1 ATTATTATTAC
94207948 ATTATTATTAC
1 ATTATTATTAC
94207959 ATTATT
1 ATTATT
94207965 TTATTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTATTATTAC
Found at i:94208023 original size:187 final size:187
Alignment explanation
Indices: 94207797--94208359 Score: 981
Period size: 187 Copynumber: 3.0 Consensus size: 187
94207787 AATATTATTA
94207797 TGTTACTTATTATTTGCTACTTTTTTAATATTATTAATATATTCTATTTATTTTTTGTACTGCAT
1 TGTTACTTATTATTTGCTACTTTTTTAATATTATTAATATATTCTATTTATTTTTTGTACTGCAT
94207862 TATAATTTTTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTTAT
66 TATAATTTTTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTTAT
* *
94207927 TAATAATATTATTATTATTACATTATTATTACATTATTTTATTATTTTCCTTTTTTAT
131 TACT-ATATTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTAT
*
94207985 TGTTACTTATTATTTGCTA-TTTTTTAGTATTATTAATATATTCTATTTATTTTTTGTACTGCAT
1 TGTTACTTATTATTTGCTACTTTTTTAATATTATTAATATATTCTATTTATTTTTTGTACTGCAT
* * * *
94208049 TATAATTTTCATTATCATATTATATTTAGTATTGCTTTAACATTATGTTAACTATTATATTTCAT
66 TATAATTTTTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTTAT
94208114 TACT-T-TTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTAT
131 TACTATATTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTAT
* *
94208169 TGTTACTTACTATTTGCTACTTTTTTTAATATTATTAATATATTCTATTTATTTCTTGTACTGCA
1 TGTTACTTATTATTTGCTAC-TTTTTTAATATTATTAATATATTCTATTTATTTTTTGTACTGCA
*
94208234 TTATAATTATTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTTA
65 TTATAATTTTTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTTA
94208299 TTACTATTATTATTATTATTACATTATTAGTACATTATTTTATTATTTT-CTTTTTTAT
130 TTACTA-TATTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTAT
94208357 TGT
1 TGT
94208360 AAATATTATT
Statistics
Matches: 355, Mismatches: 15, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
184 67 0.19
185 1 0.00
186 107 0.30
187 108 0.30
188 32 0.09
189 40 0.11
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.60
Consensus pattern (187 bp):
TGTTACTTATTATTTGCTACTTTTTTAATATTATTAATATATTCTATTTATTTTTTGTACTGCAT
TATAATTTTTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTTAT
TACTATATTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTAT
Found at i:94208261 original size:186 final size:185
Alignment explanation
Indices: 94207797--94208359 Score: 961
Period size: 186 Copynumber: 3.0 Consensus size: 185
94207787 AATATTATTA
94207797 TGTTACTTATTATTTGCTACTTTTTTAATATTATTAATATATTCTATTTATTTTTTGTACTGCAT
1 TGTTACTTATTATTTGCTACTTTTTTAATATTATTAATATATTCTATTTATTTTTTGTACTGCAT
94207862 TATAATTTTTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTTAT
66 TATAA-TTTTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTTAT
* *
94207927 TAATAATATTATTATTATTACATTATTATTACATTATTTTATTATTTTCCTTTTTTAT
130 TACT--TATTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTAT
*
94207985 TGTTACTTATTATTTGCTA-TTTTTTAGTATTATTAATATATTCTATTTATTTTTTGTACTGCAT
1 TGTTACTTATTATTTGCTACTTTTTTAATATTATTAATATATTCTATTTATTTTTTGTACTGCAT
* * *
94208049 TATAATTTTCATTATCATATTATATTTAGTATTGCTTTAACATTATGTTAACTATTATATTTCAT
66 TATAATTTT-ATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTTAT
94208114 TACTT-TTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTAT
130 TACTTATTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTAT
* *
94208169 TGTTACTTACTATTTGCTACTTTTTTTAATATTATTAATATATTCTATTTATTTCTTGTACTGCA
1 TGTTACTTATTATTTGCTAC-TTTTTTAATATTATTAATATATTCTATTTATTTTTTGTACTGCA
94208234 TTATAATTATTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTTA
65 TTATAATT-TTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTTA
94208299 TTACTATTATTATTATTATTACATTATTAGTACATTATTTTATTATTTT-CTTTTTTAT
129 TTAC--TTATTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTAT
94208357 TGT
1 TGT
94208360 AAATATTATT
Statistics
Matches: 356, Mismatches: 12, Indels: 14
0.93 0.03 0.04
Matches are distributed among these distances:
184 67 0.19
185 1 0.00
186 109 0.31
187 106 0.30
188 33 0.09
189 40 0.11
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.60
Consensus pattern (185 bp):
TGTTACTTATTATTTGCTACTTTTTTAATATTATTAATATATTCTATTTATTTTTTGTACTGCAT
TATAATTTTATTATCATATTATATTTAGTATTGCTTTAATATTATATTAACTATTATATTTTATT
ACTTATTATTATTATTACATTATTAGTACATTATTTTATTATTTTCCTTTTTTAT
Found at i:94208400 original size:13 final size:13
Alignment explanation
Indices: 94208382--94208407 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94208372 TCTTATTCTA
94208382 ATATTTTAATATT
1 ATATTTTAATATT
94208395 ATATTTTAATATT
1 ATATTTTAATATT
94208408 TTTCATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATATTTTAATATT
Found at i:94211788 original size:39 final size:39
Alignment explanation
Indices: 94211744--94211903 Score: 275
Period size: 39 Copynumber: 4.1 Consensus size: 39
94211734 AATTATATTA
* * *
94211744 CCAGCACAAAGCCTGCGGGACTTTAGCTCGGAGACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
94211783 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
94211822 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
94211861 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
94211900 CCAG
1 CCAG
94211904 TGTCTTGCTT
Statistics
Matches: 117, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 117 1.00
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:94212941 original size:9 final size:9
Alignment explanation
Indices: 94212927--94212983 Score: 66
Period size: 9 Copynumber: 6.7 Consensus size: 9
94212917 CAAATGAAAA
94212927 TTAATGTTT
1 TTAATGTTT
*
94212936 TTAATG--A
1 TTAATGTTT
*
94212943 TTAATTTTT
1 TTAATGTTT
*
94212952 TTAATG-AT
1 TTAATGTTT
94212960 TTAATGTTT
1 TTAATGTTT
94212969 TTAATGTTT
1 TTAATGTTT
94212978 TTAATG
1 TTAATG
94212984 ATTTAAACTT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
7 5 0.13
8 7 0.18
9 27 0.69
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (9 bp):
TTAATGTTT
Found at i:94212947 original size:16 final size:16
Alignment explanation
Indices: 94212926--94212974 Score: 80
Period size: 16 Copynumber: 3.0 Consensus size: 16
94212916 TCAAATGAAA
94212926 ATTAATGTTTTTAATG
1 ATTAATGTTTTTAATG
*
94212942 ATTAATTTTTTTAATG
1 ATTAATGTTTTTAATG
94212958 ATTTAATGTTTTTAATG
1 A-TTAATGTTTTTAATG
94212975 TTTTTAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 16 0.53
17 14 0.47
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (16 bp):
ATTAATGTTTTTAATG
Found at i:94216034 original size:5 final size:5
Alignment explanation
