Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 24 of 91
Found at i:7979028 original size:19 final size:19
Alignment explanation
Indices: 7979006--7979043 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
7978996 CCATTTGACT
7979006 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
7979025 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
7979044 GTTTAGAAGT
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:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:7979425 original size:21 final size:22
Alignment explanation
Indices: 7979394--7979436 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
7979384 GTGAGGAATT
7979394 TCAAGAGAAAA-AATGTGAAAAA
1 TCAAGAGAAAACAA-GTGAAAAA
7979416 TCAAG-GAAAACAAGTGAAAAA
1 TCAAGAGAAAACAAGTGAAAAA
7979437 GGTAGGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.63, C:0.07, G:0.19, T:0.12
Consensus pattern (22 bp):
TCAAGAGAAAACAAGTGAAAAA
Found at i:7986455 original size:21 final size:22
Alignment explanation
Indices: 7986430--7986470 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
7986420 CCTAGGTGGA
*
7986430 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAATAAGTGTG
*
7986451 AAAATTTAAGGAAATAAGTG
1 AAAATTCAAGGAAATAAGTG
7986471 ACAAAAGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.51, C:0.02, G:0.24, T:0.22
Consensus pattern (22 bp):
AAAATTCAAGGAAATAAGTGTG
Found at i:7993955 original size:77 final size:76
Alignment explanation
Indices: 7993867--7994022 Score: 249
Period size: 77 Copynumber: 2.0 Consensus size: 76
7993857 TGGGATGATA
** * *
7993867 AGGATAAAATGTTAATGTAGCTAAATTACAAAGTAGTTACAATACTTCTGTATGGTTTTAGTGAG
1 AGGATAAAATGTTAATACAGATAAATTACAAAGTAGTTACAATACTTCTGTATGCTTTTAGTGAG
7993932 AATGAATTCAAT
66 AATGAATT-AAT
* *
7993944 AGGATAAAATGTTAATACAGATGAATTACAAAGTAGTTACAATACTTCTGTGTGCTTTTAGTGAG
1 AGGATAAAATGTTAATACAGATAAATTACAAAGTAGTTACAATACTTCTGTATGCTTTTAGTGAG
7994009 AATGAATTAAT
66 AATGAATTAAT
7994020 AGG
1 AGG
7994023 GTAGCTATTT
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
76 6 0.08
77 67 0.92
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (76 bp):
AGGATAAAATGTTAATACAGATAAATTACAAAGTAGTTACAATACTTCTGTATGCTTTTAGTGAG
AATGAATTAAT
Found at i:8008709 original size:21 final size:21
Alignment explanation
Indices: 8008660--8008711 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
8008650 GTTTCTTACT
8008660 GCAGCGAGAATGAATCTCGCC
1 GCAGCGAGAATGAATCTCGCC
* * *
8008681 GTAACGAGAATGAATCTCGTC
1 GCAGCGAGAATGAATCTCGCC
8008702 GCAGCGAGAA
1 GCAGCGAGAA
8008712 CAGGACACCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.29, T:0.15
Consensus pattern (21 bp):
GCAGCGAGAATGAATCTCGCC
Found at i:8008939 original size:37 final size:37
Alignment explanation
