Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 30 of 141
Found at i:9252007 original size:22 final size:22
Alignment explanation
Indices: 9251929--9252046 Score: 103
Period size: 23 Copynumber: 5.2 Consensus size: 22
9251919 ACCTTTTGAC
9251929 CCATTTACGTACCAAAACCTATA
1 CCATTT-CGTACCAAAACCTATA
* * *
9251952 CCATTTCGTA-CATACACCAAATC
1 CCATTTCGTACCA-AAACC-TATA
*
9251975 CCATTTTGTACCAAAACCTATA
1 CCATTTCGTACCAAAACCTATA
* * * *
9251997 CCATTTCGTACCTACACCAAAA
1 CCATTTCGTACCAAAACCTATA
* *
9252019 CCCATTTCGTACCTAAACTTATA
1 -CCATTTCGTACCAAAACCTATA
9252042 CCATT
1 CCATT
9252047 CCATAACTAA
Statistics
Matches: 75, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
21 2 0.03
22 32 0.43
23 39 0.52
24 2 0.03
ACGTcount: A:0.35, C:0.32, G:0.04, T:0.29
Consensus pattern (22 bp):
CCATTTCGTACCAAAACCTATA
Found at i:9252065 original size:45 final size:44
Alignment explanation
Indices: 9251927--9252065 Score: 163
Period size: 45 Copynumber: 3.1 Consensus size: 44
9251917 TGACCTTTTG
9251927 ACCCATTTACGTACCAAAACCTATACCATTTCGT-ACATACACCAA
1 ACCCATTT-CGTACCAAAACCTATACCATTTCGTAAC-TACACCAA
* *
9251972 ATCCCATTTTGTACCAAAACCTATACCATTTCGTACCTACACCAAA
1 A-CCCATTTCGTACCAAAACCTATACCATTTCGTAACTACACC-AA
* * * * *
9252018 ACCCATTTCGTACCTAAACTTATACCATTCCATAACTAAACCTAA
1 ACCCATTTCGTACCAAAACCTATACCATTTCGTAACTACACC-AA
9252063 ACC
1 ACC
9252066 ATATTTGACC
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
45 70 0.86
46 11 0.14
ACGTcount: A:0.37, C:0.33, G:0.04, T:0.27
Consensus pattern (44 bp):
ACCCATTTCGTACCAAAACCTATACCATTTCGTAACTACACCAA
Found at i:9260013 original size:15 final size:15
Alignment explanation
Indices: 9259995--9260033 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
9259985 GTGAGAGGAA
9259995 AAAAGAAAGTGAGTG
1 AAAAGAAAGTGAGTG
* *
9260010 AAAACAAAATGAGTG
1 AAAAGAAAGTGAGTG
*
9260025 AAGAGAAAG
1 AAAAGAAAG
9260034 AGAACAAAAA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.59, C:0.03, G:0.28, T:0.10
Consensus pattern (15 bp):
AAAAGAAAGTGAGTG
Found at i:9271800 original size:15 final size:14
Alignment explanation
Indices: 9271780--9271827 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
9271770 ACTCTCATTT
9271780 TCTTTTTCTTTTATC
1 TCTTTTTCTTTT-TC
9271795 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTC
* *
9271809 TCTCATTTCTTTTTT
1 TCT-TTTTCTTTTTC
9271824 TCTT
1 TCTT
9271828 CTCAGAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 5 0.17
15 24 0.83
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (14 bp):
TCTTTTTCTTTTTC
Found at i:9271819 original size:21 final size:21
Alignment explanation
Indices: 9271765--9271830 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
9271755 CTCACTCTCA
*
9271765 CTCTCACTCTCATTTTCTTTTT
1 CTCTCA-TCTCTTTTTCTTTTT
* *
9271787 CTTTTATCTCTTTTTCTTTTT
1 CTCTCATCTCTTTTTCTTTTT
* *
9271808 CTCTCATTTCTTTTT-TTCTT
1 CTCTCATCTCTTTTTCTTTTT
9271828 CTC
1 CTC
9271831 AGAATTTCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
20 7 0.19
21 26 0.70
22 4 0.11
ACGTcount: A:0.06, C:0.27, G:0.00, T:0.67
Consensus pattern (21 bp):
CTCTCATCTCTTTTTCTTTTT
Found at i:9272892 original size:11 final size:11
Alignment explanation
Indices: 9272878--9272907 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9272868 AACAATTGTA
9272878 TTTCAATTTTT
1 TTTCAATTTTT
*
9272889 TTTCGATTTTT
1 TTTCAATTTTT
9272900 TTTCAATT
1 TTTCAATT
9272908 ACAATATCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.17, C:0.10, G:0.03, T:0.70
Consensus pattern (11 bp):
TTTCAATTTTT
Found at i:9272947 original size:32 final size:32
Alignment explanation
Indices: 9272906--9272973 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
9272896 TTTTTTTCAA
9272906 TTACAATATCGTAATGCCAAAAATGTCGATTC
1 TTACAATATCGTAATGCCAAAAATGTCGATTC
*
9272938 TTACAATATCGTAATGCCGAAAATGTCGATTC
1 TTACAATATCGTAATGCCAAAAATGTCGATTC
9272970 TTAC
1 TTAC
9272974 TCCGATTCAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (32 bp):
TTACAATATCGTAATGCCAAAAATGTCGATTC
Found at i:9283164 original size:47 final size:47
Alignment explanation
Indices: 9283088--9283205 Score: 164
Period size: 47 Copynumber: 2.5 Consensus size: 47
9283078 CTTCGGGACT
* * * *
9283088 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
9283135 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
9283182 TATCACATATATACACTTTCACAT
1 TATCACATATATACACTTTCACAT
9283206 ACATATTTCA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 62 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:9283273 original size:48 final size:48
Alignment explanation
Indices: 9283251--9283419 Score: 230
Period size: 48 Copynumber: 3.5 Consensus size: 48
9283241 ATACATATCT
*
9283251 CATACATATTTCACATTCGCCATTCGGCTTTACCACATATACATATCA
1 CATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCA
* * * * * *
9283299 GACATATATTTCACATTAGCCATTCGGCCTTATCACACATATATATATCT
1 CATACATATTTCACATTAGCCATTCGGCTTTA-C-CACATATACATATCA
*
9283349 CATACATATTTCACATTCGCCATTCGGCTTTACCACATATACATATCA
1 CATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCA
* *
9283397 CACATATATTTCACATTAGCCAT
1 CATACATATTTCACATTAGCCAT
9283420 AAAATTTCCA
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
48 60 0.59
49 2 0.02
50 40 0.39
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (48 bp):
CATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCA
Found at i:9283352 original size:98 final size:96
Alignment explanation
Indices: 9283190--9283419 Score: 379
Period size: 98 Copynumber: 2.4 Consensus size: 96
9283180 CTTATCACAT
* * * *
9283190 ATATACACTTTCACATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 ATATACA-TATCACACATATATTTCACATTAGCCATTCGGCCTTACCACATATACATATCTCATA
9283255 CATATTTCACATTCGCCATTCGGCTTTACCAC
65 CATATTTCACATTCGCCATTCGGCTTTACCAC
* *
9283287 ATATACATATCAGACATATATTTCACATTAGCCATTCGGCCTTATCACACATATATATATCTCAT
1 ATATACATATCACACATATATTTCACATTAGCCATTCGGCCTTA-C-CACATATACATATCTCAT
9283352 ACATATTTCACATTCGCCATTCGGCTTTACCAC
64 ACATATTTCACATTCGCCATTCGGCTTTACCAC
9283385 ATATACATATCACACATATATTTCACATTAGCCAT
1 ATATACATATCACACATATATTTCACATTAGCCAT
9283420 AAAATTTCCA
Statistics
Matches: 124, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
96 32 0.26
97 8 0.06
98 84 0.68
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (96 bp):
ATATACATATCACACATATATTTCACATTAGCCATTCGGCCTTACCACATATACATATCTCATAC
ATATTTCACATTCGCCATTCGGCTTTACCAC
Found at i:9292861 original size:23 final size:22
Alignment explanation
Indices: 9292810--9292861 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
9292800 CCACGTCTTT
*
9292810 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
9292832 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
9292855 TTCTTTT
1 TTCTTTT
9292862 TCAAATTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:9299504 original size:23 final size:24
Alignment explanation
Indices: 9299470--9299514 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
9299460 GTTGTTGAGT
9299470 TTTCTTTCTTTTTGTCA-TCCTCG
1 TTTCTTTCTTTTTGTCAGTCCTCG
*
9299493 TTTC-TTCATTTTTTTCAGTCCT
1 TTTCTTTC-TTTTTGTCAGTCCT
9299515 ATATCTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 3 0.16
23 12 0.63
24 4 0.21
ACGTcount: A:0.07, C:0.24, G:0.07, T:0.62
Consensus pattern (24 bp):
TTTCTTTCTTTTTGTCAGTCCTCG
Found at i:9301779 original size:20 final size:22
Alignment explanation
Indices: 9301745--9301799 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 22
9301735 TAATGAAATG
*
9301745 AAGA-CAAAAAAAGAAATCAAA
1 AAGAGCAAAAAGAGAAATCAAA
*
9301766 AA-AG-AAAAAGAG-AATGAAA
1 AAGAGCAAAAAGAGAAATCAAA
9301785 AAGAGCAAAAAGAGA
1 AAGAGCAAAAAGAGA
9301800 TTGAGATTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
19 8 0.29
20 10 0.36
21 10 0.36
ACGTcount: A:0.73, C:0.05, G:0.18, T:0.04
Consensus pattern (22 bp):
AAGAGCAAAAAGAGAAATCAAA
Found at i:9301785 original size:19 final size:21
Alignment explanation
Indices: 9301752--9301799 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
9301742 ATGAAGACAA
9301752 AAAAAGA-AATCAAAAA-AG-
1 AAAAAGAGAATCAAAAAGAGC
*
9301770 AAAAAGAGAATGAAAAAGAGC
1 AAAAAGAGAATCAAAAAGAGC
9301791 AAAAAGAGA
1 AAAAAGAGA
9301800 TTGAGATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 7 0.27
19 8 0.31
20 2 0.08
21 9 0.35
ACGTcount: A:0.73, C:0.04, G:0.19, T:0.04
Consensus pattern (21 bp):
AAAAAGAGAATCAAAAAGAGC
Found at i:9308514 original size:20 final size:20
Alignment explanation
Indices: 9308480--9308533 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
9308470 TAAGTTGTCT
* *
9308480 TGTCTTAGTTAAATTAAATA
1 TGTCTTAATTTAATTAAATA
* * *
9308500 TGTCTTGATTTAATTAAGTT
1 TGTCTTAATTTAATTAAATA
9308520 TGTCTTAATTTAAT
1 TGTCTTAATTTAAT
9308534 ACATGTGTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (20 bp):
TGTCTTAATTTAATTAAATA
Found at i:9312013 original size:28 final size:28
Alignment explanation
Indices: 9311967--9312027 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
9311957 AATGAGTGAT
*
9311967 AAAAAAAGAGAGAACGATGCA-AAAGAAA
1 AAAAAAAGAGACAACGATG-AGAAAGAAA
** *
9311995 AAAAAAAGAGACAGTGATGAGAATGAAA
1 AAAAAAAGAGACAACGATGAGAAAGAAA
9312023 AAAAA
1 AAAAA
9312028 GAGTTTGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 1 0.04
28 27 0.96
ACGTcount: A:0.67, C:0.05, G:0.21, T:0.07
Consensus pattern (28 bp):
AAAAAAAGAGACAACGATGAGAAAGAAA
Found at i:9318312 original size:47 final size:48
Alignment explanation
Indices: 9318234--9318328 Score: 156
Period size: 47 Copynumber: 2.0 Consensus size: 48
9318224 TCAGCTGCAA
* * *
9318234 CAAAGACAAGTTTAATGACTAGATTCGGCTGGACAAATTAAATAGCAG
1 CAAAGACAAGATTAATGACTAAATTCAGCTGGACAAATTAAATAGCAG
9318282 CAAAGACAA-ATTAATGACTAAATTCAGCTGGACAAATTAAATAGCAG
1 CAAAGACAAGATTAATGACTAAATTCAGCTGGACAAATTAAATAGCAG
9318329 TAGCTAATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
47 35 0.80
48 9 0.20
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.22
Consensus pattern (48 bp):
CAAAGACAAGATTAATGACTAAATTCAGCTGGACAAATTAAATAGCAG
Found at i:9324883 original size:51 final size:51
Alignment explanation
Indices: 9324824--9324970 Score: 144
Period size: 50 Copynumber: 2.9 Consensus size: 51
9324814 CATGATTTTA
*
9324824 TTAA-GATGCAAACTAAATGAATAA-AT-GAGTTACTTAATGCATGAC-TAAAT
1 TTAATGATGCAAACTAAA--AATAACATGGAGTTACATAATGCATGACAT-AAT
* * * *
9324874 TTAATGATGCAGACTTAAACTAACATGGGAGTTACATAATGCATGTCATAAT
1 TTAATGATGCAAACTAAAAATAACAT-GGAGTTACATAATGCATGACATAAT
* *
9324926 TT-ATGATGCAAACT-TAACTAACATGAGAGTTACATAATGCATGAC