Indices: 94216026--94216053 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
94216016 TTTGAATATG
94216026 TTATT TTATT TTATT TTATT TTATT TTA
1 TTATT TTATT TTATT TTATT TTATT TTA
94216054 ATCACAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:94216138 original size:98 final size:98
Alignment explanation
Indices: 94216032--94216317 Score: 391
Period size: 103 Copynumber: 2.9 Consensus size: 98
94216022 TATGTTATTT
*
94216032 TATTTTATTTTATTTTATTTTAATCACAAAAAATATTTTGTCTACTTTTATTTTTAAATTACCTA
1 TATTTTATTTTATTTTATTTTAATCACAAAAAATATTTTGTCTACTTTTATTTTTAAATAACCTA
94216097 ATTAAATTAAATTGAATTTAAAGTTTTTTTAAA
66 ATTAAATTAAATTGAATTTAAAGTTTTTTTAAA
** *
94216130 TATTTTATTGCATTTTATTTTAATCACAAAAAATATTTTGTCTACTCTTATTTTATTTTTAAATC
1 TATTTTATTTTATTTTATTTTAATCACAAAAAATATTTTGTCTA--C---TTTTATTTTTAAATA
*
94216195 ACCTAATTAAATTAAATT-ATATTTAAAGTTTTTTTTAA
61 ACCTAATTAAATTAAATTGA-ATTTAAAGTTTTTTTAAA
*
94216233 -A-TTT-TTTTATTTTATTTTAATCACAAAAAATATTTTGTTTACTTTTATTTTTTGTTAAATAA
1 TATTTTATTTTATTTTATTTTAATCACAAAAAATATTTTGTCTACTTTTA---TTT-TTAAATAA
*
94216295 CCTAATTAAATTAAATTGTATTT
62 CCTAATTAAATTAAATTGAATTT
94216318 TTAAATATTG
Statistics
Matches: 168, Mismatches: 9, Indels: 21
0.85 0.05 0.11
Matches are distributed among these distances:
95 5 0.03
98 46 0.27
99 28 0.17
100 35 0.21
101 3 0.02
102 2 0.01
103 49 0.29
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (98 bp):
TATTTTATTTTATTTTATTTTAATCACAAAAAATATTTTGTCTACTTTTATTTTTAAATAACCTA
ATTAAATTAAATTGAATTTAAAGTTTTTTTAAA
Found at i:94216600 original size:9 final size:9
Alignment explanation
Indices: 94216584--94216637 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
94216574 ATATCATATC
94216584 TTACATAAT
1 TTACATAAT
*
94216593 TTACATAAG
1 TTACATAAT
* * * *
94216602 ATAAACAAC
1 TTACATAAT
94216611 TTACATAAT
1 TTACATAAT
*
94216620 TTACATAAC
1 TTACATAAT
94216629 TTACATAAT
1 TTACATAAT
94216638 ACATAAATAT
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (9 bp):
TTACATAAT
Found at i:94216629 original size:18 final size:18
Alignment explanation
Indices: 94216584--94216637 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
94216574 ATATCATATC
* *
94216584 TTACATAATTTACATAAG
1 TTACATAACTTACATAAT
* * *
94216602 ATAAACAACTTACATAAT
1 TTACATAACTTACATAAT
94216620 TTACATAACTTACATAAT
1 TTACATAACTTACATAAT
94216638 ACATAAATAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (18 bp):
TTACATAACTTACATAAT
Found at i:94221729 original size:13 final size:14
Alignment explanation
Indices: 94221713--94221741 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
94221703 TTATAAATAT
94221713 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
94221726 TTATAATGGTTTAA
1 TTATAATGGTTTAA
94221740 TT
1 TT
94221742 TGTAATGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:94221749 original size:15 final size:15
Alignment explanation
Indices: 94221711--94221750 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
94221701 TATTATAAAT
94221711 ATTTATAAT-GTTTA
1 ATTTATAATGGTTTA
94221725 A-TTATAATGGTTTA
1 ATTTATAATGGTTTA
*
94221739 ATTTGTAATGGT
1 ATTTATAATGGT
94221751 GTAAATTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 7 0.30
14 7 0.30
15 9 0.39
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.53
Consensus pattern (15 bp):
ATTTATAATGGTTTA
Found at i:94225151 original size:21 final size:21
Alignment explanation
Indices: 94225122--94225175 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
94225112 ACAACTTCGA
94225122 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGGGAG
* *
94225143 GCAGCGGCAGCAGCGAGGGAG
1 GCAGAGGCAGCAGAGAGGGAG
94225164 GCAGAGGCAGCA
1 GCAGAGGCAGCA
94225176 ACGATGGCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.20, G:0.50, T:0.00
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGGGAG
Found at i:94225454 original size:33 final size:33
Alignment explanation
Indices: 94225412--94225492 Score: 112
Period size: 31 Copynumber: 2.5 Consensus size: 33
94225402 TTAGATTTAA
* * *
94225412 TGTTTTTGGTTGTATTTTTTATGTTACATTTGC
1 TGTTTTTGGTTGGATTTTTCATGCTACATTTGC
*
94225445 TGTTTTTGGTTGGA--TTTCATGCTATATTTGC
1 TGTTTTTGGTTGGATTTTTCATGCTACATTTGC
94225476 TGTTTTTGGTTGGATTT
1 TGTTTTTGGTTGGATTT
94225493 AATGCAGGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 28 0.67
33 14 0.33
ACGTcount: A:0.11, C:0.06, G:0.22, T:0.60
Consensus pattern (33 bp):
TGTTTTTGGTTGGATTTTTCATGCTACATTTGC
Found at i:94230660 original size:51 final size:51
Alignment explanation
Indices: 94230575--94230691 Score: 189
Period size: 51 Copynumber: 2.3 Consensus size: 51
94230565 ATTTCTGATC
* *
94230575 AGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAATGAAA
* * *
94230626 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGAAA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAATGAAA
94230677 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
94230692 ACGTGATCCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAATGAAA
Found at i:94235256 original size:51 final size:51
Alignment explanation
Indices: 94235170--94235277 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 51
94235160 TATTTCTGAT
*
94235170 AAGTGGCAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAGTGAC
1 AAGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAGTGAC
* * *
94235221 AAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGAC
1 AAGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAGTGAC
94235272 AAGTGA
1 AAGTGA
94235278 TAAATGTGAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (51 bp):
AAGTGACAAGTGATAAGTGGTAGCCTCAGCCACACTTATCTGATCAGTGAC
Found at i:94238446 original size:42 final size:43
Alignment explanation
Indices: 94238338--94238448 Score: 127
Period size: 42 Copynumber: 2.6 Consensus size: 43
94238328 ATCAAGTACA
** * *
94238338 ATGCCAACGTCCCAGACATGGTCTTACATGTAATTTAATATCG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAAATCAATATCG
** *
94238381 ATGCCTCTATCCCAGACAGGGTCTTACATG-AAATCAGATA-CG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAAATCA-ATATCG
*
94238423 ATGCCAATATCCCAAACATGGTCTTA
1 ATGCCAATATCCCAGACATGGTCTTA
94238449 TACTTAAATC
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
42 28 0.50
43 28 0.50
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACATGTAAATCAATATCG
Found at i:94242336 original size:17 final size:17
Alignment explanation
Indices: 94242314--94242347 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