Indices: 8008888--8008998 Score: 150
Period size: 37 Copynumber: 3.0 Consensus size: 37
8008878 CATATACATA
* * *
8008888 CATCGTCATCATGTGTGCACTCCCTATTGGCACACTC
1 CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
** *
8008925 TGTCATCATCATGTGTGAACTCCCTACTCGCACACTC
1 CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
* *
8008962 CATCATCATCATGTGTGCACTCCTTACTCACACACTC
1 CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
8008999 AACATCACCA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.22, C:0.36, G:0.13, T:0.30
Consensus pattern (37 bp):
CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
Found at i:8015232 original size:73 final size:72
Alignment explanation
Indices: 8015070--8015275 Score: 207
Period size: 73 Copynumber: 2.8 Consensus size: 72
8015060 TCTAATACAC
* * * *
8015070 AATTCAAATTTTCTGGCAGAATGCTCTTAGTTGACTAACTTATGTCTTAGTCGACTAAGTTGTCT
1 AATTCAAA-TTTCTGGCAGTA-GCTCTTAGTCGACTAACTTATTTCTTGGTCGACTAAGTTGTCT
* *
8015135 CTATTTTCT
64 CTATCTTCA
** * * * *
8015144 GTTTCCAATTCCTGGCAGTGAGCACTTAGTCAACTAACTTATTTCTTGGTCGACTAAGTTGGT-T
1 AATTCAAATTTCTGGCAGT-AGCTCTTAGTCGACTAACTTATTTCTTGGTCGACTAAGTT-GTCT
* *
8015208 CTGTCTTGA
64 CTATCTTCA
** *
8015217 AATTCAAATTTCTGGCAGTAGCTTCTTAGTCGACTAACCCATTCCTTGGTCGACTAAGT
1 AATTCAAATTTCTGGCAGTAGC-TCTTAGTCGACTAACTTATTTCTTGGTCGACTAAGT
8015276 CTTTTCTATC
Statistics
Matches: 106, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
72 3 0.03
73 95 0.90
74 8 0.08
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.39
Consensus pattern (72 bp):
AATTCAAATTTCTGGCAGTAGCTCTTAGTCGACTAACTTATTTCTTGGTCGACTAAGTTGTCTCT
ATCTTCA
Found at i:8019424 original size:11 final size:11
Alignment explanation
Indices: 8019384--8019422 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
8019374 CACTGTAAAT
8019384 TTTAAAACAGC
1 TTTAAAACAGC
*
8019395 TTTAAAACAAC
1 TTTAAAACAGC
*
8019406 TTTAAACCAGC
1 TTTAAAACAGC
8019417 TTTAAA
1 TTTAAA
8019423 CCCAAAAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.46, C:0.18, G:0.05, T:0.31
Consensus pattern (11 bp):
TTTAAAACAGC
Found at i:8022835 original size:30 final size:29
Alignment explanation
Indices: 8022799--8022871 Score: 128
Period size: 30 Copynumber: 2.5 Consensus size: 29
8022789 TAATTACAAA
8022799 AAAAAAATATTTTTAATTTCAAAAAATAAT
1 AAAAAAATATTTTTAATTTCAAAAAA-AAT
*
8022829 AAAAAAATATTTTTAATTTTAAAAAAAAT
1 AAAAAAATATTTTTAATTTCAAAAAAAAT
8022858 AAAAAAATATTTTT
1 AAAAAAATATTTTT
8022872 GGGCAAAAGA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 17 0.40
30 25 0.60
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAAAAATATTTTTAATTTCAAAAAAAAT
Found at i:8024317 original size:16 final size:17
Alignment explanation
Indices: 8024283--8024318 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