1 TTAATGATGCAAACTAAAAATAACATG-GAGTTACATAATGCATGAC
9324971 TTTATTAAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
49 5 0.06
50 33 0.40
51 22 0.27
52 22 0.27
53 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (51 bp):
TTAATGATGCAAACTAAAAATAACATGGAGTTACATAATGCATGACATAAT
Found at i:9324960 original size:50 final size:52
Alignment explanation
Indices: 9324850--9324971 Score: 178
Period size: 50 Copynumber: 2.4 Consensus size: 52
9324840 ATGAATAAAT
* * *
9324850 GAGTTACTTAATGCATGACTAAATTTAATGATGCAGACTTAAACTAACATGG
1 GAGTTACATAATGCATGACTAAATTTAATGATGCAAACTTAAACTAACATGA
*
9324902 GAGTTACATAATGCATGTC-ATAATTT-ATGATGCAAACTT-AACTAACATGA
1 GAGTTACATAATGCATGACTA-AATTTAATGATGCAAACTTAAACTAACATGA
9324952 GAGTTACATAATGCATGACT
1 GAGTTACATAATGCATGACT
9324972 TTATTAAATG
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
50 28 0.44
51 13 0.21
52 22 0.35
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (52 bp):
GAGTTACATAATGCATGACTAAATTTAATGATGCAAACTTAAACTAACATGA
Found at i:9329265 original size:138 final size:138
Alignment explanation
Indices: 9329017--9329294 Score: 538
Period size: 138 Copynumber: 2.0 Consensus size: 138
9329007 TACATCCTCT
9329017 TTATTTGGCATGTGTGATATCTTGGTGAAAGTGAAGTTTTTGTTACATTATGGAACGACCGATCA
1 TTATTTGGCATGTGTGATATCTTGGTGAAAGTGAAGTTTTTGTTACATTATGGAACGACCGATCA
9329082 AAATCATGTTTTTAAACCCGGAGCATGTATTCCTAAGTTGACGTCAAGCAAAGGTGAGTATCAGA
66 AAATCATGTTTTTAAACCCGGAGCATGTATTCCTAAGTTGACGTCAAGCAAAGGTGAGTATCAGA
9329147 TTTGTATG
131 TTTGTATG
9329155 TTATTTGGCATGTGTGATATCTTGGTGAAAGTGAAGTTTTTGTTACATTATGGAACGACCGATCA
1 TTATTTGGCATGTGTGATATCTTGGTGAAAGTGAAGTTTTTGTTACATTATGGAACGACCGATCA
* *
9329220 AAATCATGTTTTTAAACCCGGAGCATGTATTCCTAAGTTGACGTCAAGCGAAGGTGAGTGTCAGA
66 AAATCATGTTTTTAAACCCGGAGCATGTATTCCTAAGTTGACGTCAAGCAAAGGTGAGTATCAGA
9329285 TTTGTATG
131 TTTGTATG
9329293 TT
1 TT
9329295 GAATCAATGT
Statistics
Matches: 138, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 138 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (138 bp):
TTATTTGGCATGTGTGATATCTTGGTGAAAGTGAAGTTTTTGTTACATTATGGAACGACCGATCA
AAATCATGTTTTTAAACCCGGAGCATGTATTCCTAAGTTGACGTCAAGCAAAGGTGAGTATCAGA
TTTGTATG
Found at i:9332737 original size:27 final size:27
Alignment explanation
Indices: 9332707--9332884 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
9332697 ATATTGAGTC
* * * *
9332707 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
9332734 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
9332761 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
9332789 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
9332816 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
9332843 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
9332870 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
9332885 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:9332846 original size:82 final size:81
Alignment explanation
Indices: 9332728--9332883 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
9332718 TGCTATATAA
* *
9332728 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
9332793 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
9332810 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
9332874 CACTTAGTGC
65 CACTTAGTGC
9332884 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:9344072 original size:20 final size:20
Alignment explanation
Indices: 9344015--9344081 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
9344005 GCACGTTAAG
*
9344015 ATGAGCTGAAGTTGAGCTGA
1 ATGAGCTAAAGTTGAGCTGA
* * *** *
9344035 ATAAGCTAAGGACAAGCTCA
1 ATGAGCTAAAGTTGAGCTGA
9344055 ATGAGCTAAAGTTGAGCTGA
1 ATGAGCTAAAGTTGAGCTGA
9344075 ATGAGCT
1 ATGAGCT
9344082 TGAAGTAGAG
Statistics
Matches: 34, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.22
Consensus pattern (20 bp):
ATGAGCTAAAGTTGAGCTGA
Found at i:9347103 original size:8 final size:9
Alignment explanation
Indices: 9347081--9347153 Score: 51
Period size: 9 Copynumber: 7.9 Consensus size: 9
9347071 TTTAAAAAAT
9347081 TATTA-AAA
1 TATTATAAA
9347089 TATTATAAA
1 TATTATAAA
9347098 TATATATGAAAA
1 TAT-TAT--AAA
9347110 TATTA-AAA
1 TATTATAAA
* *
9347118 CATCATAAAA
1 TATTAT-AAA
*
9347128 TATTATAGA
1 TATTATAAA
* *
9347137 TAATACAAA
1 TATTATAAA
9347146 TATTATAA
1 TATTATAA
9347154 TAATGTTAGG
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
8 11 0.22
9 20 0.41
10 10 0.20
11 2 0.04
12 6 0.12
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.36
Consensus pattern (9 bp):
TATTATAAA
Found at i:9347846 original size:18 final size:20
Alignment explanation
Indices: 9347807--9347848 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
9347797 TATTATGGGA
*
9347807 AATTACGAGTTTTAGGCTTT
1 AATTACGAGTTTAAGGCTTT
9347827 AATT-CGAGTTTAAGGC-TT
1 AATTACGAGTTTAAGGCTTT
9347845 AATT
1 AATT
9347849 TTGTTTATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 11 0.52
20 4 0.19
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.43
Consensus pattern (20 bp):
AATTACGAGTTTAAGGCTTT
Found at i:9348943 original size:10 final size:10
Alignment explanation
Indices: 9348912--9349002 Score: 50
Period size: 10 Copynumber: 9.5 Consensus size: 10
9348902 AAATCTTCTC
*
9348912 TAAAATATT-
1 TAAAAAATTA
**
9348921 TAAAAAAACA
1 TAAAAAATTA
9348931 TAAAAAATTA
1 TAAAAAATTA
*
9348941 TAAGAAATTA
1 TAAAAAATTA
9348951 T--AAAATTA
1 TAAAAAATTA
*
9348959 TATAAAA-TA
1 TAAAAAATTA
*
9348968 TAATTTAAA-TA
1 TAA--AAAATTA
*
9348979 TGAAAAA-TA
1 TAAAAAATTA
*
9348988 TAACAAATTA
1 TAAAAAATTA
9348998 TAAAA
1 TAAAA
9349003 TTATATGTTA
Statistics
Matches: 62, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
8 7 0.11
9 20 0.32
10 28 0.45
11 7 0.11
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:9348957 original size:18 final size:17
Alignment explanation
Indices: 9348934--9349007 Score: 61
Period size: 18 Copynumber: 4.5 Consensus size: 17
9348924 AAAAACATAA
9348934 AAAATTATAAGAAATTAT
1 AAAATTATAA-AAATTAT
9348952 AAAATTATATAAAA-TAT
1 AAAATTATA-AAAATTAT
* *
9348969 --AATT-TAAATATGA-
1 AAAATTATAAAAATTAT
9348982 AAAA-TATAACAAATTAT
1 AAAATTATAA-AAATTAT
9348999 AAAATTATA
1 AAAATTATA
9349008 TGTTATAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
13 3 0.07
14 4 0.09
15 9 0.20
16 4 0.09
17 7 0.16
18 16 0.36
19 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATTAT
Found at i:9349273 original size:19 final size:19
Alignment explanation
Indices: 9349249--9349295 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
9349239 GTCAAATTTG
*
9349249 TTTTATAATTTTATAATAT
1 TTTTATAATTTTAAAATAT
*
9349268 TTTTATAGTTTTAAAATAT
1 TTTTATAATTTTAAAATAT
9349287 TTTTATAAT
1 TTTTATAAT
9349296 ATGTTATGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTAAAATAT
Found at i:9349358 original size:11 final size:10
Alignment explanation
Indices: 9349309--9349396 Score: 54
Period size: 11 Copynumber: 8.2 Consensus size: 10
9349299 TTATGCTTTC
9349309 ATAATTTTTA
1 ATAATTTTTA
9349319 TATAATTTTT-
1 -ATAATTTTTA
9349329 ATAATTTTCT-
1 ATAATTTT-TA
* *
9349339 ATTAGTTTTA
1 ATAATTTTTA
9349349 ATAAGTTTTTTA
1 ATAA--TTTTTA
*
9349361 AGGAATTTTTA
1 A-TAATTTTTA
*
9349372 ATAAGTTTTTTT
1 ATAA--TTTTTA
9349384 ATAATTTTGTA
1 ATAATTTT-TA
9349395 AT
1 AT
9349397 TTTATAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
9 9 0.15
10 16 0.26
11 19 0.31
12 15 0.25
13 2 0.03
ACGTcount: A:0.33, C:0.01, G:0.07, T:0.59
Consensus pattern (10 bp):
ATAATTTTTA
Found at i:9349391 original size:10 final size:10
Alignment explanation
Indices: 9349309--9349391 Score: 51
Period size: 10 Copynumber: 7.8 Consensus size: 10
9349299 TTATGCTTTC
9349309 ATAATTTTTAT
1 ATAATTTTT-T
9349320 ATAA-TTTTT
1 ATAATTTTTT
*
9349329 ATAATTTTCT
1 ATAATTTTTT
* * *
9349339 ATTAGTTTTA
1 ATAATTTTTT
9349349 ATAAGTTTTTT
1 ATAA-TTTTTT
* *
9349360 AAGGAATTTTTA
1 -A-TAATTTTTT
9349372 ATAAGTTTTTTT
1 ATAA--TTTTTT
9349384 ATAATTTT
1 ATAATTTT
9349392 GTAATTTTAT
Statistics
Matches: 54, Mismatches: 12, Indels: 13
0.68 0.15 0.16
Matches are distributed among these distances:
9 5 0.09
10 23 0.43
11 9 0.17
12 15 0.28
13 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.60
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:9349415 original size:16 final size:17
Alignment explanation
Indices: 9349378--9349415 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
9349368 TTTAATAAGT
9349378 TTTTTTATAATTTTGTA
1 TTTTTTATAATTTTGTA
*
9349395 -ATTTTATAATTTT-TA
1 TTTTTTATAATTTTGTA
9349410 TTTTTT
1 TTTTTT
9349416 GAATATCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 3
0.78 0.09 0.13
Matches are distributed among these distances:
15 2 0.11
16 16 0.89
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTTATAATTTTGTA
Found at i:9352754 original size:75 final size:75
Alignment explanation
Indices: 9352663--9352809 Score: 231
Period size: 75 Copynumber: 2.0 Consensus size: 75
9352653 GAAAACCAAA
* * * * * *
9352663 ATTATTCCCTTCTTAATAGATAAGGCAAATGGAAAGTTAGAAAAATGAAATATATTCTTTTCGAA
1 ATTATTCCCTTATTAATAGAGAAGACAAATGGAAAATTAGAAAAATGAAATATATTCTTTCCAAA
9352728 AGAATATAGG
66 AGAATATAGG
*
9352738 ATTATTCCCTTATTAATAGAGAAGACAAATGGAAAATTAGAAAAATGAATTATATTCTTTCCAAA
1 ATTATTCCCTTATTAATAGAGAAGACAAATGGAAAATTAGAAAAATGAAATATATTCTTTCCAAA
9352803 AGAATAT
66 AGAATAT
9352810 TAATTTCCAT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 65 1.00
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.32
Consensus pattern (75 bp):
ATTATTCCCTTATTAATAGAGAAGACAAATGGAAAATTAGAAAAATGAAATATATTCTTTCCAAA
AGAATATAGG
Found at i:9352940 original size:30 final size:30
Alignment explanation
Indices: 9352882--9352940 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
9352872 GAACAAACCT
* **
9352882 TTGTTCATGTTCGTTTGTTTATTTTTAAGC
1 TTGTTCATGTTCGTTTGTGTATCGTTAAGC
9352912 TTGTTCATGTTCAGTTTGTGT-TCGTTAAG
1 TTGTTCATGTTC-GTTTGTGTATCGTTAAG
9352941 AATTTCAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.14, C:0.10, G:0.20, T:0.56
Consensus pattern (30 bp):
TTGTTCATGTTCGTTTGTGTATCGTTAAGC
Found at i:9353025 original size:23 final size:23
Alignment explanation
Indices: 9352999--9353068 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
9352989 TTCATTTAAC
*
9352999 TTAATCGAACATGTTTACGAACA
1 TTAATCGAACATGTTCACGAACA
* * *
9353022 TTAAACAAACATGTTCATGAACAA
1 TTAATCGAACATGTTCACGAAC-A
* * *
9353046 ATAATTGAACATATTCACGAACA
1 TTAATCGAACATGTTCACGAACA
9353069 ATGTTAATAA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
23 19 0.53
24 17 0.47