94242304 AAATATAACA
*
94242314 TTTTTGAATAATACTTG
1 TTTTTGAATAAAACTTG
94242331 TTTTTGAATAAAACTTG
1 TTTTTGAATAAAACTTG
94242348 ATAAATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.50
Consensus pattern (17 bp):
TTTTTGAATAAAACTTG
Found at i:94243809 original size:66 final size:65
Alignment explanation
Indices: 94243724--94243865 Score: 148
Period size: 66 Copynumber: 2.1 Consensus size: 65
94243714 CACGGCCGGC
*
94243724 CACACCCTCGTGTGTCTAGG-C-AGTGCCAAATCT-GTAGGGTATACTGACTTATGCAACACGGC
1 CACACCC-CGTGTGTCTAGGCCGAGTGCC-AAT-TAG-AGGGTATACTGACTTATACAACACGGC
94243786 CAAGT
62 CAA-T
* * * *
94243791 CACACGCCCGTGTG-CTAGGCCGTGTGCCAATTAGGGGGTATACTGACTTGTACCACACGGCCAA
1 CACAC-CCCGTGTGTCTAGGCCGAGTGCCAATTAGAGGGTATACTGACTTATACAACACGGCCAA
94243855 T
65 T
94243856 CACACACCCG
1 CACAC-CCCG
94243866 CATGTGAGAC
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
65 10 0.15
66 32 0.49
67 16 0.25
68 7 0.11
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.21
Consensus pattern (65 bp):
CACACCCCGTGTGTCTAGGCCGAGTGCCAATTAGAGGGTATACTGACTTATACAACACGGCCAAT
Found at i:94247157 original size:31 final size:31
Alignment explanation
Indices: 94247119--94247182 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
94247109 CCTTTTCATA
94247119 TTTCATATTTCATAACACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
** * *
94247150 TTTCATATTTCATATTATTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
94247181 TT
1 TT
94247183 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:94247459 original size:25 final size:24
Alignment explanation
Indices: 94247376--94247472 Score: 117
Period size: 25 Copynumber: 4.0 Consensus size: 24
94247366 GCTTTATCAT
*
94247376 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
94247401 ATAAATGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
94247424 ATAACTAGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
94247449 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
94247473 CACTTCCTCC
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.26
24 17 0.27
25 29 0.47
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:94247546 original size:20 final size:20
Alignment explanation
Indices: 94247521--94247587 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
94247511 TTATGAATAC
94247521 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
94247541 ATCATGTGCATAGCATACAT
1 ATCATGTGCATATCATACAT
*
94247561 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
94247581 ACCATGT
1 ATCATGT
94247588 TTACTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:94256576 original size:6 final size:6
Alignment explanation
Indices: 94256565--94256591 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
94256555 AGAATGCACC
94256565 GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTA
94256592 GTGGTACACA
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:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:94257501 original size:19 final size:19
Alignment explanation
Indices: 94257466--94257514 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
94257456 TGTTTCGTCC
* *
94257466 TTCTTTCTTTCCTTTTTCTT
1 TTCTTTATTT-CTTTTTATT
94257486 TAT-TTTATTTCTTTTTATT
1 T-TCTTTATTTCTTTTTATT
94257505 TTCTTTATTT
1 TTCTTTATTT
94257515 ATTTGAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 1 0.04
19 16 0.64
20 7 0.28
21 1 0.04
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (19 bp):
TTCTTTATTTCTTTTTATT
Found at i:94258255 original size:28 final size:29
Alignment explanation
Indices: 94258224--94258282 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
94258214 CAAAATACTG
**
94258224 ATAT-CATGGCCTGAAGCCAAATCAGCTT
1 ATATGCATGGCCCAAAGCCAAATCAGCTT
*
94258252 ATATGCATGGCCCAAAGCCAAATCAGTTT
1 ATATGCATGGCCCAAAGCCAAATCAGCTT
94258281 AT
1 AT
94258283 CTTGCACCCG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (29 bp):
ATATGCATGGCCCAAAGCCAAATCAGCTT
Found at i:94260743 original size:31 final size:32
Alignment explanation
Indices: 94260707--94260769 Score: 119
Period size: 31 Copynumber: 2.0 Consensus size: 32
94260697 GTTAGATGTA
94260707 AGAAATGACAAAAAAA-AGAGGACTTTTAGTT
1 AGAAATGACAAAAAAAGAGAGGACTTTTAGTT
94260738 AGAAATGACAAAAAAAGAGAGGACTTTTAGTT
1 AGAAATGACAAAAAAAGAGAGGACTTTTAGTT
94260770 TTGGGATGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 16 0.52
32 15 0.48
ACGTcount: A:0.51, C:0.06, G:0.21, T:0.22
Consensus pattern (32 bp):
AGAAATGACAAAAAAAGAGAGGACTTTTAGTT
Found at i:94264773 original size:21 final size:20
Alignment explanation
Indices: 94264749--94264787 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
94264739 GAAACTGAGT
*
94264749 CATTAGAGTTGAAATTGAAAC
1 CATTAGA-TTGAAAATGAAAC
*
94264770 CATTATATTGAAAATGAA
1 CATTAGATTGAAAATGAA
94264788 TCTACAATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (20 bp):
CATTAGATTGAAAATGAAAC
Found at i:94278530 original size:23 final size:23
Alignment explanation
Indices: 94278492--94278550 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
94278482 GCATGTACAT
94278492 AATATATATATAATAGTGTTAGA
1 AATATATATATAATAGTGTTAGA
*
94278515 AATATACTATAT-ATAGTGTTTGA
1 AATATA-TATATAATAGTGTTAGA
* *
94278538 AGTATATACATAA
1 AATATATATATAA
94278551 GATAGTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 4 0.13
23 22 0.71
24 5 0.16
ACGTcount: A:0.46, C:0.03, G:0.12, T:0.39
Consensus pattern (23 bp):
AATATATATATAATAGTGTTAGA
Found at i:94279150 original size:24 final size:24
Alignment explanation
Indices: 94279095--94279153 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
94279085 CACTAATATT
*
94279095 TATAAATAATAATAGTAAATGTAA
1 TATAAATAATAATAGTAAATATAA
* * *
94279119 TA-ATAATAATAATATTAAGTATAG
1 TATA-AATAATAATAGTAAATATAA
94279143 TATAAATAATA
1 TATAAATAATA
94279154 TGTACATAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.03
24 27 0.93
25 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (24 bp):
TATAAATAATAATAGTAAATATAA
Found at i:94279176 original size:3 final size:3
Alignment explanation
Indices: 94279168--94279201 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
94279158 CATAACAGTG
*
94279168 ATA ATA ATA AGTA ACA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
94279202 TAGAAATTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:94279275 original size:3 final size:3
Alignment explanation
Indices: 94279267--94279404 Score: 120