8024273 CCTATATTGT
8024283 TTTATCTTAAGACAATA
1 TTTATCTTAAGACAATA
*
8024300 TTTATCTTAATA-AATA
1 TTTATCTTAAGACAATA
8024316 TTT
1 TTT
8024319 CTCATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTATCTTAAGACAATA
Found at i:8027709 original size:2 final size:2
Alignment explanation
Indices: 8027702--8027726 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8027692 ATAAAATAAG
8027702 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8027727 GTAAGAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8029526 original size:63 final size:63
Alignment explanation
Indices: 8029402--8030163 Score: 379
Period size: 63 Copynumber: 11.9 Consensus size: 63
8029392 AAGTCAATGT
* * * * * * * *
8029402 GATTTCCAAAATTGAACCCA-TTTT-AAGTTGGGTCAAGGCTTGATTAAGCCAAGAAACTTTCAA
1 GATTTTCAAAATTGAAACCATTTTTGAA--TGGATCAAGCCTTGATCAAGTCAAGGAATTTTCAA
* *
8029465 GATTTTCAAAATTGAAACCATTTTTAAATGGATCAAGCCCTT-ATCAAGTCAAGCAATTTTCAA
1 GATTTTCAAAATTGAAACCATTTTTGAATGGATCAAG-CCTTGATCAAGTCAAGGAATTTTCAA
* *
8029528 GATTATTTTTTTTAAAAAAATTCAAATCCATTTTTGAATGG-TCAAGCCTTGATCAAGTCAAGGA
1 G---A----TTTT--CAAAATTGAAA-CCATTTTTGAATGGATCAAGCCTTGATCAAGTCAAGGA
* *
8029592 GTGTTCAA
56 ATTTTCAA
* * * *
8029600 GATTTTTATAA-TCAAATTCATTTTTGAATGGAT-AGAGCCTTGATCAAGTCAAGGAATTTTC-A
1 GATTTTCAAAATTGAAA-CCATTTTTGAATGGATCA-AGCCTTGATCAAGTCAAGGAATTTTCAA
* ** ** *
8029662 TATTTTCAAAATTGAATA-CATTTTTGAATGGATTGAGCCTTGATTGAGTCAAGGAGTTTTCAA
1 GATTTTCAAAATTGAA-ACCATTTTTGAATGGATCAAGCCTTGATCAAGTCAAGGAATTTTCAA
* * * * * ** * *
8029725 -ATTTGTTAAAAATCGAATCAATTTTTTAATGGATTGAGCCTAGATCAAGTCAAGGATTTTTCAA
1 GA-TT-TTCAAAATTGAAACCATTTTTGAATGGATCAAGCCTTGATCAAGTCAAGGAATTTTCAA
* *** * * * * *
8029789 -AGTTGTCAAAAATTGAATTGACTTTCT-AACGAATCAAGCTTTGATCAAGTC-AGTGAGTTTTC
1 GA-TTTTC-AAAATTGAAACCA-TTTTTGAATGGATCAAGCCTTGATCAAGTCAAG-GAATTTTC
8029851 AA
62 AA
* ** ** * * *
8029853 GATTTTTAAAACCGAGTCCATTTTTGAATGGATCAAGCCTTAATCAAGACAAGGAATATTCATA
1 GATTTTCAAAATTGAAACCATTTTTGAATGGATCAAGCCTTGATCAAGTCAAGGAATTTTCA-A
* * * * ** *
8029917 -TTTTTCAAAATCGAATCCATTTTTGAATGGTTTGAGCCTTGATCAAGTCAAGGAATATTCATA
1 GATTTTCAAAATTGAAACCATTTTTGAATGGATCAAGCCTTGATCAAGTCAAGGAATTTTCA-A
* * * * * * * ** * *
8029980 -TTTTTCATAATCGAATCCATTTTTGAATTGATCGAA-TCTTAATCAAGTCCGGGAGTCTTCAA
1 GATTTTCAAAATTGAAACCATTTTTGAATGGATC-AAGCCTTGATCAAGTCAAGGAATTTTCAA
* * * * * * * ** * *
8030042 -AGTTATCAAAAATCAAATTCATTTTTGGATGAATCGATTCTTGATCAAGTGAAGGAGTTTTCAA
1 GA-TTTTCAAAATTGAAA-CCATTTTTGAATGGATCAAGCCTTGATCAAGTCAAGGAATTTTCAA
* * * * * * *
8030106 AATTTTTGAAAATTGAATCCATTTCTAAATGAATCAAGCCTTGATCAACTCAA-GAATT
1 GA-TTTTCAAAATTGAAACCATTTTTGAATGGATCAAGCCTTGATCAAGTCAAGGAATT
8030164 CAAAGTTTAT
Statistics
Matches: 546, Mismatches: 118, Indels: 70
0.74 0.16 0.10