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (23 bp):
TTAATCGAACATGTTCACGAACA
Found at i:9353083 original size:4 final size:4
Alignment explanation
Indices: 9353074--9353111 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
9353064 GAACAATGTT
*
9353074 AATA AATA AATA AATA AA-A TAATA AATA AATA CATA AA
1 AATA AATA AATA AATA AATA -AATA AATA AATA AATA AA
9353112 AACACATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 1 0.03
4 28 0.93
5 1 0.03
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:9353098 original size:20 final size:20
Alignment explanation
Indices: 9353073--9353112 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
9353063 CGAACAATGT
9353073 TAATAAATAAATAAATAAAA
1 TAATAAATAAATAAATAAAA
*
9353093 TAATAAATAAATACATAAAA
1 TAATAAATAAATAAATAAAA
9353113 ACACATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (20 bp):
TAATAAATAAATAAATAAAA
Found at i:9353273 original size:12 final size:12
Alignment explanation
Indices: 9353247--9353307 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 12
9353237 TCATTAATAA
*
9353247 ATAAACGAG-TT
1 ATAAATGAGCTT
*
9353258 ATAAACGAGCTT
1 ATAAATGAGCTT
**
9353270 ATAAATGAGCCA
1 ATAAATGAGCTT
9353282 ATAAATGAGCTT
1 ATAAATGAGCTT
* *
9353294 TTTAATGAGCTT
1 ATAAATGAGCTT
9353306 AT
1 AT
9353308 TCATGAACAT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
11 9 0.22
12 32 0.78
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.31
Consensus pattern (12 bp):
ATAAATGAGCTT
Found at i:9359423 original size:21 final size:22
Alignment explanation
Indices: 9359393--9359433 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
9359383 TGAGTCAAAA
9359393 AAAAGATGAAAAAATGAAAATT
1 AAAAGATGAAAAAATGAAAATT
9359415 AAAA-ATGAAAAAATGAAAA
1 AAAAGATGAAAAAATGAAAA
9359434 AGTTAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (22 bp):
AAAAGATGAAAAAATGAAAATT
Found at i:9360887 original size:44 final size:44
Alignment explanation
Indices: 9360821--9361085 Score: 223
Period size: 44 Copynumber: 5.8 Consensus size: 44
9360811 GGAAATGGTG
9360821 AATCTTATCTCCCTGATG-TTACAGTGGAGCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGA-GATTACAGTGGAGCAGATTGAAGCCAGA
** * *
9360865 AATCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * * *
9360909 AATCCTATCTCCATGAGATTACAGTGGAGCAGATT-AAACTA-A
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* *
9360951 AGGATCTTATCTCTCT-AAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 A--ATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGCCAGA
* * *
9361007 AATCTTATCTCCCTGAGATTACAGCGGAGCTGATTGAAGCCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * * *
9361051 AATCCTATTTCCCTAAGATTACAGTGGAGCGGATT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATT
9361086 AAAATAAAGG
Statistics
Matches: 178, Mismatches: 26, Indels: 34
0.75 0.11 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.04
44 129 0.72
47 2 0.01
49 4 0.02
51 2 0.01
54 24 0.13
55 6 0.03
56 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
Found at i:9361016 original size:142 final size:142
Alignment explanation
Indices: 9360850--9361136 Score: 493
Period size: 142 Copynumber: 2.0 Consensus size: 142
9360840 TACAGTGGAG
*
9360850 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCCAGTAATCCT
* *
9360915 ATCTCCATGAGATTACAGTGGAGCAGATTAAACTAAAGGATCTTATCTCTCTAAAGTTACAGTAG
66 ATCTCCATAAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
9360980 AGTAGATCGCAT
131 AGTAGATCGCAT
* *
9360992 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCTGATTGAAGCCAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCCAGTAATCCT
* * * *
9361057 ATTTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTATAGTAG
66 ATCTCCATAAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
9361122 AGTAGATCGCAT
131 AGTAGATCGCAT
9361134 CAG
1 CAG
9361137 TTCTTATCTC
Statistics
Matches: 136, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 136 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCCAGTAATCCT
ATCTCCATAAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
AGTAGATCGCAT
Found at i:9361370 original size:100 final size:100
Alignment explanation
Indices: 9361192--9361470 Score: 387
Period size: 100 Copynumber: 2.8 Consensus size: 100
9361182 GATCTTAGTT
* * **
9361192 TCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCTTAACATTGCAG
1 TCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAATGGTGAATCTTGCTTCCCCAACATTGCAG
* *
9361257 TTAAAAAGATTAAAGCTACAACAGCGAATCTTACC
66 TTAAAAAGATTAAAGCCACAACAGCGAATCTTAAC
* * *
9361292 TCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCGACATTGCAG
1 TCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAATGGTGAATCTTGCTTCCCCAACATTGCAG
*
9361357 TTAAAAAGATTAAAGCCACAACAGCGAATCTTAAT
66 TTAAAAAGATTAAAGCCACAACAGCGAATCTTAAC
* * * * * **
9361392 TCCCTGGCGATGCAGTGGAACGGATTAAATCTACAATGGTGAATCTTGTTTCCCCAACATCACAG
1 TCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAATGGTGAATCTTGCTTCCCCAACATTGCAG
**
9361457 TTAAGTAGATTAAA
66 TTAAAAAGATTAAA
9361471 ATTGCGAGTT
Statistics
Matches: 157, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 157 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (100 bp):
TCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAATGGTGAATCTTGCTTCCCCAACATTGCAG
TTAAAAAGATTAAAGCCACAACAGCGAATCTTAAC
Found at i:9361445 original size:50 final size:50
Alignment explanation
Indices: 9361191--9361445 Score: 199
Period size: 50 Copynumber: 5.1 Consensus size: 50
9361181 AGATCTTAGT
*
9361191 TTCCCTGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
1 TTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
* * ** ** * * * * *
9361241 CTCCTTAAC-ATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC
1 TTCCCTGGCGA-TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
* * * **
9361291 CTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGC
1 TTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
* * ** * * * **
9361341 TTCCCCGAC-ATTGCAGTTAAAAAGATTAAAGCCACAACAGCGAATCTTAA
1 TTCCCTGGCGA-TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
* * * * *
9361391 TTCCCTGGCGATGCAGTGGAACGGATTAAATCTACAATGGTGAATCTTGT
1 TTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
9361441 TTCCC
1 TTCCC
9361446 CAACATCACA
Statistics
Matches: 149, Mismatches: 52, Indels: 8
0.71 0.25 0.04
Matches are distributed among these distances:
50 148 0.99
51 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (50 bp):
TTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
Found at i:9369381 original size:138 final size:138
Alignment explanation
Indices: 9369128--9369612 Score: 742
Period size: 138 Copynumber: 3.5 Consensus size: 138
9369118 GGGTGTTACA
* *
9369128 GTTTATATTAATAAATT-CGGTAAAATATATCCAATTAATATTTTATATAAATCAAATTCATATA
1 GTTTATATTAATAAATTAC-GTAAAATATATACAATTAATATTTTATATGAATCAAATTCATATA
* * * *
9369192 CTAATTATATTCTTTCCAAAAGAATATTAATTTCCTTGTTTTTTATATTTTGACCAAAATTAATT
65 TTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATT
9369257 AATATAATT
130 AATATAATT
* * * *
9369266 GTTTGTATTAATAAA-TACGATAAAATATATACTATTAATATTTTGTATGAATCAAATTCATAAA
1 GTTTATATTAATAAATTACG-TAAAATATATACAATTAATATTTTATATGAATCAAATTCATATA
* *
9369330 TTAATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATTTTTTGACCGAAATTAATT
65 TTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATT
9369395 AATATAATT
130 AATATAATT
9369404 GTTTATATTAATAAATTTA-GTAAAATATATACAATTAATATTTTATATGAATCAAATTCATATA
1 GTTTATATTAATAAA-TTACGTAAAATATATACAATTAATATTTTATATGAATCAAATTCATATA
* **
9369468 TTAATTATATTCTTTTCAAAAGAATATTAATTTTTATGTCTTTTATATTTTGACCGAAATTAATT
65 TTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATT
**
9369533 AATATAACA
130 AATATAATT
* *
9369542 GTTTATATTAATAAATTAAGTAAAATATATACAATTAATATTTTTGTATGAATCAAATTCATATA
1 GTTTATATTAATAAATTACGTAAAATATATACAATTAATA-TTTTATATGAATCAAATTCATATA
9369607 TTAATT
65 TTAATT
9369613 TTATCTATGT
Statistics
Matches: 317, Mismatches: 24, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
137 5 0.02
138 280 0.88
139 30 0.09
140 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (138 bp):
GTTTATATTAATAAATTACGTAAAATATATACAATTAATATTTTATATGAATCAAATTCATATAT
TAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTA
ATATAATT
Found at i:9372743 original size:22 final size:21
Alignment explanation
Indices: 9372697--9372744 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
9372687 ATTTGTTGGT
9372697 AAAAACTCATTTCTAAGTTTTA
1 AAAAACTCATTTCTAAG-TTTA
* *
9372719 AAAACCTC-TTTTTAATGTTTA
1 AAAAACTCATTTCTAA-GTTTA
9372740 AAAAA
1 AAAAA
9372745 ACACCCAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (21 bp):
AAAAACTCATTTCTAAGTTTA
Found at i:9373228 original size:28 final size:27
Alignment explanation
Indices: 9373183--9373296 Score: 183
Period size: 28 Copynumber: 4.1 Consensus size: 27
9373173 CTATTCAGTG
*
9373183 ACAGTATAGTATGGGCCTTAGCCCAAT
1 ACAGTATAGTGTGGGCCTTAGCCCAAT
9373210 ACAGTATCAGTGTGGGCCTTAGCCCAAT
1 ACAGTAT-AGTGTGGGCCTTAGCCCAAT
9373238 ACAGTATCAGTGTGGGCCTTAGCCCAAT
1 ACAGTAT-AGTGTGGGCCTTAGCCCAAT
*
9373266 ACAGTAATAGTGTGGGGCTTAGCCCAAT
1 ACAGT-ATAGTGTGGGCCTTAGCCCAAT
9373294 ACA
1 ACA
9373297 ATAACAATGC
Statistics
Matches: 83, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
27 7 0.08
28 74 0.89
29 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (27 bp):
ACAGTATAGTGTGGGCCTTAGCCCAAT
Found at i:9373688 original size:27 final size:26
Alignment explanation
Indices: 9373669--9373952 Score: 291
Period size: 27 Copynumber: 10.6 Consensus size: 26
9373659 GGGTATAATA
*
9373669 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTA-TTTC
* *
9373696 GTCATTTTACCCTATAGAGGTATTTC
1 GTCATTTTACCCTATGGGGGTATTTC
* *
9373722 GATCATTTTACCCTATAGGGGTATTCTG
1 G-TCATTTTACCCTATGGGGGTATT-TC
* *
9373750 GTCATTTTACCCTATAGGGGTATTCTG
1 GTCATTTTACCCTATGGGGGTATT-TC
*
9373777 GTCATTTTACCCTATGGGGGTAATTC
1 GTCATTTTACCCTATGGGGGTATTTC
*
9373803 GGTCATTCTACCCTATGGGGGTATTTC
1 -GTCATTTTACCCTATGGGGGTATTTC
* * *
9373830 GATTATCTTACCCTATGAGGGTATTTC
1 G-TCATTTTACCCTATGGGGGTATTTC
* * *
9373857 GATCATTTTATCCTATGAGCGTATTTC
1 G-TCATTTTACCCTATGGGGGTATTTC
**
9373884 AGTCATTTTACCCTACAGGGGTATTTC
1 -GTCATTTTACCCTATGGGGGTATTTC
**
9373911 GATCATTTTACCCTAT-GGTATATTTC
1 G-TCATTTTACCCTATGGGGGTATTTC
*
9373937 GGTCATTTAACCCTAT
1 -GTCATTTTACCCTAT
9373953 TTTGGGGTCT
Statistics
Matches: 223, Mismatches: 27, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
26 28 0.13
27 192 0.86