Period size: 3 Copynumber: 45.0 Consensus size: 3
94279257 ATATTTATAT
* * *
94279267 ATA ATA ATA GTA A-A TATA ATA ATA ATA ATA ATA ATG ATA ATG ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
94279312 ATA ATA ATA ATA ATA ATA ATA TTA AGT- ATA GT- ATAA ATA ATA TGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA AT-A ATA ATA -ATA
* * *
94279358 CATA ACA GTA ATA ATA ATA AGTA ACA ATA ATA ATA ATA ATA ATA ATA
1 -ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA
94279405 TAGAAATTCA
Statistics
Matches: 108, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
2 3 0.03
3 94 0.87
4 11 0.10
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:94279453 original size:19 final size:19
Alignment explanation
Indices: 94279267--94279454 Score: 80
Period size: 21 Copynumber: 9.3 Consensus size: 19
94279257 ATATTTATAT
* *
94279267 ATAATAATAGT-AAATATA
1 ATAATAATAATAAAATAAA
*
94279285 ATAATAATAATAATAATGATA
1 ATAATAATAATAA-AAT-AAA
*
94279306 ATGATAATAATAATAATAATA
1 ATAATAATAATAA-AATAA-A
* * *
94279327 ATAATATTAAGTATAGTATAA
1 ATAATAATAA-TAAAATA-AA
* *
94279348 ATAATATGTACATAACAGT--A
1 ATAATA-ATA-ATAA-AATAAA
94279368 ATAATAATAAGTAACAATAATA
1 ATAATAATAA-TAA-AATAA-A
*
94279390 ATAATAATAATAATATAGAA
1 ATAATAATAATAAAATA-AA
*
94279410 ATTCAA-AA-AACTAAACATAAT
1 A-T-AATAATAA-TAAA-ATAAA
*
94279431 ATAATAATATTAAAATAAA
1 ATAATAATAATAAAATAAA
94279450 ATAAT
1 ATAAT
94279455 TTAAAAATAC
Statistics
Matches: 134, Mismatches: 16, Indels: 39
0.71 0.08 0.21
Matches are distributed among these distances:
18 11 0.08
19 20 0.15
20 25 0.19
21 51 0.38
22 23 0.17
23 4 0.03
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (19 bp):
ATAATAATAATAAAATAAA
Found at i:94279463 original size:16 final size:16
Alignment explanation
Indices: 94279428--94279460 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
94279418 AACTAAACAT
*
94279428 AATATAATAATATTAA
1 AATAAAATAATATTAA
94279444 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
94279459 AA
1 AA
94279461 ATACTATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:94282652 original size:36 final size:35
Alignment explanation
Indices: 94282574--94282652 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 35
94282564 AATATAATAT
* * *
94282574 CTATCATATGGCATGAAAACATATCCGCACTTTTA
1 CTATCACATGGCATGAAAACATACCCGCACTTTCA
*
94282609 CTATCACATGGCATGAATAACATACCCTCA-TATTCA
1 CTATCACATGGCATGAA-AACATACCCGCACT-TTCA
*
94282645 CTTTCACA
1 CTATCACA
94282653 ACAGTCATCA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
35 17 0.46
36 20 0.54
ACGTcount: A:0.34, C:0.27, G:0.09, T:0.30
Consensus pattern (35 bp):
CTATCACATGGCATGAAAACATACCCGCACTTTCA
Found at i:94293560 original size:38 final size:38
Alignment explanation
Indices: 94293501--94293706 Score: 169
Period size: 38 Copynumber: 4.9 Consensus size: 38
94293491 TTTCAAATTA
* * *
94293501 ACATGTATAACTGTGGCATATCCACTTAGCACCACGTT
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
94293539 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCACG-T--T
* *
94293580 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGT-T-TAACCGTGGTATATCCACTTAGCACCACGTT
*
94293624 ACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGTT
1 ACATG--------T-T-TAACCGTGGTATATCCACTTAGCACCACGTT
* *
94293672 ACACGTATAACCGTGGTATATCCACTTAGCACCAC
1 ACATGTTTAACCGTGGTATATCCACTTAGCACCAC
94293707 ATTTTTTTCA
Statistics
Matches: 139, Mismatches: 12, Indels: 34
0.75 0.06 0.18
Matches are distributed among these distances:
38 60 0.43
39 1 0.01
40 3 0.02
41 2 0.01
42 1 0.01
43 1 0.01
44 2 0.01
45 3 0.02
46 2 0.01
47 28 0.20
48 36 0.26
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (38 bp):
ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:94293655 original size:48 final size:48
Alignment explanation
Indices: 94293541--94293679 Score: 217
Period size: 48 Copynumber: 2.9 Consensus size: 48
94293531 ACCACGTTAC
* *
94293541 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
94293588 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
94293636 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
94293680 AACCGTGGTA
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
47 34 0.41
48 49 0.59
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:94295611 original size:13 final size:13
Alignment explanation
Indices: 94295593--94295617 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94295583 CTAAATCATA
94295593 ATTTTAGTAAAAT
1 ATTTTAGTAAAAT
94295606 ATTTTAGTAAAA
1 ATTTTAGTAAAA
94295618 CCTTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTTTAGTAAAAT
Found at i:94297319 original size:54 final size:54
Alignment explanation
Indices: 94297256--94297373 Score: 218
Period size: 54 Copynumber: 2.2 Consensus size: 54
94297246 TAAATATCAA
*
94297256 GGTCTCAATGAGCTGGACAGTGAATCTGTGATGGAAATTTTGTTGCCTAAAGCT
1 GGTCTCAATGAGCTGGACAGTGAATCTGTGATAGAAATTTTGTTGCCTAAAGCT
*
94297310 GGTCTCAATGAGCTGGACTGTGAATCTGTGATAGAAATTTTGTTGCCTAAAGCT
1 GGTCTCAATGAGCTGGACAGTGAATCTGTGATAGAAATTTTGTTGCCTAAAGCT
94297364 GGTCTCAATG
1 GGTCTCAATG
94297374 GCCCAGAACT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.32
Consensus pattern (54 bp):
GGTCTCAATGAGCTGGACAGTGAATCTGTGATAGAAATTTTGTTGCCTAAAGCT
Found at i:94297539 original size:22 final size:22
Alignment explanation
Indices: 94297511--94297557 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
94297501 GAATAGGATT
* *
94297511 TGTTTTGTACAGTTTTCGTCGG
1 TGTTTTGTACAGTATTAGTCGG
94297533 TGTTTTGTACAGTATTAGTCGG
1 TGTTTTGTACAGTATTAGTCGG
94297555 TGT
1 TGT
94297558 CATTCGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.11, G:0.28, T:0.49
Consensus pattern (22 bp):
TGTTTTGTACAGTATTAGTCGG
Found at i:94303364 original size:49 final size:49
Alignment explanation
Indices: 94303301--94303433 Score: 194
Period size: 49 Copynumber: 2.7 Consensus size: 49
94303291 TATTTGCTAT
* * **
94303301 CTTCAGTCTGTTCCACTGCAACTTCAGAGAGATAGGATCTGTAATTTAG
1 CTTCAATCTGTTCCACTGCAACTTCAGAGAAATAAAATCTGTAATTTAG
* *
94303350 CTTCAATCTGTTCCACTGTAACTTCAGGGAAATAAAATCTGTAATTTAG
1 CTTCAATCTGTTCCACTGCAACTTCAGAGAAATAAAATCTGTAATTTAG
* *
94303399 CTTCAATCTATTCCACTGCAACTTCAGGGAAATAA
1 CTTCAATCTGTTCCACTGCAACTTCAGAGAAATAA
94303434 GATTCGCTAT
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 76 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (49 bp):
CTTCAATCTGTTCCACTGCAACTTCAGAGAAATAAAATCTGTAATTTAG