Matches are distributed among these distances:
62 73 0.13
63 231 0.42
64 164 0.30
65 22 0.04
66 1 0.00
69 1 0.00
70 4 0.01
71 4 0.01
72 33 0.06
73 13 0.02
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (63 bp):
GATTTTCAAAATTGAAACCATTTTTGAATGGATCAAGCCTTGATCAAGTCAAGGAATTTTCAA
Found at i:8029765 original size:64 final size:63
Alignment explanation
Indices: 8029552--8030163 Score: 464
Period size: 63 Copynumber: 9.7 Consensus size: 63
8029542 AAAAAATTCA
** * * * *
8029552 AATCCATTTTTGAATGG-TCAAGCCTTGATCAAGTCAAGGAGTGTTCAAGATTTTT-ATAATCA
1 AATCCATTTTTGAATGGATTGAGCCTTGATCAAGTCAAGGAATTTTCAA-ATTTTTCAAAATCG
* * * *
8029614 AATTCATTTTTGAATGGATAGAGCCTTGATCAAGTCAAGGAATTTTCATA-TTTTCAAAATTG
1 AATCCATTTTTGAATGGATTGAGCCTTGATCAAGTCAAGGAATTTTCAAATTTTTCAAAATCG
* ** * *
8029676 AATACATTTTTGAATGGATTGAGCCTTGATTGAGTCAAGGAGTTTTCAAATTTGTTAAAAATCG
1 AATCCATTTTTGAATGGATTGAGCCTTGATCAAGTCAAGGAATTTTCAAATTT-TTCAAAATCG
* * * * * * *
8029740 AATCAATTTTTTAATGGATTGAGCCTAGATCAAGTCAAGGATTTTTCAAAGTTGTCAAAAATTG
1 AATCCATTTTTGAATGGATTGAGCCTTGATCAAGTCAAGGAATTTTCAAATTTTTC-AAAATCG
** * * * ** * * *
8029804 AATTGACTTTCT-AACGAATCAAGCTTTGATCAAGTC-AGTGAGTTTTCAAGATTTTT-AAAACC
1 AATCCA-TTTTTGAATGGATTGAGCCTTGATCAAGTCAAG-GAATTTTCAA-ATTTTTCAAAATC
8029866 G
63 G
* ** * * * *
8029867 AGTCCATTTTTGAATGGATCAAGCCTTAATCAAGACAAGGAATATTCATATTTTTCAAAATCG
1 AATCCATTTTTGAATGGATTGAGCCTTGATCAAGTCAAGGAATTTTCAAATTTTTCAAAATCG
* * * *
8029930 AATCCATTTTTGAATGGTTTGAGCCTTGATCAAGTCAAGGAATATTCATATTTTTCATAATCG
1 AATCCATTTTTGAATGGATTGAGCCTTGATCAAGTCAAGGAATTTTCAAATTTTTCAAAATCG
* * ** * ** * * * * *
8029993 AATCCATTTTTGAATTGATCGAATCTTAATCAAGTCCGGGAGTCTTCAAAGTTATCAAAAATCA
1 AATCCATTTTTGAATGGATTGAGCCTTGATCAAGTCAAGGAATTTTCAAATTTTTC-AAAATCG
* * * * ** * * * *
8030057 AATTCATTTTTGGATGAATCGATTCTTGATCAAGTGAAGGAGTTTTCAAAATTTTTGAAAATTG
1 AATCCATTTTTGAATGGATTGAGCCTTGATCAAGTCAAGGAATTTTC-AAATTTTTCAAAATCG
* * * ** *
8030121 AATCCATTTCTAAATGAATCAAGCCTTGATCAACTCAA-GAATT
1 AATCCATTTTTGAATGGATTGAGCCTTGATCAAGTCAAGGAATT
8030164 CAAAGTTTAT
Statistics
Matches: 435, Mismatches: 102, Indels: 25
0.77 0.18 0.04
Matches are distributed among these distances:
61 4 0.01
62 75 0.17
63 174 0.40
64 168 0.39
65 14 0.03
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (63 bp):
AATCCATTTTTGAATGGATTGAGCCTTGATCAAGTCAAGGAATTTTCAAATTTTTCAAAATCG
Found at i:8030007 original size:126 final size:125
Alignment explanation
Indices: 8029459--8030163 Score: 512
Period size: 126 Copynumber: 5.5 Consensus size: 125
8029449 GCCAAGAAAC
* * * * *
8029459 TTTCAAGATTTTCAAAATTGAAACCATTTTTAAATGGATCAAGCCCTT-ATCAAGTCAAGCAATT
1 TTTCAAGATTTTTAAAATCGAATCCATTTTTGAATGGATCAAG-CCTTAATCAAGTCAAGGAATT
* *
8029523 TTCAAGATTATTTTTTTTAAAAAAATTCAAATCCATTTTTGAATGG-TCAAGCCTTGATCAAGTC