28 3 0.01
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.41
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGGTATTTC
Found at i:9373779 original size:81 final size:79
Alignment explanation
Indices: 9373670--9373952 Score: 329
Period size: 81 Copynumber: 3.5 Consensus size: 79
9373660 GGTATAATAG
*
9373670 TCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGAGGTATTTCGATCATTTTACCC
1 TCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTAT-GAGGTATTTCGATCATTTTACCC
*
9373735 TATAGGGGTA-TTCTGG
64 TATAGGGGTATTTC-GA
* * * *
9373751 TCATTTTACCCTATAGGGGTA-TTCTGGTCATTTTACCCTATGGGGGTAATTCGGTCATTCTACC
1 TCATTTTACCCTAT-GGGGTATTTC-GGTCATTTTACCCTAT-GAGGTATTTCGATCATTTTACC
*
9373815 CTATGGGGGTATTTCGA
63 CTATAGGGGTATTTCGA
* * * *
9373832 TTATCTTACCCTATGAGGGTATTTCGATCATTTTATCCTATGAGCGTATTTC-AGTCATTTTACC
1 TCATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTATGAG-GTATTTCGA-TCATTTTACC
*
9373896 CTACAGGGGTATTTCGA
63 CTATAGGGGTATTTCGA
** *
9373913 TCATTTTACCCTATGGTATATTTCGGTCATTTAACCCTAT
1 TCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTAT
9373953 TTTGGGGTCT
Statistics
Matches: 170, Mismatches: 26, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
80 25 0.15
81 139 0.82
82 6 0.04
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.41
Consensus pattern (79 bp):
TCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATGAGGTATTTCGATCATTTTACCCTA
TAGGGGTATTTCGA
Found at i:9379413 original size:21 final size:21
Alignment explanation
Indices: 9379374--9379414 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9379364 TAAAGTAGAC
*
9379374 TATATATTATTTTTATAGTAT
1 TATATATTATATTTATAGTAT
9379395 TATATATTATGATTT-TAGTA
1 TATATATTAT-ATTTATAGTA
9379415 AATTCATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (21 bp):
TATATATTATATTTATAGTAT
Found at i:9379702 original size:48 final size:49
Alignment explanation
Indices: 9379641--9379737 Score: 137
Period size: 48 Copynumber: 2.0 Consensus size: 49
9379631 ATTATAATAT
*
9379641 CATTCCATTCAACCAAACACA-AGAA-TAC-TATTACAGTTCTATTTCATC
1 CATTCCATTCAACCAAACA-ATA-AATTACTTATTACAGCTCTATTTCATC
9379689 CATTCCATTCAACCAAACAATTAAATTACTTATTACAGCTCTATTTCAT
1 CATTCCATTCAACCAAACAA-TAAATTACTTATTACAGCTCTATTTCAT
9379738 TATAGGTCTA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
47 1 0.02
48 21 0.48
49 4 0.09
50 18 0.41
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (49 bp):
CATTCCATTCAACCAAACAATAAATTACTTATTACAGCTCTATTTCATC
Found at i:9379788 original size:16 final size:16
Alignment explanation
Indices: 9379720--9379790 Score: 81
Period size: 16 Copynumber: 4.4 Consensus size: 16
9379710 TAAATTACTT
9379720 ATTACAGCTCTATTTC-
1 ATTACAGCTCTA-TTCA
* *
9379736 ATTATAGGTCTATTCA
1 ATTACAGCTCTATTCA
* *
9379752 ATTATAGCGCTATTCA
1 ATTACAGCTCTATTCA
*
9379768 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCA
9379784 ATTACAG
1 ATTACAG
9379791 TGAACCAAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
15 3 0.06
16 44 0.94
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:9392712 original size:12 final size:13
Alignment explanation
Indices: 9392687--9392715 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
9392677 TAGGTTTCCA
9392687 AAAATGGAAAATG
1 AAAATGGAAAATG
9392700 AAAATGG-AAATG
1 AAAATGGAAAATG
9392712 AAAA
1 AAAA
9392716 CTTGCAATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.21, T:0.14
Consensus pattern (13 bp):
AAAATGGAAAATG
Found at i:9402464 original size:18 final size:19
Alignment explanation
Indices: 9402431--9402466 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9402421 CTTGAAAAGG
9402431 TATTTGATATAGCGATTTT
1 TATTTGATATAGCGATTTT
*
9402450 TATTTTATA-AGCGATTT
1 TATTTGATATAGCGATTT
9402467 ATTAAGTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.53
Consensus pattern (19 bp):
TATTTGATATAGCGATTTT
Found at i:9408759 original size:12 final size:12
Alignment explanation
Indices: 9408742--9408766 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9408732 CAGAGGCTAT
9408742 TAACAATATTTA
1 TAACAATATTTA
9408754 TAACAATATTTA
1 TAACAATATTTA
9408766 T
1 T
9408767 GTTATAAAAT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:9411325 original size:21 final size:20
Alignment explanation
Indices: 9411296--9411334 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
9411286 ACGCCTACGA
9411296 AAAGATCGCTTGGATTTAAG
1 AAAGATCGCTTGGATTTAAG
9411316 AAAGAGTCGCTTGGATTTA
1 AAAGA-TCGCTTGGATTTA
9411335 TCCATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (20 bp):
AAAGATCGCTTGGATTTAAG
Found at i:9411527 original size:15 final size:15
Alignment explanation
Indices: 9411507--9411545 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
9411497 TATCATTTCA
9411507 ATATATAATTTAAAT
1 ATATATAATTTAAAT
9411522 ATATATAAATTTAAAT
1 ATATAT-AATTTAAAT
9411538 ATAT-TAAT
1 ATATATAAT
9411546 AATATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.13
15 7 0.30
16 13 0.57
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATATATAATTTAAAT
Found at i:9413370 original size:23 final size:23
Alignment explanation
Indices: 9413341--9413385 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
9413331 GGGTCAGTCA
9413341 AAAAAAGGTATGTTAATTAATCC
1 AAAAAAGGTATGTTAATTAATCC
9413364 AAAAAAGGTATGTTAATTAATC
1 AAAAAAGGTATGTTAATTAATC
9413386 AAAGGTCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.07, G:0.13, T:0.31
Consensus pattern (23 bp):
AAAAAAGGTATGTTAATTAATCC
Found at i:9415452 original size:82 final size:82
Alignment explanation
Indices: 9415315--9415644 Score: 651
Period size: 82 Copynumber: 4.0 Consensus size: 82
9415305 GGATAATAGG
*
9415315 TACGGTAACTGGTATTCCTGTGATCGGTTTAATAGGTATTTTCTTTTATGGTTCATATTCTGGAT
1 TACGGTAACTGGTATTCCTATGATCGGTTTAATAGGTATTTTCTTTTATGGTTCATATTCTGGAT
9415380 TGGGTTTGTCCCTGTAA
66 TGGGTTTGTCCCTGTAA
9415397 TACGGTAACTGGTATTCCTATGATCGGTTTAATAGGTATTTTCTTTTATGGTTCATATTCTGGAT
1 TACGGTAACTGGTATTCCTATGATCGGTTTAATAGGTATTTTCTTTTATGGTTCATATTCTGGAT
9415462 TGGGTTTGTCCCTGTAA
66 TGGGTTTGTCCCTGTAA
9415479 TACGGTAACTGGTATTCCTATGATCGGTTTAATAGGTATTTTCTTTTATGGTTCATATTCTGGAT
1 TACGGTAACTGGTATTCCTATGATCGGTTTAATAGGTATTTTCTTTTATGGTTCATATTCTGGAT
9415544 TGGGTTTGTCCCTGTAA
66 TGGGTTTGTCCCTGTAA
9415561 TACGGTAACTGGTATTCCTATGATCGGTTTAATAGGTATTTTCTTTTATGGTTCATATTCTGGAT
1 TACGGTAACTGGTATTCCTATGATCGGTTTAATAGGTATTTTCTTTTATGGTTCATATTCTGGAT
9415626 TGGGTTTGTCCCTGTAA
66 TGGGTTTGTCCCTGTAA
9415643 TA
1 TA
9415645 TGGAATAATG
Statistics
Matches: 247, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 247 1.00
ACGTcount: A:0.19, C:0.13, G:0.22, T:0.45
Consensus pattern (82 bp):
TACGGTAACTGGTATTCCTATGATCGGTTTAATAGGTATTTTCTTTTATGGTTCATATTCTGGAT
TGGGTTTGTCCCTGTAA
Found at i:9416799 original size:23 final size:23
Alignment explanation
Indices: 9416773--9416818 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
9416763 GGAGATCCAA
9416773 TGCTTAACATAGGAATCAATTTG
1 TGCTTAACATAGGAATCAATTTG
*
9416796 TGCTTAACGTAGGAATCAATTTG
1 TGCTTAACATAGGAATCAATTTG
9416819 ATTACACTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.35
Consensus pattern (23 bp):
TGCTTAACATAGGAATCAATTTG
Found at i:9417965 original size:31 final size:33
Alignment explanation
Indices: 9417900--9417970 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
9417890 ATGAAAAATT
*
9417900 ATTAAATTAATAATTTATTTTAATTATACTTAA
1 ATTAAATTAATAATTTATTCTAATTATACTTAA
* *
9417933 ATTAAATTATTAATTT-TTCTATTTA-ACTTAA
1 ATTAAATTAATAATTTATTCTAATTATACTTAA
9417964 ATTAAAT
1 ATTAAAT
9417971 ATTTTAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 13 0.37
32 7 0.20
33 15 0.43
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (33 bp):
ATTAAATTAATAATTTATTCTAATTATACTTAA
Found at i:9417987 original size:7 final size:7
Alignment explanation
Indices: 9417975--9418118 Score: 68
Period size: 7 Copynumber: 19.7 Consensus size: 7
9417965 TTAAATATTT
9417975 TAATAAA
1 TAATAAA
9417982 TAATAAA
1 TAATAAA
**
9417989 TTCTAAA
1 TAATAAA
9417996 TATACTAAA
1 TA-A-TAAA
**
9418005 TTTCTAAA
1 -TAATAAA
9418013 TATACTAAA
1 TA-A-TAAA
9418022 T-ATAAA
1 TAATAAA
*
9418028 TAATAAC
1 TAATAAA
9418035 TAA-ATAA
1 TAATA-AA
9418042 TAACTAAA
1 TAA-TAAA
9418050 T-ATAAA
1 TAATAAA
*
9418056 TTATAAA
1 TAATAAA
9418063 TAGATAATA
1 TA-ATAA-A
9418072 TAAT-AA
1 TAATAAA
9418078 TAGATAATA
1 TA-ATAA-A
9418087 TAAT-AA
1 TAATAAA
9418093 TAGATAGAA
1 TA-ATA-AA
9418102 TAAT-AA
1 TAATAAA
9418108 -AATAAA
1 TAATAAA
9418114 TAATA
1 TAATA
9418119 TAGAAATATA
Statistics
Matches: 106, Mismatches: 11, Indels: 40
0.68 0.07 0.25
Matches are distributed among these distances:
5 3 0.03
6 21 0.20
7 43 0.41
8 18 0.17
9 20 0.19
10 1 0.01
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (7 bp):
TAATAAA
Found at i:9418011 original size:17 final size:17
Alignment explanation
Indices: 9417985--9418022 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
9417975 TAATAAATAA
9417985 TAAA-TTCTAAATATAC
1 TAAATTTCTAAATATAC
9418001 TAAATTTCTAAATATAC
1 TAAATTTCTAAATATAC
9418018 TAAAT
1 TAAAT
9418023 ATAAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAATTTCTAAATATAC
Found at i:9418051 original size:28 final size:28
Alignment explanation
Indices: 9418008--9418118 Score: 88
Period size: 28 Copynumber: 4.0 Consensus size: 28
9417998 TACTAAATTT
9418008 CTAAAT-AT-ACTAAATATAAATAATAA
1 CTAAATAATAACTAAATATAAATAATAA
*
9418034 CTAAATAATAACTAAATATAAATTATAA
1 CTAAATAATAACTAAATATAAATAATAA
* * * *
9418062 ATAGATAATATAATAATAGATAATATAATAA
1 CTAAATAATA-ACTAA-ATATAA-ATAATAA
*
9418093 -TAGATAGAATAA-TAAA-ATAAATAATA
1 CTA-A-ATAATAACTAAATATAAATAATA
9418119 TAGAAATATA
Statistics
Matches: 70, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
26 6 0.09
27 8 0.11
28 29 0.41
29 5 0.07
30 10 0.14
31 7 0.10
32 5 0.07
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (28 bp):
CTAAATAATAACTAAATATAAATAATAA
Found at i:9418071 original size:20 final size:20
Alignment explanation
Indices: 9418048--9418167 Score: 59
Period size: 20 Copynumber: 6.5 Consensus size: 20
9418038 ATAATAACTA
9418048 AATATAAATTATAAATAGAT
1 AATATAAATTATAAATAGAT
9418068 AATAT--A--AT-AATAGAT
1 AATATAAATTATAAATAGAT
* *
9418083 AATAT-AATAATAGATAGAAT
1 AATATAAATTATAAATAG-AT
*
9418103 AATA-AAATAAATAATATAGA-
1 AATATAAAT-TATAA-ATAGAT
* *
9418123 AATATAGATTTATAAATCGA-
1 AATATA-AATTATAAATAGAT
*
9418143 AATAT--ATTA-ATATA-AT
1 AATATAAATTATAAATAGAT
9418159 AATATAAAT
1 AATATAAAT
9418168 ATTATTAATT
Statistics
Matches: 79, Mismatches: 8, Indels: 28
0.69 0.07 0.24