Found at i:94303654 original size:44 final size:44
Alignment explanation
Indices: 94303583--94303743 Score: 137
Period size: 44 Copynumber: 3.6 Consensus size: 44
94303573 AATTTTTAGC
* * *
94303583 CTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCACTTCTGCT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCACTTCTGCT
* * ** *
94303627 ATGTTTCCCTACTGCTTAGGGGGTTAAGATTCATCAATCTTCAGC-
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATC-A-CTTCTGCT
** * ** *
94303672 CTGTTACCCTACTATTTAGGGGTTTAAGGCTTGTCACATT-TGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCAC-TTCTGCT
* *
94303716 CTGTTTCCCTATTGCTTAGGGGGTTAAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAG
94303744 ATCTGTGAAT
Statistics
Matches: 89, Mismatches: 24, Indels: 8
0.74 0.20 0.07
Matches are distributed among these distances:
43 2 0.02
44 54 0.61
45 27 0.30
46 6 0.07
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCACTTCTGCT
Found at i:94303683 original size:45 final size:43
Alignment explanation
Indices: 94303580--94303783 Score: 117
Period size: 44 Copynumber: 4.7 Consensus size: 43
94303570 TGTAATTTTT
* * *** *
94303580 AGCCTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCACTTC
1 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGATTCATCAATTC
* * *
94303623 TGCTATGTTTCCCTACTGCTTAGGGGGTTAAGATTCATCAATCTTC
1 AGC-CTGTTACCCTACTGCTTAGGGGGTTAAGATTCATCAA--TTC
** * * *
94303669 AGCCTGTTACCCTACTATTTAGGGGTTTAAGGCTT-GTCACATT-
1 AGCCTGTTACCCTACTGCTTAGGGGGTTAA-GATTCATCA-ATTC
* * * * * *
94303712 TGATCTGTTTCCCTATTGCTTAGGGGGTTAAGA-TCTGTGAATTC
1 AG-CCTGTTACCCTACTGCTTAGGGGGTTAAGATTC-ATCAATTC
* **
94303756 AACCTGTTACCCTACTATTTAGGGGGTT
1 AGCCTGTTACCCTACTGCTTAGGGGGTT
94303784 TAGGTTTGTC
Statistics
Matches: 119, Mismatches: 33, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
42 1 0.01
43 28 0.24
44 56 0.47
45 25 0.21
46 9 0.08
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (43 bp):
AGCCTGTTACCCTACTGCTTAGGGGGTTAAGATTCATCAATTC
Found at i:94303732 original size:89 final size:87
Alignment explanation
Indices: 94303580--94304135 Score: 397
Period size: 89 Copynumber: 6.4 Consensus size: 87
94303570 TGTAATTTTT
* * *** * *
94303580 AGCCTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCACTTCTGCTATGTTTCCCTACTGCTTA
1 AGCCTGTTACCCTACTACTTAGGGGTTTAAGGCTTGTCACTT-TGATCTGTTTCCCTACTGCTTA
*
94303645 GGGGGTTAAGATTCATCAATCTTC
65 GGGGGTTAAGATTCGTCAAT-TTC
* *
94303669 AGCCTGTTACCCTACTATTTAGGGGTTTAAGGCTTGTCACATTTGATCTGTTTCCCTATTGCTTA
1 AGCCTGTTACCCTACTACTTAGGGGTTTAAGGCTTGTCAC-TTTGATCTGTTTCCCTACTGCTTA
*
94303734 GGGGGTTAAGA-TCTGTGAA-TTC
65 GGGGGTTAAGATTC-GTCAATTTC
* * * * * * *
94303756 AACCTGTTACCCTACTATTTAGGGGGTTT-AGGTTTGTCAATCTTCGATTTG-CTCCACTACTGT
1 AGCCTGTTACCCTACTACTTA-GGGGTTTAAGGCTTGTC-A-CTTTGATCTGTTTCC-CTACTGC
*
94303819 TTA-GGGATATAAGA-TCTGT-AATTT-
62 TTAGGGGGT-TAAGATTC-GTCAATTTC
* ** * * * *
94303843 GGTATGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGT--CTTCGATCTG-CTCCACTACTGC
1 AGCCTGTTACCCTACTACTTAGGGGTTTAAG--GCTT-GTCACTTTGATCTGTTTCC-CTACTGC
** * *
94303905 TTAGGAAGAT-A-ATTTGT-AATTTTC
62 TTAGGGGGTTAAGATTCGTCAA-TTTC
* * * *** * * *
94303929 AGCTTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCACTTTTGCTATGTTTCCCTACTGTTTA
1 AGCCTGTTACCCTACTACTTAGGGGTTTAAGGCTTGTCAC-TTTGATCTGTTTCCCTACTGCTTA
94303994 GGGGGTTAAGATTCGTCAATCTTC
65 GGGGGTTAAGATTCGTCAAT-TTC
* * *
94304018 AGCCTGTTACCCTACTATTTAGGGGTTTAAGGCTTGTCACCTTTGATCTGTTTCCTTATTGCTTA
1 AGCCTGTTACCCTACTACTTAGGGGTTTAAGGCTTGTCA-CTTTGATCTGTTTCCCTACTGCTTA
*
94304083 GGGGGTTAAGA-TCTGTGAA-TTC
65 GGGGGTTAAGATTC-GTCAATTTC
* * ** *
94304105 AACCTATTACCCTACTGTTTAGGGGGTTAAG
1 AGCCTGTTACCCTACTACTTAGGGGTTTAAG
94304136 ATTTCTCAAT
Statistics
Matches: 373, Mismatches: 68, Indels: 54
0.75 0.14 0.11
Matches are distributed among these distances:
83 1 0.00
84 6 0.02
85 6 0.02
86 77 0.21
87 92 0.25
88 45 0.12
89 141 0.38
90 5 0.01
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (87 bp):
AGCCTGTTACCCTACTACTTAGGGGTTTAAGGCTTGTCACTTTGATCTGTTTCCCTACTGCTTAG
GGGGTTAAGATTCGTCAATTTC
Found at i:94303778 original size:43 final size:44
Alignment explanation
Indices: 94303666--94303794 Score: 118
Period size: 43 Copynumber: 3.0 Consensus size: 44
94303656 TTCATCAATC
* *
94303666 TTCAGCCTGTTACCCTACTATTTAGGGGTTTAAGGCTTGTCACA
1 TTCAACCTGTTACCCTACTATTTAGGGGGTTAAGGCTTGTCACA
** * * * ** * *
94303710 TTTGATCTGTTTCCCTATTGCTTAGGGGGTTAA-GATCTGTGA-A
1 TTCAACCTGTTACCCTACTATTTAGGGGGTTAAGGCT-TGTCACA
* *
94303753 TTCAACCTGTTACCCTACTATTTAGGGGGTTTAGGTTTGTCA
1 TTCAACCTGTTACCCTACTATTTAGGGGGTTAAGGCTTGTCA
94303795 ATCTTCGATT
Statistics
Matches: 62, Mismatches: 21, Indels: 5
0.70 0.24 0.06
Matches are distributed among these distances:
43 32 0.52
44 30 0.48
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (44 bp):
TTCAACCTGTTACCCTACTATTTAGGGGGTTAAGGCTTGTCACA
Found at i:94303895 original size:86 final size:85
Alignment explanation
Indices: 94303796--94303959 Score: 215
Period size: 86 Copynumber: 1.9 Consensus size: 85
94303786 GGTTTGTCAA
* * * * *
94303796 TCTTCGATTTGCTCCACTACTGTTTAGGGATATAAGATCTGTAA-TTT-GGTATGTTACCCTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGAAGAT-A-ATCTGTAATTTTAGCT-TGTTACCCTACT
*
94303859 GCTTAGGGGTTTAAGACCCTTCG
63 GCATAGGGGTTTAAGACCCTTCG
*
94303882 TCTTCGATCTGCTCCACTACTGCTTAGGAAGATAATTTGTAATTTTCAGCTTGTTACCCTACTGC
1 TCTTCGATCTGCTCCACTACTGCTTAGGAAGATAATCTGTAATTTT-AGCTTGTTACCCTACTGC
94303947 ATAGGGGTTTAAG
65 ATAGGGGTTTAAG
94303960 GCCCATCACT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
84 7 0.10
85 4 0.06
86 55 0.81
87 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (85 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGAAGATAATCTGTAATTTTAGCTTGTTACCCTACTGCA
TAGGGGTTTAAGACCCTTCG
Found at i:94304032 original size:45 final size:45
Alignment explanation
Indices: 94303977--94304149 Score: 135
Period size: 45 Copynumber: 3.9 Consensus size: 45
94303967 ACTTTTGCTA
*
94303977 TGTTTCCCTACTGTTTAGGGGGTTAAGATTCGTCAATCTTCAGCC
1 TGTTACCCTACTGTTTAGGGGGTTAAGATTCGTCAATCTTCAGCC
* * * * * *
94304022 TGTTACCCTACTATTTAGGGGTTTAAGGCTT-GTC-ACCTT-TGATC
1 TGTTACCCTACTGTTTAGGGGGTTAA-GATTCGTCAATCTTCAG-CC
* * * * * *
94304066 TGTTTCCTTATTGCTTAGGGGGTTAAGA-TCTGTGAA--TTCAACC
1 TGTTACCCTACTGTTTAGGGGGTTAAGATTC-GTCAATCTTCAGCC
*
94304109 TATTACCCTACTGTTTAGGGGGTTAAGATTTC-TCAATCTTC
1 TGTTACCCTACTGTTTAGGGGGTTAAGA-TTCGTCAATCTTC
94304150 GATCTGCTCC