65 TTC---A-TA----TTTT--CAAAATT-GAATCCATTTTTGAATGGATCAAGCCTTGATCAAGTC
8029587 AAGGAGT
119 AAGGAGT
* * * * *
8029594 GTTCAAGATTTTTATAATCAAATTCATTTTTGAATGGAT-AGAGCCTTGATCAAGTCAAGGAATT
1 TTTCAAGATTTTTAAAATCGAATCCATTTTTGAATGGATCA-AGCCTTAATCAAGTCAAGGAATT
* ** **
8029658 TTCATATTTTCAAAATTGAATACATTTTTGAATGGATTGAGCCTTGATTGAGTCAAGGAGT
65 TTCATATTTTCAAAATTGAATCCATTTTTGAATGGATCAAGCCTTGATCAAGTCAAGGAGT
* * ** *
8029719 TTTCAA-ATTTGTTAAAAATCGAATCAATTTTTTAATGGATTGAGCC-TAGATCAAGTCAAGGAT
1 TTTCAAGATTT-TT-AAAATCGAATCCATTTTTGAATGGATCAAGCCTTA-ATCAAGTCAAGGAA
* * ** * * * *
8029782 TTTTCAAAGTTGTCAAAAATTGAATTGACTTTCT-AACGAATCAAGCTTTGATCAAGTC-AGTGA
63 TTTTCATA-TTTTC-AAAATTGAATCCA-TTTTTGAATGGATCAAGCCTTGATCAAGTCAAG-GA
8029845 GT
124 GT
* * * *
8029847 TTTCAAGATTTTTAAAACCGAGTCCATTTTTGAATGGATCAAGCCTTAATCAAGACAAGGAATAT
1 TTTCAAGATTTTTAAAATCGAATCCATTTTTGAATGGATCAAGCCTTAATCAAGTCAAGGAATTT
* * ** *
8029912 TCATATTTTTCAAAATCGAATCCATTTTTGAATGGTTTGAGCCTTGATCAAGTCAAGGAAT
66 TCATA-TTTTCAAAATTGAATCCATTTTTGAATGGATCAAGCCTTGATCAAGTCAAGGAGT
* * * * * ** *
8029973 ATTC-ATATTTTTCATAATCGAATCCATTTTTGAATTGATCGAA-TCTTAATCAAGTCCGGGAGT
1 TTTCAAGATTTTT-AAAATCGAATCCATTTTTGAATGGATC-AAGCCTTAATCAAGTCAAGGAAT
* * * ** * * * * ** *
8030036 CTTCAAAGTTATCAAAAATCAAATTCATTTTTGGATGAATCGATTCTTGATCAAGTGAAGGAGT
64 TTTCATA-TTTTC-AAAATTGAATCCATTTTTGAATGGATCAAGCCTTGATCAAGTCAAGGAGT
* * * * * * *
8030100 TTTCAAAATTTTTGAAAATTGAATCCATTTCTAAATGAATCAAGCCTTGATCAACTCAA-GAATT
1 TTTCAAGATTTTT-AAAATCGAATCCATTTTTGAATGGATCAAGCCTTAATCAAGTCAAGGAATT
8030164 CAAAGTTTAT
Statistics
Matches: 449, Mismatches: 101, Indels: 48
0.75 0.17 0.08
Matches are distributed among these distances:
124 20 0.04
125 46 0.10
126 126 0.28
127 110 0.24
128 80 0.18
129 8 0.02
131 2 0.00
132 1 0.00
134 5 0.01
135 51 0.11
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (125 bp):
TTTCAAGATTTTTAAAATCGAATCCATTTTTGAATGGATCAAGCCTTAATCAAGTCAAGGAATTT
TCATATTTTCAAAATTGAATCCATTTTTGAATGGATCAAGCCTTGATCAAGTCAAGGAGT
Found at i:8030088 original size:253 final size:251
Alignment explanation
Indices: 8029569--8030153 Score: 647
Period size: 253 Copynumber: 2.3 Consensus size: 251
8029559 TTTTGAATGG
* * * *
8029569 TCAAGCCTTGATCAAGTCAAGGAGTGTTCAAGATTTTTATAATCAAATTCATTTTTGAATGGAT-
1 TCAAG-CTTGATCAAGTC-AGGAGTTTTCAAGATTTTTAAAATCGAATCCATTTTTGAATGGATC
* * *
8029633 AGAGCCTTGATCAAGTCAAGGAATTTTCATATTTTCAAAATTGAATACATTTTTGAATGGATTGA
64 A-AGCCTTGATCAAGACAAGGAATATTCATATTTTCAAAATCGAATACATTTTTGAATGGATTGA
** * * * *
8029698 GCCTTGATTGAGTCAAGGAGTTTTCAAATTTGTTAAAAATCGAATCAATTTTTTAATGGATTGAG
128 GCCTTGATCAAGTCAAGGAATATTCAAATTTGTTAAAAATCGAATCAATTTTTGAATGGATCGAG
* * * ** *
8029763 CCTAGATCAAGTCAAGGATTTTTCAAAGTTGTCAAAAATTGAATTGACTTTCTAACGAA