Matches are distributed among these distances:
15 13 0.16
16 11 0.14
17 3 0.04
18 5 0.06
19 4 0.05
20 27 0.34
21 10 0.13
22 6 0.08
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (20 bp):
AATATAAATTATAAATAGAT
Found at i:9418079 original size:15 final size:15
Alignment explanation
Indices: 9418061--9418128 Score: 85
Period size: 15 Copynumber: 4.9 Consensus size: 15
9418051 ATAAATTATA
9418061 AATAGATAATATAAT
1 AATAGATAATATAAT
9418076 AATAGATAATATAAT
1 AATAGATAATATAAT
9418091 AATAGATAGA-ATAAT
1 AATAGATA-ATATAAT
9418106 AA-A-ATAA-ATAAT
1 AATAGATAATATAAT
9418118 -ATAGA-AATATA
1 AATAGATAATATA
9418129 GATTTATAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.02
12 9 0.18
13 7 0.14
14 1 0.02
15 30 0.61
16 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (15 bp):
AATAGATAATATAAT
Found at i:9418087 original size:35 final size:35
Alignment explanation
Indices: 9418008--9418108 Score: 93
Period size: 35 Copynumber: 2.8 Consensus size: 35
9417998 TACTAAATTT
*
9418008 CTAAATATACTAAATATAAATA-ATAACTAAATAATAA
1 CTAAATATA--AATTATAAATAGATAA-TAAATAATAA
9418045 CTAAATATAAATTATAAATAGATAATATAATAATAGA
1 CTAAATATAAATTATAAATAGATAATA-AATAATA-A
* *
9418082 -T-AATAT-AATAATAGATAGAATAATAAA
1 CTAAATATAAATTATAAATAG-ATAATAAA
9418109 ATAAATAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
34 12 0.21
35 23 0.40
36 12 0.21
37 10 0.18
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (35 bp):
CTAAATATAAATTATAAATAGATAATAAATAATAA
Found at i:9418089 original size:12 final size:10
Alignment explanation
Indices: 9418023--9418118 Score: 63
Period size: 11 Copynumber: 9.0 Consensus size: 10
9418013 TATACTAAAT
9418023 ATAAATAATA
1 ATAAATAATA
9418033 ACTAAATAATA
1 A-TAAATAATA
*
9418044 ACTAAATATAAATT
1 A-T-AA-AT-AATA
9418058 ATAAATAGATA
1 ATAAATA-ATA
9418069 ATATAATAATA
1 ATA-AATAATA
9418080 GATAATATAATA
1 -ATAA-ATAATA
* *
9418092 ATAGAT-AGA
1 ATAAATAATA
9418101 AT-AATAA-A
1 ATAAATAATA
9418109 ATAAATAATA
1 ATAAATAATA
9418119 TAGAAATATA
Statistics
Matches: 70, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
8 5 0.07
9 10 0.14
10 5 0.07
11 26 0.37
12 17 0.24
13 3 0.04
14 4 0.06
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (10 bp):
ATAAATAATA
Found at i:9423320 original size:14 final size:14
Alignment explanation
Indices: 9423301--9423328 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9423291 TATATTAGTA
9423301 TTTTCTATTCTATT
1 TTTTCTATTCTATT
9423315 TTTTCTATTCTATT
1 TTTTCTATTCTATT
9423329 AGTATTAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:9423340 original size:5 final size:6
Alignment explanation
Indices: 9423325--9423395 Score: 59
Period size: 5 Copynumber: 13.2 Consensus size: 6
9423315 TTTTCTATTC
* * *
9423325 TATTAG TATTAG -ATTAG TATT-C TATT-C TATCAG TATTAG -ATTAG
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
9423369 TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG T
9423396 TAGTGATCCC
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
4 4 0.07
5 27 0.48
6 25 0.45
ACGTcount: A:0.32, C:0.04, G:0.15, T:0.48
Consensus pattern (6 bp):
TATTAG
Found at i:9423347 original size:27 final size:27
Alignment explanation
Indices: 9423317--9423372 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
9423307 ATTCTATTTT
*
9423317 TTCTATTCTATTAGTATTAGATTAGTA
1 TTCTATTCTATCAGTATTAGATTAGTA
9423344 TTCTATTCTATCAGTATTAGATTAGTA
1 TTCTATTCTATCAGTATTAGATTAGTA
9423371 TT
1 TT
9423373 AGTTAGATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.52
Consensus pattern (27 bp):
TTCTATTCTATCAGTATTAGATTAGTA
Found at i:9423384 original size:20 final size:20
Alignment explanation
Indices: 9423359--9423398 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
9423349 TTCTATCAGT
9423359 ATTAGATTAGTATTAGTTAG
1 ATTAGATTAGTATTAGTTAG
9423379 ATTAGATTAGTATTAGTTAG
1 ATTAGATTAGTATTAGTTAG
9423399 TGATCCCGGC
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:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (20 bp):
ATTAGATTAGTATTAGTTAG
Found at i:9431555 original size:19 final size:19
Alignment explanation
Indices: 9431533--9431575 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
9431523 TTGAATCTGA
9431533 TTTTTCTTTCTCTTTTTGT
1 TTTTTCTTTCTCTTTTTGT
* * *
9431552 TTTTTGTTTTTTTTTTTGT
1 TTTTTCTTTCTCTTTTTGT
9431571 TTTTT
1 TTTTT
9431576 GAAATTGCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (19 bp):
TTTTTCTTTCTCTTTTTGT
Found at i:9431557 original size:7 final size:7
Alignment explanation
Indices: 9431545--9431576 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
9431535 TTTCTTTCTC
9431545 TTTTTGT
1 TTTTTGT
9431552 TTTTTG-
1 TTTTTGT
9431558 TTTTT-T
1 TTTTTGT
9431564 TTTTTGT
1 TTTTTGT
9431571 TTTTTG
1 TTTTTG
9431577 AAATTGCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 10 0.43
7 13 0.57
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTTGT
Found at i:9431574 original size:12 final size:12
Alignment explanation
Indices: 9431545--9431575 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
9431535 TTTCTTTCTC
9431545 TTTTTGTTTTTTG
1 TTTTT-TTTTTTG
9431558 TTTTTTTTTTTG
1 TTTTTTTTTTTG
9431570 TTTTTT
1 TTTTTT
9431576 GAAATTGCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:9432500 original size:15 final size:15
Alignment explanation
Indices: 9432482--9432512 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9432472 ATAACTAAAG
9432482 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
9432497 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
9432512 A
1 A
9432513 GATGAGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (15 bp):
AAAAAATAGATAGAT
Found at i:9434221 original size:15 final size:15
Alignment explanation
Indices: 9434201--9434234 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
9434191 AGTTATGTCT
*
9434201 ATGTATTGAATTAGA
1 ATGTATGGAATTAGA
9434216 ATGTATGGAATTAGA
1 ATGTATGGAATTAGA
9434231 ATGT
1 ATGT
9434235 CAAAAAGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (15 bp):
ATGTATGGAATTAGA
Found at i:9435227 original size:15 final size:15
Alignment explanation
Indices: 9435207--9435240 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
9435197 AGTTATGTCT
9435207 ATGTATGGAATTAGA
1 ATGTATGGAATTAGA
9435222 ATGTATGGAATTAGA
1 ATGTATGGAATTAGA
9435237 ATGT
1 ATGT
9435241 CAAAAAGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.35
Consensus pattern (15 bp):
ATGTATGGAATTAGA
Found at i:9436262 original size:19 final size:19
Alignment explanation
Indices: 9436240--9436283 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
9436230 TTAAACTTTT
* *
9436240 ATTATACTTTTCTATTCTA
1 ATTAAACTTTTCGATTCTA
9436259 ATTAAACTTTTCGATTCTA
1 ATTAAACTTTTCGATTCTA
9436278 ATTAAA
1 ATTAAA
9436284 AAAATAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.02, T:0.50
Consensus pattern (19 bp):
ATTAAACTTTTCGATTCTA
Found at i:9436806 original size:17 final size:17
Alignment explanation
Indices: 9436786--9436819 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9436776 TATTGTTTAG
*
9436786 TCTTCCTTATTTTCCTT
1 TCTTCATTATTTTCCTT
*
9436803 TCTTCATTTTTTTCCTT
1 TCTTCATTATTTTCCTT
9436820 ATATCAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.26, G:0.00, T:0.68
Consensus pattern (17 bp):
TCTTCATTATTTTCCTT
Found at i:9437847 original size:14 final size:14
Alignment explanation
Indices: 9437828--9437856 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9437818 TTTTTTACTT
9437828 TGTTATATAGATTA
1 TGTTATATAGATTA
9437842 TGTTATATAGATTA
1 TGTTATATAGATTA
9437856 T
1 T
9437857 TATTTATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (14 bp):
TGTTATATAGATTA
Found at i:9437954 original size:21 final size:21
Alignment explanation
Indices: 9437930--9437970 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9437920 AGATTGATTA
* *
9437930 TATAGATATATCCAACTTTTC
1 TATAGAGATATACAACTTTTC
*
9437951 TATAGAGATATAGAACTTTT
1 TATAGAGATATACAACTTTT
9437971 ATCAGTAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (21 bp):
TATAGAGATATACAACTTTTC
Found at i:9438002 original size:21 final size:21
Alignment explanation
Indices: 9437978--9438017 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9437968 TTTATCAGTA
*
9437978 ATTCCATTTCATTTATATTAT
1 ATTCCATATCATTTATATTAT
*
9437999 ATTCTATATCATTTATATT
1 ATTCCATATCATTTATATT
9438018 TTGAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTCCATATCATTTATATTAT
Found at i:9438624 original size:11 final size:11
Alignment explanation
Indices: 9438608--9438632 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9438598 CTTTATATAC
9438608 ATATACAATAA
1 ATATACAATAA
9438619 ATATACAATAA
1 ATATACAATAA
9438630 ATA
1 ATA
9438633 CAATAATCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
ATATACAATAA
Found at i:9439463 original size:21 final size:21
Alignment explanation
Indices: 9439439--9439482 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
9439429 GAATCTTTAG
*
9439439 TATTTATTGTATCATTT-TATT
1 TATTTAAT-TATCATTTCTATT
*
9439460 TATTTAATTATCCTTTCTATT
1 TATTTAATTATCATTTCTATT
9439481 TA
1 TA
9439483 ACTATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTAATTATCATTTCTATT
Found at i:9439646 original size:21 final size:24
Alignment explanation
Indices: 9439620--9439665 Score: 71
Period size: 21 Copynumber: 2.0 Consensus size: 24
9439610 AGGTTCTTTA
9439620 TCATTT-TCATT-TTTTA-ATGAT
1 TCATTTCTCATTCTTTTATATGAT
9439641 TCATTTCTCATTCTTTTATATGAT
1 TCATTTCTCATTCTTTTATATGAT
9439665 T
1 T
9439666 TTTATGAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.27
22 5 0.23
23 5 0.23
24 6 0.27
ACGTcount: A:0.22, C:0.13, G:0.04, T:0.61
Consensus pattern (24 bp):
TCATTTCTCATTCTTTTATATGAT
Found at i:9441237 original size:24 final size:21
Alignment explanation
Indices: 9441210--9441255 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 21
9441200 ATTCCATAAA
9441210 AATCATACAAAAGAATGAGAAATG
1 AATCAT-CAAAA-AATGA-AAATG
*
9441234 AATCATTAAAAAATGAAAATG
1 AATCATCAAAAAATGAAAATG
9441255 A
1 A
9441256 TAAAGAACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 5 0.24
23 4 0.19
24 6 0.29
ACGTcount: A:0.61, C:0.07, G:0.13, T:0.20
Consensus pattern (21 bp):
AATCATCAAAAAATGAAAATG
Found at i:9441682 original size:42 final size:42
Alignment explanation
Indices: 9441623--9441737 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 42
9441613 TTACATGGCG
*
9441623 TGGACACACACTCATGTCCTTGCCCGTATGGCTCACACAGCC
1 TGGACACACGCTCATGTCCTTGCCCGTATGGCTCACACAGCC
* * *