Statistics
Matches: 94, Mismatches: 24, Indels: 20
0.68 0.17 0.14
Matches are distributed among these distances:
42 1 0.01
43 31 0.33
44 27 0.29
45 32 0.34
46 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.40
Consensus pattern (45 bp):
TGTTACCCTACTGTTTAGGGGGTTAAGATTCGTCAATCTTCAGCC
Found at i:94304205 original size:87 final size:88
Alignment explanation
Indices: 94303577--94304215 Score: 393
Period size: 89 Copynumber: 7.3 Consensus size: 88
94303567 ATTTGTAATT
** * * * *
94303577 TTTAGCCTGTTACCCTACTGCATAGGGGTTTAAGGC-CCATC-A-CTTCTGCTATGTTTCCCTAC
1 TTTAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCTTC-TCAATCTTC-GATCTGTCTCCCTAC
* * * *
94303639 TGCTTAGGGGGTTAAGAT-TCATCAA
64 TGCTTAGGGAGATAAGATCT-GTGAA
* * *
94303664 TCTTCAGCCTGTTACCCTACTATTTAGGGGTTTAAGGCTTGTCACAT-TT-GATCTGTTTCCCTA
1 T-TT-AGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCTTCTCA-ATCTTCGATCTGTCTCCCTA
* * *
94303727 TTGCTTAGGGGGTTAAGATCTGTGAA
63 CTGCTTAGGGAGATAAGATCTGTGAA
* * * * * *
94303753 TTCAACCTGTTACCCTACTATTTAGGGGGTTT-AGGTTTGTCAATCTTCGATTTG-CTCCACTAC
1 TTTAGCCTGTTACCCTACTGTTTA-GGGGTTTAAGGCTTCTCAATCTTCGATCTGTCTCC-CTAC
* *
94303816 TGTTTAGGGATATAAGATCTGT-AA
64 TGCTTAGGGAGATAAGATCTGTGAA
* ** * * * *
94303840 TTTGGTATGTTACCCTACTGCTTAGGGGTTTAAGAC-CCTTC-GTCTTCGATCTG-CTCCACTAC
1 TTTAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCTTC-TCAATCTTCGATCTGTCTCC-CTAC
* *
94303902 TGCTTAGGAAGAT-A-ATTTGT-AA
64 TGCTTAGGGAGATAAGATCTGTGAA
* ** * * * * * *
94303924 TTTTCAGCTTGTTACCCTACTGCATAGGGGTTTAAGGC-CCATCACT-TTTGCTATGTTTCCCTA
1 -TTT-AGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCTTC-TCAATCTTCGATCTGTCTCCCTA
* * * *
94303987 CTGTTTAGGGGGTTAAGAT-TCGTCAA
63 CTGCTTAGGGAGATAAGATCT-GTGAA
* * * * * * *
94304013 TCTTCAGCCTGTTACCCTACTATTTAGGGGTTTAAGGCTTGTC-ACCTTTGATCTGTTTCCTTAT
1 T-TT-AGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCTTCTCAATCTTCGATCTGTCTCCCTAC
* *
94304077 TGCTTAGGGGGTTAAGATCTGTGAA
64 TGCTTAGGGAGATAAGATCTGTGAA
* * * * ** *
94304102 TTCAACCTATTACCCTACTGTTTAGGGGGTTAAGATTTCTCAATCTTCGATCTG-CTCCACCACT
1 TTTAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCTTCTCAATCTTCGATCTGTCTCC-CTACT
94304166 GCTTAGGGAGATAAGATCTGT-AA
65 GCTTAGGGAGATAAGATCTGTGAA
* * *
94304189 TTTGGTCTGTTACCCTACTGCTTAGGG
1 TTTAGCCTGTTACCCTACTGTTTAGGG
94304216 AGATAAGGCT
Statistics
Matches: 437, Mismatches: 88, Indels: 54
0.75 0.15 0.09
Matches are distributed among these distances:
84 7 0.02
85 4 0.01
86 89 0.20
87 121 0.28
88 73 0.17
89 138 0.32
90 2 0.00
91 3 0.01
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (88 bp):
TTTAGCCTGTTACCCTACTGTTTAGGGGTTTAAGGCTTCTCAATCTTCGATCTGTCTCCCTACTG
CTTAGGGAGATAAGATCTGTGAA
Found at i:94304206 original size:349 final size:349
Alignment explanation
Indices: 94303567--94304215 Score: 1145
Period size: 349 Copynumber: 1.9 Consensus size: 349
94303557 GGGAGAAAAG
*
94303567 ATTTGTAATTTTTAGCCTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCACTTCTGCTATGTT
1 ATTTGTAATTTTCAGCCTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCACTTCTGCTATGTT
94303632 TCCCTACTGCTTAGGGGGTTAAGATTCATCAATCTTCAGCCTGTTACCCTACTATTTAGGGGTTT
66 TCCCTACTGCTTAGGGGGTTAAGATTCATCAATCTTCAGCCTGTTACCCTACTATTTAGGGGTTT
*
94303697 AAGGCTTGTCACATTTGATCTGTTTCCCTATTGCTTAGGGGGTTAAGATCTGTGAATTCAACCTG
131 AAGGCTTGTCACATTTGATCTGTTTCCCTATTGCTTAGGGGGTTAAGATCTGTGAATTCAACCTA
* * * * * * *
94303762 TTACCCTACTATTTAGGGGGTTTAGGTTTGTCAATCTTCGATTTGCTCCACTACTGTTTAGGGAT
196 TTACCCTACTATTTAGGGGGTTAAGATTTCTCAATCTTCGATCTGCTCCACCACTGCTTAGGGAG
94303827 ATAAGATCTGTAATTTGGTATGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCT
261 ATAAGATCTGTAATTTGGTATGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCT
94303892 GCTCCACTACTGCTTAGGAAGATA
326 GCTCCACTACTGCTTAGGAAGATA
* *
94303916 ATTTGTAATTTTCAGCTTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCACTTTTGCTATGTT
1 ATTTGTAATTTTCAGCCTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCACTTCTGCTATGTT
* *
94303981 TCCCTACTGTTTAGGGGGTTAAGATTCGTCAATCTTCAGCCTGTTACCCTACTATTTAGGGGTTT
66 TCCCTACTGCTTAGGGGGTTAAGATTCATCAATCTTCAGCCTGTTACCCTACTATTTAGGGGTTT
* *
94304046 AAGGCTTGTCACCTTTGATCTGTTTCCTTATTGCTTAGGGGGTTAAGATCTGTGAATTCAACCTA
131 AAGGCTTGTCACATTTGATCTGTTTCCCTATTGCTTAGGGGGTTAAGATCTGTGAATTCAACCTA
*
94304111 TTACCCTACTGTTTAGGGGGTTAAGATTTCTCAATCTTCGATCTGCTCCACCACTGCTTAGGGAG
196 TTACCCTACTATTTAGGGGGTTAAGATTTCTCAATCTTCGATCTGCTCCACCACTGCTTAGGGAG
*
94304176 ATAAGATCTGTAATTTGGTCTGTTACCCTACTGCTTAGGG
261 ATAAGATCTGTAATTTGGTATGTTACCCTACTGCTTAGGG
94304216 AGATAAGGCT
Statistics
Matches: 283, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
349 283 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (349 bp):
ATTTGTAATTTTCAGCCTGTTACCCTACTGCATAGGGGTTTAAGGCCCATCACTTCTGCTATGTT
TCCCTACTGCTTAGGGGGTTAAGATTCATCAATCTTCAGCCTGTTACCCTACTATTTAGGGGTTT
AAGGCTTGTCACATTTGATCTGTTTCCCTATTGCTTAGGGGGTTAAGATCTGTGAATTCAACCTA
TTACCCTACTATTTAGGGGGTTAAGATTTCTCAATCTTCGATCTGCTCCACCACTGCTTAGGGAG
ATAAGATCTGTAATTTGGTATGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCT
GCTCCACTACTGCTTAGGAAGATA
Found at i:94316829 original size:3 final size:3
Alignment explanation
Indices: 94316823--94316876 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
94316813 ACACTACTAT
94316823 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
94316871 ATA ATA
1 ATA ATA
94316877 TAGAAATGCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:94326633 original size:47 final size:47
Alignment explanation
Indices: 94326570--94327024 Score: 826
Period size: 47 Copynumber: 9.7 Consensus size: 47
94326560 ATGATAGTAT
94326570 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
94326617 TGCCTAATGGCCGATGTGATGAA--TGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
94326662 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
94326709 GGCCTAATGG-CGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
94326755 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
94326802 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
94326849 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
94326896 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
94326943 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
94326992 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
94327025 CCCGAAGGGC
Statistics
Matches: 397, Mismatches: 5, Indels: 9
0.97 0.01 0.02
Matches are distributed among these distances:
45 44 0.11
46 46 0.12
47 261 0.66
49 42 0.11
50 4 0.01
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:94327197 original size:36 final size:37
Alignment explanation
Indices: 94327142--94327219 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
94327132 CCGAGCTCTA
* *
94327142 AAGACCCGATGACTACGTGTGG-GATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
94327178 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
94327215 AAGAC
1 AAGAC
94327220 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:94329171 original size:43 final size:43
Alignment explanation
Indices: 94329106--94329205 Score: 179
Period size: 43 Copynumber: 2.4 Consensus size: 43
94329096 GTTCACGTGA
94329106 GCACTAAGTGT---GGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
94329146 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
94329189 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
94329206 TTGAAATGCA
Statistics
Matches: 57, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
40 11 0.19
43 46 0.81
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:94329222 original size:29 final size:29
Alignment explanation
Indices: 94329187--94329260 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
94329177 GTTGTGAGAT
* *
94329187 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
94329216 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
94329245 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
94329261 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:94329813 original size:79 final size:76
Alignment explanation
Indices: 94329649--94329835 Score: 239
Period size: 79 Copynumber: 2.4 Consensus size: 76
94329639 GAGTTACTAA
* ** *
94329649 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGGATGTATCCGGCTAAGTCCGAGAGCATTCGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGGATATATCCGGCTAACCCCAAGAGCATTCGT
*
94329714 GCTAGTGATGT
66 GCTAGTGATAT
* *
94329725 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCAAGAGCATT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAG-GATATATCCG-GCT-AACCCCAAGAGCATT
* *
94329790 CGTGCTGGTGTTAT
63 CGTGCTAGTGATAT
* * *
94329804 ATCCGGGCTAGGTCCCGAAGAGTAATCATGCT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
94329836 GGTGACGTGT
Statistics
Matches: 94, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
76 32 0.34
77 9 0.10
78 3 0.03
79 50 0.53
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (76 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGGATATATCCGGCTAACCCCAAGAGCATTCGT
GCTAGTGATAT
Found at i:94329839 original size:40 final size:40
Alignment explanation
Indices: 94329570--94329825 Score: 260
Period size: 40 Copynumber: 6.5 Consensus size: 40
94329560 TCGAATGATG
* *
94329570 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * *
94329610 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
* *
94329650 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAG-GATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
94329689 TCC-GGCTAAGT-CCG-AGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
94329726 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * * * *
94329766 TCCGTGCTAA-ACCCCAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
94329805 TCCGGGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAG
94329826 TAATCATGCT
Statistics
Matches: 182, Mismatches: 25, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
36 15 0.08
37 12 0.07
38 16 0.09
39 41 0.23
40 81 0.45
41 17 0.09
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:94332525 original size:77 final size:76
Alignment explanation
Indices: 94332304--94333027 Score: 464
Period size: 77 Copynumber: 9.4 Consensus size: 76
94332294 TTCCGTTTCC
* * * *
94332304 AAAATTCAACTTATATTGCGAGA-ATG-GTTGAG-CTC-GGAC-CACGCTGAGGTAATTTTAATT
1 AAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCGGGACAAACGCTGAGGTAATTTTAATT
94332364 TCTATTTTCAAA
66 TCTATTTTC-AA
* *
94332376 GAAAAATCAACTCA-ATTTGCGAAGAGGTGAGTTGAGCCTCGGCGAC--ACGCTGAGGTAATTTT
1 -AAAAATCAACTCATA-TTGCG-AGAGATGAATTGAGCCTCGG-GACAAACGCTGAGGTAATTTT
94332438 AATTTCTATTTTCAA
62 AATTTCTATTTTCAA
* **
94332453 AAAAATCAACTACCATATTGCGAGAGGTGAGGTGAGCCTCGGGACAAACGCTGAGGTAA-TTTAA
1 AAAAATCAACT--CATATTGCGAGAGATGAATTGAGCCTCGGGACAAACGCTGAGGTAATTTTAA
94332517 TTTCTATTTTCAAA
64 TTTCTATTTTC-AA
* *
94332531 AAAAATC-ACTC-TATTGCGAGAGATGAATTGAGCCCTACGGAACAAGCGCTGAGGTAATTTTAA
1 AAAAATCAACTCATATTGCGAGAGATGAATTGAG-CCT-CGGGACAAACGCTGAGGTAATTTTAA
*
94332594 TTTCTATTTTTAAACA
64 TTTCTA-TTTT-CA-A
* ** *
94332610 AAAAATCAACTCATAAGTTGGCGAGAGAATGAATTGGAACCTCGGGACACGCTGTCGGAGGTAAT
1 AAAAATCAACTCAT-A-TT-GCGAGAG-ATGAATT-GAGCCTCGGGACAAAC-G-CTGAGGTAAT
94332675 TTTAATTTCTATTTT--A
59 TTTAATTTCTATTTTCAA
* * *
94332691 AAAAATC-ACTCATATTGGCGAGAGATGAATTGAGCCT-TGGA-ACACGCTG-GGT-A-TTCAAT
1 AAAAATCAACTCATATT-GCGAGAGATGAATTGAGCCTCGGGACAAACGCTGAGGTAATTTTAAT
*
94332750 TTCTGTTTTTCAA
65 TTCT-ATTTTCAA
* * ** * *
94332763 AAAAATCAACTCATATTGC-ATGAAAGTG-GTTGAGCCTCAAGAC--ACGTTTTGAAAGGTTATT
1 AAAAATCAACTCATATTGCGA-GAGA-TGAATTGAGCCTCGGGACAAACG--CTG--AGGTAATT
*
94332824 TTCACTTTCTATTTTTC--
60 TT-AATTTCTA-TTTTCAA
* * ** * * *
94332841 AAAAATCAACTCATATTTGCGAGAGGTGAGTTGAAGCCTCGGTTC-AATGTTGAGGTAATTTTCA
1 AAAAATCAACTCATA-TTGCGAGAGATGAATTG-AGCCTCGGGACAAACGCTGAGGTAATTTTAA
* * *
94332905 TTTGTGTTGTCAA
64 TTTCTATTTTCAA
* ** * * * * * *
94332918 AAAAATCAACTCGTATTGCGAGAGGCCGAGTTGAGCCTCAAGGACATAC-TTCAGGT-ATTGTAA
1 AAAAATCAACTCATATTGCGAGA-GATGAATTGAGCCTC-GGGACAAACGCTGAGGTAATTTTAA
* *
94332981 TTTTTTGTATGTTC--
64 ---TTTCTATTTTCAA
*
94332995 AAAAATCAACTCATATTGCGAGAGGTGAATTGA
1 AAAAATCAACTCATATTGCGAGAGATGAATTGA
94333028 AGCGTCCCGC
Statistics
Matches: 534, Mismatches: 59, Indels: 113
0.76 0.08 0.16
Matches are distributed among these distances:
69 9 0.02
70 5 0.01
71 4 0.01
72 27 0.05
73 30 0.06
74 26 0.05
75 13 0.02
76 73 0.14
77 124 0.23
78 92 0.17
79 36 0.07
80 29 0.05
81 11 0.02
82 1 0.00
83 2 0.00
84 15 0.03
85 15 0.03
86 22 0.04
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (76 bp):
AAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCGGGACAAACGCTGAGGTAATTTTAATT
TCTATTTTCAA
Found at i:94334987 original size:31 final size:31
Alignment explanation
Indices: 94334944--94335027 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
94334934 GGGAATTAGT
* *
94334944 CATTCATATTTGCATATCCATACCCTTTAATA