193 CCTAGATCAAGTCAAGGAGTCTTCAAAGTTATCAAAAATCAAATTCACTTTCTAACGAA
* *
8029822 TCAAGCTTTGATCAAGTCAGTGAGTTTTCAAGATTTTTAAAACCGAGTCCATTTTTGAATGGATC
1 TCAAGC-TTGATCAAGTCAG-GAGTTTTCAAGATTTTTAAAATCGAATCCATTTTTGAATGGATC
* * *
8029887 AAGCCTTAATCAAGACAAGGAATATTCATATTTTTCAAAATCGAATCCATTTTTGAATGGTTTGA
64 AAGCCTTGATCAAGACAAGGAATATTCATA-TTTTCAAAATCGAATACATTTTTGAATGGATTGA
* * * * *
8029952 GCCTTGATCAAGTCAAGGAATATTCATATTT-TTCATAATCGAATCCATTTTTGAATTGATCGAA
128 GCCTTGATCAAGTCAAGGAATATTCAAATTTGTTAAAAATCGAATCAATTTTTGAATGGATCG-A
* * ** * * *
8030016 TCTTA-ATCAAGTCCGGGAGTCTTCAAAGTTATCAAAAATCAAATTCA-TTTTTGGATGAA
192 GCCTAGATCAAGTCAAGGAGTCTTCAAAGTTATCAAAAATCAAATTCACTTTCT-AACGAA
** * * * * * *
8030075 TCGATTCTTGATCAAGTGAAGGAGTTTTCAAAATTTTTGAAAATTGAATCCATTTCTAAATGAAT
1 TC-AAGCTTGATCAAGT-CAGGAGTTTTCAAGATTTTT-AAAATCGAATCCATTTTTGAATGGAT
8030140 CAAGCCTTGATCAA
63 CAAGCCTTGATCAA
8030154 CTCAAGAATT
Statistics
Matches: 276, Mismatches: 47, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
252 7 0.03
253 170 0.62
254 99 0.36
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (251 bp):
TCAAGCTTGATCAAGTCAGGAGTTTTCAAGATTTTTAAAATCGAATCCATTTTTGAATGGATCAA
GCCTTGATCAAGACAAGGAATATTCATATTTTCAAAATCGAATACATTTTTGAATGGATTGAGCC
TTGATCAAGTCAAGGAATATTCAAATTTGTTAAAAATCGAATCAATTTTTGAATGGATCGAGCCT
AGATCAAGTCAAGGAGTCTTCAAAGTTATCAAAAATCAAATTCACTTTCTAACGAA
Found at i:8030562 original size:16 final size:15
Alignment explanation
Indices: 8030535--8030601 Score: 53
Period size: 16 Copynumber: 4.0 Consensus size: 15
8030525 TTGGAATTAA
*
8030535 AAAAATACAAAAAATT
1 AAAAATA-AAAAAAAT
8030551 GAAAAATAAAAAAAAT
1 -AAAAATAAAAAAAAT
8030567 ACAAAATAAAAATAAAGT
1 A-AAAATAAAAA-AAA-T
*
8030585 AAATAAATACAAAAAAT
1 -AA-AAATAAAAAAAAT
8030602 CATAACAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
15 1 0.02
16 17 0.40
17 11 0.26
18 5 0.12
19 9 0.21
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.16
Consensus pattern (15 bp):
AAAAATAAAAAAAAT
Found at i:8034383 original size:21 final size:21
Alignment explanation
Indices: 8034359--8034408 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
8034349 AAGAACATAA
8034359 TTGACCCTAGAAGTGTTGTAG
1 TTGACCCTAGAAGTGTTGTAG
* *
8034380 TTGACCCTAGGAGTTTTGTAG
1 TTGACCCTAGAAGTGTTGTAG
*
8034401 TCGACCCT
1 TTGACCCT
8034409 CAAGCTTCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (21 bp):
TTGACCCTAGAAGTGTTGTAG
Found at i:8036963 original size:64 final size:62
Alignment explanation
Indices: 8036891--8037082 Score: 235
Period size: 64 Copynumber: 3.0 Consensus size: 62
8036881 GTAAAAGAAA
8036891 AGAGGTTATACCTTAGCCTTCAAAGGTAGTGTCTAGAGGTTGTGCTTGATCCTTAAAAAGGCAT
1 AGAGGTTATACCTTAGCCTTCAAAGGTAGTGT-TAGAGGTTGTGCTTGATCCTTAAAAA-GCAT
* *