9441665 TGGACACACGCTCATGTCCTTGCTCGTATGGCTCACACGGCT
1 TGGACACACGCTCATGTCCTTGCCCGTATGGCTCACACAGCC
* * *
9441707 TGGGCACATGCCCATGTCCCTTG-CCGTATGG
1 TGGACACACGCTCATGT-CCTTGCCCGTATGG
9441738 TTCTAAAGAG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 59 0.92
43 5 0.08
ACGTcount: A:0.17, C:0.35, G:0.23, T:0.24
Consensus pattern (42 bp):
TGGACACACGCTCATGTCCTTGCCCGTATGGCTCACACAGCC
Found at i:9445241 original size:9 final size:9
Alignment explanation
Indices: 9445227--9445416 Score: 106
Period size: 9 Copynumber: 21.6 Consensus size: 9
9445217 TACATGATAT
9445227 CATAACTTA
1 CATAACTTA
9445236 CATAACTTA
1 CATAACTTA
9445245 CATAA--TA
1 CATAACTTA
* *
9445252 CATAAATATT
1 CATAACT-TA
* * *
9445262 TATCACATA
1 CATAACTTA
9445271 -ATAACTTA
1 CATAACTTA
*
9445279 TATAACTTA
1 CATAACTTA
9445288 CATAACTTA
1 CATAACTTA
*
9445297 CTTAACTTA
1 CATAACTTA
*
9445306 CGTAA--TA
1 CATAACTTA
*
9445313 CATAA-ATA
1 CATAACTTA
* ** *
9445321 TATTTCATA
1 CATAACTTA
*
9445330 TCATAATTTA
1 -CATAACTTA
9445340 CATAACTTA
1 CATAACTTA
*
9445349 CATACCTTA
1 CATAACTTA
*
9445358 CATAAATT-
1 CATAACTTA
* * *
9445366 TATATCATA
1 CATAACTTA
*
9445375 TCATAGCTTA
1 -CATAACTTA
9445385 CATAACTTA
1 CATAACTTA
*
9445394 CAAAACTTA
1 CATAACTTA
*
9445403 CTTAACTTA
1 CATAACTTA
9445412 CATAA
1 CATAA
9445417 TACATAAATA
Statistics
Matches: 136, Mismatches: 36, Indels: 18
0.72 0.19 0.09
Matches are distributed among these distances:
7 13 0.10
8 14 0.10
9 95 0.70
10 14 0.10
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (9 bp):
CATAACTTA
Found at i:9445295 original size:61 final size:61
Alignment explanation
Indices: 9445227--9445362 Score: 193
Period size: 61 Copynumber: 2.2 Consensus size: 61
9445217 TACATGATAT
*
9445227 CATAACTTACATAACTTACATAATACATAAATAT-TTATCACATAATAACTTATATAACTTA
1 CATAACTTACATAACTTACATAATACATAAATATATT-TCACATAATAACTTACATAACTTA
* * * * *
9445288 CATAACTTACTTAACTTACGTAATACATAAATATATTTCATATCATAATTTACATAACTTA
1 CATAACTTACATAACTTACATAATACATAAATATATTTCACATAATAACTTACATAACTTA
*
9445349 CATACCTTACATAA
1 CATAACTTACATAA
9445363 ATTTATATCA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
61 64 0.97
62 2 0.03
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.37
Consensus pattern (61 bp):
CATAACTTACATAACTTACATAATACATAAATATATTTCACATAATAACTTACATAACTTA
Found at i:9445403 original size:45 final size:45
Alignment explanation
Indices: 9445288--9445403 Score: 137
Period size: 45 Copynumber: 2.6 Consensus size: 45
9445278 ATATAACTTA
* ** *
9445288 CATAACTTACTTAACTTACGTAA--TACATAAATATATTTCATAT
1 CATAACTTACATAACTTACAAAACTTACATAAATATATATCATAT
* * * *
9445331 CATAATTTACATAACTTACATACCTTACATAAATTTATATCATAT
1 CATAACTTACATAACTTACAAAACTTACATAAATATATATCATAT
*
9445376 CATAGCTTACATAACTTACAAAACTTAC
1 CATAACTTACATAACTTACAAAACTTAC
9445404 TTAACTTACA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
43 19 0.31
45 42 0.69
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.37
Consensus pattern (45 bp):
CATAACTTACATAACTTACAAAACTTACATAAATATATATCATAT
Found at i:9445403 original size:106 final size:104
Alignment explanation
Indices: 9445223--9445428 Score: 306
Period size: 106 Copynumber: 2.0 Consensus size: 104
9445213 TAAATACATG
*
9445223 ATATCATAACTTACATAACTTACATAATACATAAATATTTATCACATAATAACTTATATAACTTA
1 ATATCATAACTTACATAACTTACATAATACATAAATATTTATCACATAATAACTTACATAACTTA
* *
9445288 CATAACTTACTTAACTTACGTAATACATAAATATATTTC
66 CAAAACTTACTTAACTTACATAATACATAAATATATTTC
* * * * *
9445327 ATATCATAATTTACATAACTTACATACCTTACATAAAT-TTATATCATATCATAGCTTACATAAC
1 ATATCATAACTTACATAACTTACATA--ATACATAAATATT-TATCACATAATAACTTACATAAC
9445391 TTACAAAACTTACTTAACTTACATAATACATAAATATA
63 TTACAAAACTTACTTAACTTACATAATACATAAATATA
9445429 CACTTGAAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
104 25 0.27
105 2 0.02
106 64 0.70
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.37
Consensus pattern (104 bp):
ATATCATAACTTACATAACTTACATAATACATAAATATTTATCACATAATAACTTACATAACTTA
CAAAACTTACTTAACTTACATAATACATAAATATATTTC
Found at i:9451764 original size:73 final size:73
Alignment explanation
Indices: 9451628--9451840 Score: 392
Period size: 73 Copynumber: 2.9 Consensus size: 73
9451618 ATGAAGATAT
*
9451628 TTTTTACATGCATGTATATATACACATCCATCCTTTTTAAGTAT-CCCGAGTTTCATTTGTATTA
1 TTTTTACATGCATGTATATATACACATCCATCCTTTTTAAGTATCCCCGACTTTCATTTGTATTA
9451692 AAAGCTAA
66 AAAGCTAA
* *
9451700 TTTTTACAAGCATGTATATGTACACATCCATCCTTTTTAAGTATCCCCGACTTTCATTTGTATTA
1 TTTTTACATGCATGTATATATACACATCCATCCTTTTTAAGTATCCCCGACTTTCATTTGTATTA
9451765 AAAGCTAA
66 AAAGCTAA
9451773 TTTTTACATGCATGTATATATACACATCCATCCTTTTTAAGTATCCCCGACTTTCATTTGTATTA
1 TTTTTACATGCATGTATATATACACATCCATCCTTTTTAAGTATCCCCGACTTTCATTTGTATTA
9451838 AAA
66 AAA
9451841 ATAAACATTT
Statistics
Matches: 135, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
72 42 0.31
73 93 0.69
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (73 bp):
TTTTTACATGCATGTATATATACACATCCATCCTTTTTAAGTATCCCCGACTTTCATTTGTATTA
AAAGCTAA
Found at i:9455564 original size:130 final size:130
Alignment explanation
Indices: 9455269--9455890 Score: 651
Period size: 130 Copynumber: 4.8 Consensus size: 130
9455259 TATTATTGTG
* * * * * * *
9455269 AATCAAC-AACTTAG-GAAGGATTATTCATGATTGTAAATAAATAAACTTTGGCTGTTATCGTAA
1 AATCAACTAACTTAGAGAA-GATTATTCATGATAGTAAATCAATGAACTTAGGTTGTAATCATAA
*** * ** * * *
9455332 ATCAGTAAGCCTTAATAATATCAACTGTGATATTATATCA-CAAGTTGTTTGGAGTAGCAATAGT
65 ATCAACGAGCCTTAATAATATCAACTGTGATATTAAATCAGTGAGCTATTTGGAGTAGCGATAGT
9455396 A
130 A
* * * * * *** * *
9455397 AATCAACTAACTTAAAGATGATTATTCGTAATAGTAAATCAATGAATTTAGGCCATGATTATAAA
1 AATCAACTAACTTAGAGAAGATTATTCATGATAGTAAATCAATGAACTTAGGTTGTAATCATAAA
** * * * *
9455462 TCAACGAGCCTTAATAATATCTGCCGTGATATTAAA-CTAGTGAGTTGTTTGGAGTAGCGATAAT
66 TCAACGAGCCTTAATAATATCAACTGTGATATTAAATC-AGTGAGCTATTTGGAGTAGCGATAGT
9455526 A
130 A
* * * * * *
9455527 AATCAGCAAACTCAGAGAAGATTGTTCATGATAGTAAATCAATGAACTT-GAGTTGTGACCATAA
1 AATCAACTAACTTAGAGAAGATTATTCATGATAGTAAATCAATGAACTTAG-GTTGTAATCATAA
*** * * * * *
9455591 ATCAACGAGCCTTAATAATATCAACTGTGGCCTTAAATCAGTGAGCTATCTGAAATAACTATAGT
65 ATCAACGAGCCTTAATAATATCAACTGTGATATTAAATCAGTGAGCTATTTGGAGTAGCGATAGT
9455656 A
130 A
*
9455657 AATCAACTAACTTAGAGAATATTATTCATGATAGTAAATCAATGAACTTAGGTTGTAATCATAAA
1 AATCAACTAACTTAGAGAAGATTATTCATGATAGTAAATCAATGAACTTAGGTTGTAATCATAAA
* * * *** *
9455722 TCAACGTGCCTTAATAATATCAACTATTATATTAAATCAACAAGCTATTTGGAGTAGCGATACTA
66 TCAACGAGCCTTAATAATATCAACTGTGATATTAAATCAGTGAGCTATTTGGAGTAGCGATAGTA
* *
9455787 AATCAACTAACTTAGAGAAGATTGTTTATGATAGTAAATCAATGAACTTAGGTTGTAATCATAAA
1 AATCAACTAACTTAGAGAAGATTATTCATGATAGTAAATCAATGAACTTAGGTTGTAATCATAAA
** *
9455852 TCAGTGAGCCTTAATAATATCAACTATGATATTAAATCA
66 TCAACGAGCCTTAATAATATCAACTGTGATATTAAATCA
9455891 ACTATTGCAC
Statistics
Matches: 405, Mismatches: 82, Indels: 12
0.81 0.16 0.02
Matches are distributed among these distances:
128 8 0.02
129 71 0.18
130 324 0.80
131 2 0.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (130 bp):
AATCAACTAACTTAGAGAAGATTATTCATGATAGTAAATCAATGAACTTAGGTTGTAATCATAAA
TCAACGAGCCTTAATAATATCAACTGTGATATTAAATCAGTGAGCTATTTGGAGTAGCGATAGTA
Found at i:9463817 original size:3 final size:3
Alignment explanation
Indices: 9463809--9463897 Score: 50
Period size: 3 Copynumber: 32.3 Consensus size: 3
9463799 AGAATATTAG
* * * *
9463809 AAT AAT AAT AAT ATT TAC AAT AA- AA- AAG AA- AAT AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
9463853 -GT ACT AAT AAT -GT AAT AAT AAT AAT AAT AGT AAT AA- AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9463897 A
1 A
9463898 GTTCATATAA
Statistics
Matches: 66, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
2 14 0.21
3 52 0.79
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:9464081 original size:17 final size:18
Alignment explanation
Indices: 9464046--9464088 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
9464036 AATAATGTAC
*
9464046 TAATAAT-GTGATAATAA
1 TAATAATAGTAATAATAA
9464063 TAATAATAGTAATAA-AA
1 TAATAATAGTAATAATAA
9464080 T-ATAATAGT
1 TAATAATAGT
9464089 TAACGTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 8 0.33
17 10 0.42
18 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (18 bp):
TAATAATAGTAATAATAA
Found at i:9464288 original size:188 final size:188
Alignment explanation
Indices: 9463825--9464391 Score: 994
Period size: 188 Copynumber: 3.0 Consensus size: 188
9463815 AATAATATTT
9463825 ACAATAAAAAA-GAAAATAATAAAATAATGTACTAATAATGTAATAATAATAATAATAGTAATAA
1 ACAATAAAAAAGGAAAATAATAAAATAATGTACTAATAATGTAATAATAATAATAATAGTAATAA
* * *
9463889 AATATAATAGTTCATATAATATTAAAGCAATACTAAATATAATATGATAATAATAATTATAATGC
66 AATATAATAGTTAACATAATATTAAAGCAATACTAAATATAATATGATAATAAAAATTATAATGC
*
9463954 AGTACAAGAAATAAATAGAATATATTAATAATATTAAAAAAAGTAGCAAATAATAAGTA
131 AGTACAAAAAATAAATAGAATATATTAATAATATT-AAAAAAGTAGCAAATAATAAGTA
* *
9464013 ATAATAAAAAAGGAAAATAATAAAATAATGTACTAATAATGTGATAATAATAATAATAGTAATAA
1 ACAATAAAAAAGGAAAATAATAAAATAATGTACTAATAATGTAATAATAATAATAATAGTAATAA
* *
9464078 AATATAATAGTTAACGTAATATTAAAGCAATACTAAATATAATGTGATAATAAAAATTATAATGC
66 AATATAATAGTTAACATAATATTAAAGCAATACTAAATATAATATGATAATAAAAATTATAATGC
*
9464143 AGTACAAAAAATAAATAGAATATATTAATAATATTAAAAAAGTAGCAAATGATAAGTA
131 AGTACAAAAAATAAATAGAATATATTAATAATATTAAAAAAGTAGCAAATAATAAGTA
9464201 ACAATAAAAAAGGAAAATAATAAAATAATGTACTAATAATGTAATAATAATAATAATAGTAATAA
1 ACAATAAAAAAGGAAAATAATAAAATAATGTACTAATAATGTAATAATAATAATAATAGTAATAA
* *
9464266 AATATAATACTTAACATAATATTAAAGCAATACTAAATATAATATGATAATAAAAATTGTAATGC
66 AATATAATAGTTAACATAATATTAAAGCAATACTAAATATAATATGATAATAAAAATTATAATGC
*
9464331 AGTACAAAAAAATAAATAGAATGTATTAATAATATT-AAAAAGTAGCAAATAATAAGTA
131 AGTAC-AAAAAATAAATAGAATATATTAATAATATTAAAAAAGTAGCAAATAATAAGTA
9464389 ACA
1 ACA
9464392 TAATCATATT
Statistics
Matches: 360, Mismatches: 17, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
188 185 0.51
189 175 0.49
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (188 bp):
ACAATAAAAAAGGAAAATAATAAAATAATGTACTAATAATGTAATAATAATAATAATAGTAATAA
AATATAATAGTTAACATAATATTAAAGCAATACTAAATATAATATGATAATAAAAATTATAATGC
AGTACAAAAAATAAATAGAATATATTAATAATATTAAAAAAGTAGCAAATAATAAGTA
Found at i:9465606 original size:15 final size:16
Alignment explanation
Indices: 9465586--9465725 Score: 153
Period size: 17 Copynumber: 8.6 Consensus size: 16
9465576 AAGGTTAAAA
*
9465586 GGGTTTTGGG-TTGTT
1 GGGTTTTGGGATAGTT
9465601 GGGTTTTGGGATAGTT
1 GGGTTTTGGGATAGTT
*
9465617 GGGTTTAAGGGATAGCTT
1 GGGTTT-TGGGATAG-TT
*
9465635 -GGTTTTGGAATAGTT