1 CATTCATATTTGCATATTCATACCCTGTAA-A
*
94334976 -ATTTATATTTGCATATTCATACCCTGTAAA
1 CATTCATATTTGCATATTCATACCCTGTAAA
*
94335006 CATTCATATTTACATATTCATA
1 CATTCATATTTGCATATTCATA
94335028 TCTTGTACAG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
30 1 0.02
31 45 0.98
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (31 bp):
CATTCATATTTGCATATTCATACCCTGTAAA
Found at i:94341884 original size:15 final size:15
Alignment explanation
Indices: 94341864--94341893 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
94341854 CGATCAAGTT
94341864 TAATTTTCCTCACTC
1 TAATTTTCCTCACTC
94341879 TAATTTTCCTCACTC
1 TAATTTTCCTCACTC
94341894 CCCCTATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.33, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTTTCCTCACTC
Found at i:94344773 original size:22 final size:22
Alignment explanation
Indices: 94344748--94344792 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
94344738 GTATGTTATG
94344748 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
94344770 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
94344792 T
1 T
94344793 TTATTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:94348944 original size:22 final size:22
Alignment explanation
Indices: 94348916--94348960 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
94348906 AGGGGGAGTG
94348916 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
94348938 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
94348960 T
1 T
94348961 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:94363146 original size:20 final size:20
Alignment explanation
Indices: 94363121--94363172 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
94363111 AGATGAGTAC
* *
94363121 AAAATTATAATATTTTTTAA
1 AAAATTATAAAATTTGTTAA
*
94363141 AAAATTGTAAAATTTGTT-A
1 AAAATTATAAAATTTGTTAA
94363160 AAAATTACTAAAA
1 AAAATTA-TAAAA
94363173 ATTATAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (20 bp):
AAAATTATAAAATTTGTTAA
Found at i:94363211 original size:20 final size:19
Alignment explanation
Indices: 94363139--94363211 Score: 55
Period size: 19 Copynumber: 3.8 Consensus size: 19
94363129 AATATTTTTT
*
94363139 AAAAAATTGTAAAATTTGT-
1 AAAAAATT-TAAAATATGTA
*
94363158 TAAAAATTACTAAAA-AT-TA
1 AAAAAATT--TAAAATATGTA
*
94363177 TAAAAATTT-AAATATGTA
1 AAAAAATTTAAAATATGTA
94363195 AAAAAATATTAAAATAT
1 AAAAAAT-TTAAAATAT
94363212 TACAATTCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
16 3 0.07
17 3 0.07
18 9 0.20
19 18 0.41
20 11 0.25
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.34
Consensus pattern (19 bp):
AAAAAATTTAAAATATGTA
Found at i:94363488 original size:9 final size:9
Alignment explanation
Indices: 94363394--94363490 Score: 63
Period size: 9 Copynumber: 10.1 Consensus size: 9
94363384 TTTTTATAAA
94363394 TTATAATTTT
1 TTATAA-TTT
*
94363404 TTGTAATTT
1 TTATAATTT
94363413 TTATATATTT
1 TTATA-ATTT
*
94363423 TT-TACATAT
1 TTATA-ATTT
94363432 TTA-AATTT
1 TTATAATTT
94363440 TTATAATACTT
1 TTATAAT--TT
*
94363451 ATTATACTTT
1 -TTATAATTT
*
94363461 CTAGTAATATT
1 TTA-TAAT-TT
*
94363472 TAATAATTT
1 TTATAATTT
94363481 TTATAATTT
1 TTATAATTT
94363490 T
1 T
94363491 GTATTCATCT
Statistics
Matches: 68, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
8 6 0.09
9 31 0.46
10 20 0.29
11 5 0.07
12 6 0.09
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (9 bp):
TTATAATTT
Found at i:94365330 original size:63 final size:63
Alignment explanation
Indices: 94365198--94365346 Score: 172
Period size: 63 Copynumber: 2.4 Consensus size: 63
94365188 TGTAGTAGGT
* * * * ** *
94365198 CGTGTAACTCACTGTTATGGAATTAGAGGCACACGAGCTAGGGACACAGGTGTGTGTTCAGGC
1 CGTGTAACTCACTGTTTTGGAATTAGAAGCACACGAGCTAGGGACACAAGAGTGTGCCCAGAC
* * * *
94365261 CATGTAACTCACTGTTTTGGAATTAGAAGCACATGGGTTAGGGACACAAGAGTGTGCCCAGAC
1 CGTGTAACTCACTGTTTTGGAATTAGAAGCACACGAGCTAGGGACACAAGAGTGTGCCCAGAC
* * *
94365324 CGTGTAACCCACTATTTTCGAAT
1 CGTGTAACTCACTGTTTTGGAAT
94365347 CAAGGACATA
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 71 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (63 bp):
CGTGTAACTCACTGTTTTGGAATTAGAAGCACACGAGCTAGGGACACAAGAGTGTGCCCAGAC
Found at i:94367078 original size:13 final size:13
Alignment explanation
Indices: 94367060--94367084 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94367050 GTTTAGTGTT
94367060 TTAGTTCGAAAAG
1 TTAGTTCGAAAAG
94367073 TTAGTTCGAAAA
1 TTAGTTCGAAAA
94367085 AGGTGTGAGG
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:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (13 bp):
TTAGTTCGAAAAG
Found at i:94370375 original size:21 final size:21
Alignment explanation
Indices: 94370328--94370408 Score: 56
Period size: 22 Copynumber: 3.6 Consensus size: 21
94370318 TTCCTCTTCA
* *
94370328 TTTTATTTTTTTTATTTTTTATGT
1 TTTTA-TTTTTTT-TCTTCTAT-T
94370352 TTTTATTTTTTTTCCTTCT-TT
1 TTTTATTTTTTTT-CTTCTATT
* *
94370373 TTTCAATTTTGTTTCTTCTATT
1 TTT-TATTTTTTTTCTTCTATT
*
94370395 TCTCTATTTTTTTT
1 T-TTTATTTTTTTT
94370409 TGTTGCTTGA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
21 9 0.20
22 21 0.46
23 11 0.24
24 5 0.11
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTTATTTTTTTTCTTCTATT
Found at i:94370381 original size:22 final size:22
Alignment explanation
Indices: 94370356--94370408 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
94370346 TTATGTTTTT
*
94370356 ATTTTTTTTCCTTCT-TTTTTCA
1 ATTTTTTTT-CTTCTATTTCTCA
* *
94370378 ATTTTGTTTCTTCTATTTCTCT
1 ATTTTTTTTCTTCTATTTCTCA
94370400 ATTTTTTTT
1 ATTTTTTTT
94370409 TGTTGCTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.09, C:0.15, G:0.02, T:0.74
Consensus pattern (22 bp):
ATTTTTTTTCTTCTATTTCTCA
Found at i:94377993 original size:17 final size:17
Alignment explanation
Indices: 94377971--94378004 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
94377961 CTATCATATA
94377971 GTAAGTCAAATTACTTT
1 GTAAGTCAAATTACTTT
94377988 GTAAGTCAAATTACTTT
1 GTAAGTCAAATTACTTT
94378005 TTAACTGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
GTAAGTCAAATTACTTT
Found at i:94386127 original size:23 final size:25
Alignment explanation
Indices: 94386101--94386147 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
94386091 TATCATTCAT
*
94386101 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
94386124 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
94386148 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Done.