1 GGGTTTTGGGATAGTT
*
9465650 -GGTTTAAGGGATAGTT
1 GGGTTT-TGGGATAGTT
9465666 GGGTTTAAT-GGATAGTT
1 GGGTTT--TGGGATAGTT
9465683 GGGTTTTGGGATAGTT
1 GGGTTTTGGGATAGTT
*
9465699 GGGTTTAAGGGATAGTT
1 GGGTTT-TGGGATAGTT
9465716 GGGTTTTGGG
1 GGGTTTTGGG
9465726 CCAGGCAAAT
Statistics
Matches: 108, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
15 18 0.17
16 41 0.38
17 46 0.43
18 3 0.03
ACGTcount: A:0.16, C:0.01, G:0.41, T:0.41
Consensus pattern (16 bp):
GGGTTTTGGGATAGTT
Found at i:9465630 original size:17 final size:17
Alignment explanation
Indices: 9465598--9465721 Score: 159
Period size: 17 Copynumber: 7.5 Consensus size: 17
9465588 GTTTTGGGTT
*
9465598 GTTGGGTTT-TGGGATA
1 GTTGGGTTTAAGGGATA
9465614 GTTGGGTTTAAGGGATA
1 GTTGGGTTTAAGGGATA
* *
9465631 GCTT-GGTTT-TGGAATA
1 G-TTGGGTTTAAGGGATA
9465647 GTT-GGTTTAAGGGATA
1 GTTGGGTTTAAGGGATA
*
9465663 GTTGGGTTTAATGGATA
1 GTTGGGTTTAAGGGATA
*
9465680 GTTGGGTTT-TGGGATA
1 GTTGGGTTTAAGGGATA
9465696 GTTGGGTTTAAGGGATA
1 GTTGGGTTTAAGGGATA
9465713 GTTGGGTTT
1 GTTGGGTTT
9465722 TGGGCCAGGC
Statistics
Matches: 94, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
15 7 0.07
16 37 0.39
17 48 0.51
18 2 0.02
ACGTcount: A:0.19, C:0.01, G:0.40, T:0.41
Consensus pattern (17 bp):
GTTGGGTTTAAGGGATA
Found at i:9465640 original size:33 final size:34
Alignment explanation
Indices: 9465598--9465721 Score: 161
Period size: 33 Copynumber: 3.8 Consensus size: 34
9465588 GTTTTGGGTT
9465598 GTTGGGTTT-TGGGATAGTTGGGTTTAAGGGATA
1 GTTGGGTTTATGGGATAGTTGGGTTTAAGGGATA
*
9465631 GCTT-GGTTT-TGGAATAGTT-GGTTTAAGGGATA
1 G-TTGGGTTTATGGGATAGTTGGGTTTAAGGGATA
*
9465663 GTTGGGTTTAAT-GGATAGTTGGGTTT-TGGGATA
1 GTTGGGTTT-ATGGGATAGTTGGGTTTAAGGGATA
*
9465696 GTTGGGTTTAAGGGATAGTTGGGTTT
1 GTTGGGTTTATGGGATAGTTGGGTTT
9465722 TGGGCCAGGC
Statistics
Matches: 81, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
31 2 0.02
32 20 0.25
33 51 0.63
34 8 0.10
ACGTcount: A:0.19, C:0.01, G:0.40, T:0.41
Consensus pattern (34 bp):
GTTGGGTTTATGGGATAGTTGGGTTTAAGGGATA
Found at i:9465664 original size:49 final size:50
Alignment explanation
Indices: 9465598--9465721 Score: 191
Period size: 49 Copynumber: 2.5 Consensus size: 50
9465588 GTTTTGGGTT
*
9465598 GTTGGGTTT-TGGGATAGTTGGGTTTAAGGGATAGCTT-GGTTTTGGAATA
1 GTTGGGTTTAAGGGATAGTTGGGTTTAAGGGATAG-TTGGGTTTTGGAATA
* *
9465647 GTT-GGTTTAAGGGATAGTTGGGTTTAATGGATAGTTGGGTTTTGGGATA
1 GTTGGGTTTAAGGGATAGTTGGGTTTAAGGGATAGTTGGGTTTTGGAATA
9465696 GTTGGGTTTAAGGGATAGTTGGGTTT
1 GTTGGGTTTAAGGGATAGTTGGGTTT
9465722 TGGGCCAGGC
Statistics
Matches: 69, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
48 7 0.10
49 40 0.58
50 22 0.32
ACGTcount: A:0.19, C:0.01, G:0.40, T:0.41
Consensus pattern (50 bp):
GTTGGGTTTAAGGGATAGTTGGGTTTAAGGGATAGTTGGGTTTTGGAATA
Found at i:9465722 original size:33 final size:32
Alignment explanation
Indices: 9465586--9465725 Score: 151
Period size: 33 Copynumber: 4.3 Consensus size: 32
9465576 AAGGTTAAAA
* *
9465586 GGGTTTTGGG-TTGTTGGGTTTTGGGATAGTT
1 GGGTTTTGGGATAGTTGGGTTTAGGGATAGTT
* * *
9465617 GGGTTTAAGGGATAGCTT-GGTTTTGGAATAGTT
1 GGGTTT-TGGGATAG-TTGGGTTTAGGGATAGTT
* *
9465650 -GGTTTAAGGGATAGTTGGGTTTAATGGATAGTT
1 GGGTTT-TGGGATAGTTGGGTTT-AGGGATAGTT
9465683 GGGTTTTGGGATAGTTGGGTTTAAGGGATAGTT
1 GGGTTTTGGGATAGTTGGGTTT-AGGGATAGTT
9465716 GGGTTTTGGG
1 GGGTTTTGGG
9465726 CCAGGCAAAT
Statistics
Matches: 95, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
31 8 0.08
32 22 0.23
33 58 0.61
34 7 0.07
ACGTcount: A:0.16, C:0.01, G:0.41, T:0.41
Consensus pattern (32 bp):
GGGTTTTGGGATAGTTGGGTTTAGGGATAGTT
Found at i:9466178 original size:66 final size:66
Alignment explanation
Indices: 9466096--9466291 Score: 320
Period size: 66 Copynumber: 3.0 Consensus size: 66
9466086 CAATCTACTC
* * * * * *
9466096 CGCTGAAACTTCAAGGAGATCTGCTGTGACTTCGAGCCGCTCCAATGCTATTTCAGGGAGAAGAT
1 CGCTGAAACTTCAAGGAGATTTGTTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAT
9466161 T
66 T
9466162 CGCTGAAACTTCAAGGAGATTTGTTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAT
1 CGCTGAAACTTCAAGGAGATTTGTTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAT
9466227 T
66 T
* *
9466228 TGCTGAAACTTCAAGGAGATTTGTTGTGGCTTCTAGCTGCTCCAACGCCATTTCAGGGAGAAGA
1 CGCTGAAACTTCAAGGAGATTTGTTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGA
9466292 GAGTTGTAAT
Statistics
Matches: 122, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 122 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (66 bp):
CGCTGAAACTTCAAGGAGATTTGTTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAT
T
Found at i:9477557 original size:45 final size:46
Alignment explanation
Indices: 9477482--9477572 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 46
9477472 TTGATTATTT
* * * *
9477482 TGAACAAACGAGAAATCGAAACCTAGCACGATAGGGCACGATTCCC
1 TGAACAAACAAGAAATCGAAACCCAACACGATAGGGAACGATTCCC
*
9477528 TGAA-AAACAAGAAATC-AGAACCCAACACGATAGGGAAGGATTCCC
1 TGAACAAACAAGAAATCGA-AACCCAACACGATAGGGAACGATTCCC
9477573 CGAATTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
44 1 0.03
45 34 0.87
46 4 0.10
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.12
Consensus pattern (46 bp):
TGAACAAACAAGAAATCGAAACCCAACACGATAGGGAACGATTCCC
Found at i:9478154 original size:19 final size:19
Alignment explanation
Indices: 9478103--9478202 Score: 61
Period size: 17 Copynumber: 5.4 Consensus size: 19
9478093 TTACAATAAA
*
9478103 AATAATAATAAAATAAT-GT
1 AATAATAA-AATATAATAGT
* *
9478122 ACTAAT--AATGTAATAGT
1 AATAATAAAATATAATAGT
9478139 AATAATAAAATATAATAGT
1 AATAATAAAATATAATAGT
* *
9478158 --TACTATAATATTAA-AGT
1 AATAATAAAATA-TAATAGT
*
9478175 AATACT-AAATATAATATGAT
1 AATAATAAAATATAATA-G-T
9478195 AATAATAA
1 AATAATAA
9478203 TTATAATGCA
Statistics
Matches: 62, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
16 6 0.10
17 21 0.34
18 8 0.13
19 20 0.32
20 6 0.10
21 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (19 bp):
AATAATAAAATATAATAGT
Found at i:9478154 original size:64 final size:64
Alignment explanation
Indices: 9478037--9478165 Score: 145
Period size: 64 Copynumber: 2.0 Consensus size: 64
9478027 ATAAATAATG
* * * * *
9478037 AAAATAATGATACAAATAATGAAAAATATTATAATATAATATTAGAATAATAATATTTACAATA
1 AAAATAATAATACAAATAATGAAAAATAATATAATATAATAATAAAATAATAATAGTTACAATA
** * *
9478101 AAAATAATAATA-AAATAATGTACTAATAATGTAATAGTAATAATAAAAT-ATAATAGTTACTAT
1 AAAATAATAATACAAATAATG-AAAAATAATATAATA-TAATAATAAAATAATAATAGTTACAAT
9478164 A
64 A
9478165 A
1 A
9478166 TATTAAAGTA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
63 8 0.15
64 36 0.67
65 10 0.19
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (64 bp):
AAAATAATAATACAAATAATGAAAAATAATATAATATAATAATAAAATAATAATAGTTACAATA
Found at i:9479535 original size:17 final size:17
Alignment explanation
Indices: 9479509--9479547 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
9479499 ATTTTAGGTT
* *
9479509 GTTGGGTTTAAGGGATA
1 GTTGGATTTAAAGGATA
9479526 GTTGGATTTAAAGGATA
1 GTTGGATTTAAAGGATA
*
9479543 ATTGG
1 GTTGG
9479548 GTTTTGGGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.36, T:0.36
Consensus pattern (17 bp):
GTTGGATTTAAAGGATA
Found at i:9487579 original size:280 final size:280
Alignment explanation
Indices: 9487078--9487640 Score: 1117
Period size: 280 Copynumber: 2.0 Consensus size: 280
9487068 TCTATTTTAG
9487078 TCATCTAACTATTATTATTTTTTATTTAATCACTCAACTTATTAAATATTTGTGTTAATATGCAA
1 TCATCTAACTATTATTATTTTTTATTTAATCACTCAACTTATTAAATATTTGTGTTAATATGCAA
9487143 ATTTGTCACTATGTTTTAAATGGAAACTTAAAATTACCTCTATACTTCACTTTAATTGAGATTTG
66 ATTTGTCACTATGTTTTAAATGGAAACTTAAAATTACCTCTATACTTCACTTTAATTGAGATTTG
9487208 TCATTGTCCATATGAACTAAAGATAAATTTACCACTATACCTTAACTCTATATTGAATTTTGTGT
131 TCATTGTCCATATGAACTAAAGATAAATTTACCACTATACCTTAACTCTATATTGAATTTTGTGT
9487273 CTTTATTTTTATTTGATTGAAATTTGTCACTAAAGCTTTTTTTTTTTAATTTCGCTAGTCAATTT
196 CTTTATTTTTATTTGATTGAAATTTGTCACTAAAGCTTTTTTTTTTTAATTTCGCTAGTCAATTT
9487338 TAATTTAAAATGATTTTAAA
261 TAATTTAAAATGATTTTAAA
9487358 TCATCTAACTATTATTATTTTTTATTTAATCACTCAACTTATTAAATATTTGTGTTAATATGCAA
1 TCATCTAACTATTATTATTTTTTATTTAATCACTCAACTTATTAAATATTTGTGTTAATATGCAA
9487423 ATTTGTCACTATGTTTTAAATGGAAACTTAAAATTACCTCTATACTTCACTTTAATTGAGATTTG
66 ATTTGTCACTATGTTTTAAATGGAAACTTAAAATTACCTCTATACTTCACTTTAATTGAGATTTG
*
9487488 TCATTGTCCATATGAACTAAAGATAAATTTACCACTATCCCTTAACTCTATATTGAATTTTGTGT
131 TCATTGTCCATATGAACTAAAGATAAATTTACCACTATACCTTAACTCTATATTGAATTTTGTGT
9487553 CTTTATTTTTATTTGATTGAAATTTGTCACTAAAGCTTTTTTTTTTTAATTTCGCTAGTCAATTT
196 CTTTATTTTTATTTGATTGAAATTTGTCACTAAAGCTTTTTTTTTTTAATTTCGCTAGTCAATTT
9487618 TAATTTAAAATGATTTTAAA
261 TAATTTAAAATGATTTTAAA
9487638 TCA
1 TCA
9487641 AAATTTAATA
Statistics
Matches: 282, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
280 282 1.00
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (280 bp):
TCATCTAACTATTATTATTTTTTATTTAATCACTCAACTTATTAAATATTTGTGTTAATATGCAA
ATTTGTCACTATGTTTTAAATGGAAACTTAAAATTACCTCTATACTTCACTTTAATTGAGATTTG
TCATTGTCCATATGAACTAAAGATAAATTTACCACTATACCTTAACTCTATATTGAATTTTGTGT
CTTTATTTTTATTTGATTGAAATTTGTCACTAAAGCTTTTTTTTTTTAATTTCGCTAGTCAATTT
TAATTTAAAATGATTTTAAA
Found at i:9487958 original size:17 final size:19
Alignment explanation
Indices: 9487936--9487974 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
9487926 GTGGTGTGGA
9487936 AAAGTTTA-A-TAAAATTC
1 AAAGTTTACAGTAAAATTC
9487953 AAAGTTTACGAGTAAAATTC
1 AAAGTTTAC-AGTAAAATTC
9487973 AA
1 AA
9487975 TCACATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
19 1 0.05
20 10 0.53
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (19 bp):
AAAGTTTACAGTAAAATTC
Found at i:9488819 original size:15 final size:16
Alignment explanation
Indices: 9488785--9488821 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
9488775 AACTGGCCCC
9488785 TTTAATTCTTAAATTT
1 TTTAATTCTTAAATTT
9488801 TTTAATT-TT-AATTT
1 TTTAATTCTTAAATTT
9488815 ATTTAAT
1 -TTTAAT
9488822 AATTTAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 8 0.40
16 7 0.35
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAATTCTTAAATTT
Found at i:9490975 original size:41 final size:42
Alignment explanation
Indices: 9490799--9491011 Score: 196
Period size: 42 Copynumber: 5.1 Consensus size: 42
9490789 TTACAAACAA
* * * **** *
9490799 AAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGATTTTTTAC
* ****
9490841 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGGGA-
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGATT-TTTTAC
* * *
9490883 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTTC
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGATTTTTTAC
* *
9490925 TAATCGCCGCTAAAGAACATGTTCTTTAGTGGC-ATTTTTTAC
1 -AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGATTTTTTAC
* * * *
9490967 AAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTTTTATAC
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGATTTTTTAC
9491009 AAA
1 AAA
9491012 AACGCCACTA
Statistics
Matches: 147, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
41 30 0.20
42 85 0.58
43 32 0.22
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGATTTTTTAC
Found at i:9491093 original size:14 final size:14
Alignment explanation
Indices: 9491070--9491103 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
9491060 GCCCTCCTGT
*
9491070 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
9491084 AGCAACATTTCAAA
1 AGCAACATTTCAAA
9491098 AGCAAC
1 AGCAAC
9491104 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:9491395 original size:21 final size:21
Alignment explanation
Indices: 9491327--9491397 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
9491317 TTTTGCTCTG
* *
9491327 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
9491348 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
9491369 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
9491390 CTCTGCTT
1 CTCTGCTT
9491398 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:9496871 original size:18 final size:18
Alignment explanation
Indices: 9496848--9497012 Score: 69
Period size: 18 Copynumber: 9.5 Consensus size: 18
9496838 AATTGCAATG
9496848 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
9496866 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
9496884 GTAAGTTAAATGTAAG-T-T
1 GTAAGTT--ATGTAAGTTAT
*
9496902 GTAAGTTAT-TATGTATTAT
1 GTAAGTTATGTAAG--TTAT
9496921 GTAAG-T-TGTAAGTTAAAT
1 GTAAGTTATGTAAGTT--AT
*
9496939 GT-A-TTGTGTAAG-T-T
1 GTAAGTTATGTAAGTTAT
9496953 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
9496971 GTAAG-T-TGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
*
9496987 -TATGTATTATGTAAG-T-T
1 GTAAG--TTATGTAAGTTAT
9497004 GTAAGTTAT
1 GTAAGTTAT
9497013 TATGTATTGT
Statistics
Matches: 116, Mismatches: 5, Indels: 54
0.66 0.03 0.31
Matches are distributed among these distances:
14 6 0.05
15 8 0.07
16 14 0.12
17 8 0.07
18 61 0.53
19 15 0.13
20 4 0.03
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (18 bp):
GTAAGTTATGTAAGTTAT
Found at i:9496896 original size:11 final size:9
Alignment explanation
Indices: 9496848--9497012 Score: 69
Period size: 7 Copynumber: 19.0 Consensus size: 9
9496838 AATTGCAATG
9496848 GTAAGTTAT
1 GTAAGTTAT
9496857 GTAAGTTAT
1 GTAAGTTAT
9496866 GTAAGTTAAAT
1 GTAAGTT--AT
9496877 GT-A-TTAT
1 GTAAGTTAT
9496884 GTAAGTTAAAT
1 GTAAGTT--AT
9496895 GTAAG-T-T
1 GTAAGTTAT
9496902 GTAAGTTAT
1 GTAAGTTAT
*
9496911 -TATGTATTAT
1 GTAAG--TTAT
9496921 GTAAG-T-T
1 GTAAGTTAT
9496928 GTAAGTTAAAT
1 GTAAGTT--AT
*
9496939 GT-A-TTGT
1 GTAAGTTAT
9496946 GTAAG-T-T
1 GTAAGTTAT
9496953 GTAAGTTAAAT
1 GTAAGTT--AT
9496964 GT-A-TTAT
1 GTAAGTTAT
9496971 GTAAG-T-T
1 GTAAGTTAT
9496978 GTAAGTTAT
1 GTAAGTTAT
*
9496987 -TATGTATTAT
1 GTAAG--TTAT
9496997 GTAAG-T-T
1 GTAAGTTAT
9497004 GTAAGTTAT
1 GTAAGTTAT
9497013 TATGTATTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 60
0.65 0.03 0.32
Matches are distributed among these distances:
7 41 0.34
8 18 0.15
9 27 0.22
10 12 0.10
11 23 0.19
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:9496927 original size:26 final size:25
Alignment explanation
Indices: 9496893--9497246 Score: 461
Period size: 26 Copynumber: 14.1 Consensus size: 25
9496883 TGTAAGTTAA
9496893 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
*
9496919 ATGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
* *
9496944 GTGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
9496969 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
9496995 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
* * *
9497021 GTGTAAGTTGCAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
*
9497046 GTGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
9497072 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
* *
9497098 GTGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
* *
9497123 ATGTCA---GTCA---A-ATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
*
9497141 ATGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATATGTATT
9497166 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
*
9497192 ATGTAAGTAATGTAAGTTAAATGTATT
1 ATGTAAGT--TGTAAGTTATATGTATT
9497219 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-TATGTATT
9497245 AT
1 AT
9497247 TTAATAAAAT
Statistics
Matches: 295, Mismatches: 20, Indels: 26
0.87 0.06 0.08
Matches are distributed among these distances:
18 12 0.04
19 1 0.00
21 3 0.01
22 3 0.01
24 1 0.00
25 114 0.39
26 137 0.46
27 15 0.05
28 9 0.03
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.46
Consensus pattern (25 bp):
ATGTAAGTTGTAAGTTATATGTATT
Found at i:9497025 original size:19 final size:19
Alignment explanation
Indices: 9497003--9497106 Score: 58
Period size: 19 Copynumber: 5.4 Consensus size: 19
9496993 TTATGTAAGT
9497003 TGTAAGTTATTATGTATTG
1 TGTAAGTTATTATGTATTG
9497022 TGTAAGTTGCAAGTTAAATGTATTG
1 TGTAAGTT---A-TT--ATGTATTG
* * *
9497047 TGTAAGTT-GTAAG--TTA
1 TGTAAGTTATTATGTATTG
* *
9497063 T-TATG-TATTATGTA-AG
1 TGTAAGTTATTATGTATTG
9497079 TTGTAAGTTATTATGTATTG
1 -TGTAAGTTATTATGTATTG
9497099 TGTAAGTT
1 TGTAAGTT
9497107 GTAAGTTAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 26
0.63 0.10 0.27
Matches are distributed among these distances:
14 1 0.02
15 6 0.10
16 3 0.05
17 1 0.02
18 5 0.08
19 25 0.40
20 2 0.03
22 1 0.02
23 2 0.03
25 16 0.26
ACGTcount: A:0.29, C:0.01, G:0.22, T:0.48
Consensus pattern (19 bp):
TGTAAGTTATTATGTATTG
Found at i:9497058 original size:77 final size:77
Alignment explanation
Indices: 9496893--9497244 Score: 519
Period size: 77 Copynumber: 4.7 Consensus size: 77
9496883 TGTAAGTTAA
*
9496893 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTATTGTGTAAGTTGTAA
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAA
9496957 GTTAAATGTATT
66 GTTAAATGTATT
*
9496969 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGCAA
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAA
9497034 GTTAAATGTATT
66 GTTAAATGTATT
*
9497046 GTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAA
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAA
9497111 GTTAAATGTATT
66 GTTAAATGTATT
* * * *
9497123 ATGTCA---GTCA---A--ATGTATTATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAA
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAA
*
9497179 GTTATTATGTATT
66 GTTA-AATGTATT
*
9497192 ATGTAAGTAATGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATT
9497245 ATTTAATAAA
Statistics
Matches: 251, Mismatches: 13, Indels: 21
0.88 0.05 0.07
Matches are distributed among these distances:
68 23 0.09
69 36 0.14
71 1 0.00
74 6 0.02
76 43 0.17
77 111 0.44
78 24 0.10
79 7 0.03
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.46
Consensus pattern (77 bp):
ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAA
GTTAAATGTATT
Found at i:9497170 original size:18 final size:18
Alignment explanation
Indices: 9497106--9497227 Score: 74
Period size: 18 Copynumber: 6.4 Consensus size: 18
9497096 TTGTGTAAGT
9497106 TGTAAGTTAAATGTATTA
1 TGTAAGTTAAATGTATTA
* *
9497124 TGTCAGTCAAATGTATTATGTAA
1 TGTAAGTTAAATG---TAT-T-A
9497147 GTTGTAAGTTAAATGTATTA
1 --TGTAAGTTAAATGTATTA
*
9497167 TGTAAGTTGTAA-GTTATTA
1 TGTAAGTT-AAATG-TATTA
*
9497186 TGT-A-TT--ATGTAAGTAA
1 TGTAAGTTAAATGT-A-TTA
9497202 TGTAAGTTAAATGTATTA
1 TGTAAGTTAAATGTATTA
9497220 TGTAAGTT
1 TGTAAGTT
9497228 GTAAGTTATT
Statistics
Matches: 81, Mismatches: 7, Indels: 32
0.68 0.06 0.27
Matches are distributed among these distances:
14 2 0.02
15 2 0.02
16 5 0.06
17 3 0.04
18 33 0.41
19 11 0.14
20 5 0.06
21 4 0.05
22 4 0.05
23 1 0.01
25 11 0.14
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (18 bp):
TGTAAGTTAAATGTATTA
Found at i:9497186 original size:19 final size:19
Alignment explanation
Indices: 9497162--9497242 Score: 84
Period size: 19 Copynumber: 4.5 Consensus size: 19
9497152 AAGTTAAATG
9497162 TATTATGTAAGTTGTAAGT
1 TATTATGTAAGTTGTAAGT
*
9497181 TATTATGT-ATTATGTAAG-
1 TATTATGTAAGT-TGTAAGT
*
9497199 TA--ATGTAAG-T-TAAAT
1 TATTATGTAAGTTGTAAGT
9497214 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
9497234 TATTATGTA
1 TATTATGTA
9497243 TTATTTAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
14 3 0.06
15 1 0.02
16 6 0.12
17 1 0.02
18 11 0.22
19 24 0.48
20 4 0.08
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.47
Consensus pattern (19 bp):
TATTATGTAAGTTGTAAGT
Found at i:9497216 original size:53 final size:51
Alignment explanation
Indices: 9496893--9497246 Score: 485
Period size: 51 Copynumber: 7.0 Consensus size: 51
9496883 TGTAAGTTAA
* *
9496893 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
*
9496944 GTGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
* * * *
9496995 ATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGCAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
* *
9497046 GTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
* * *
9497098 GTGTAAGTTGTAAGTTAAATGTATTATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
9497141 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
9497192 ATGTAAGTAATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGT--TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
9497245 AT
1 AT
9497247 TTAATAAAAT
Statistics
Matches: 272, Mismatches: 18, Indels: 24
0.87 0.06 0.08
Matches are distributed among these distances:
43 36 0.13
45 1 0.00
46 3 0.01
48 3 0.01
49 1 0.00
50 24 0.09
51 113 0.42
52 46 0.17
53 45 0.17
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.46
Consensus pattern (51 bp):
ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
Found at i:9497524 original size:13 final size:13
Alignment explanation
Indices: 9497506--9497550 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
9497496 ATTTATAATT
9497506 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
9497519 ATTTAAGTAACAT
1 ATTTAAGTAATAA
9497532 ATTTAAGTAATAA
1 ATTTAAGTAATAA
9497545 ATTTAA
1 ATTTAA
9497551 ACAAATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (13 bp):
ATTTAAGTAATAA
Done.