8036955 AGAGGTTATATCTTCA-CCTTCAAAGGTAGTGTTTAGAAGTTGTGCTTGATCCTTGAAAAAGCAT
1 AGAGGTTATACCTT-AGCCTTCAAAGGTAGTG-TTAGAGGTTGTGCTTGATCCTT-AAAAAGCAT
* * * * *
8037019 AAAAGTTATACCTT-GCTTTAAAAAGGTAGTGATTAGAGGTTGTGCTTGAGCCTTAAAAACGCAT
1 AGAGGTTATACCTTAGCCTT-CAAAGGTAGTG-TTAGAGGTTGTGCTTGATCCTTAAAAA-GCAT
8037083 TGTAGTGACT
Statistics
Matches: 112, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
63 8 0.07
64 97 0.87
65 7 0.06
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (62 bp):
AGAGGTTATACCTTAGCCTTCAAAGGTAGTGTTAGAGGTTGTGCTTGATCCTTAAAAAGCAT
Found at i:8037799 original size:21 final size:21
Alignment explanation
Indices: 8037774--8037833 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
8037764 ACCTAAAACA
*
8037774 AAATGTATCGATACGTGCCCC
1 AAATGTATCGATACATGCCCC
*
8037795 AAATGTATCGATACATGTCCC
1 AAATGTATCGATACATGCCCC
* *
8037816 AAATATATTGATACATGC
1 AAATGTATCGATACATGC
8037834 GTCTCAGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (21 bp):
AAATGTATCGATACATGCCCC
Found at i:8039584 original size:19 final size:19
Alignment explanation
Indices: 8039560--8039607 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
8039550 CTAAACCTTG
8039560 GAAATACTTTTTTTTGCTT
1 GAAATACTTTTTTTTGCTT
*
8039579 GAAATACTTGTTTTTGCTT
1 GAAATACTTTTTTTTGCTT
8039598 GAAATACTTT
1 GAAATACTTT
8039608 GATACAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.52
Consensus pattern (19 bp):
GAAATACTTTTTTTTGCTT
Found at i:8041498 original size:39 final size:40
Alignment explanation
Indices: 8041444--8041536 Score: 125
Period size: 39 Copynumber: 2.4 Consensus size: 40
8041434 CGAGATTAAA
* * * *
8041444 TCTCGCTACAGCGAAATTTCTACCCAG-AAACAGAATGTT
1 TCTCGCTGCAGCGAAATTGCAACCCAGAAAACAGAAAGTT
8041483 TCTCGCTGCAGCGAAATTGCAACCCAGAAAACAGAAAGTT
1 TCTCGCTGCAGCGAAATTGCAACCCAGAAAACAGAAAGTT
* *
8041523 TCTCGTTGTAGCGA
1 TCTCGCTGCAGCGA
8041537 GAATGCATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 24 0.51
40 23 0.49
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (40 bp):
TCTCGCTGCAGCGAAATTGCAACCCAGAAAACAGAAAGTT
Found at i:8043359 original size:2 final size:2
Alignment explanation
Indices: 8043347--8043468 Score: 64
Period size: 2 Copynumber: 61.0 Consensus size: 2
8043337 ACCATATACC
* * * * *
8043347 AT AT AT GT AT AT AT AT AT AT AT AC AT AT AT AT AT AT GT GT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * * * * *
8043389 AT GT AT AT AC AC AC AT AT AT AT AC AC AC AT AT AT AT GT GT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
8043431 AT GT AT AT AC AT AC AT AT AT AT AT GT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8043469 CAATCATCAT
Statistics
Matches: 98, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 98 1.00
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (2 bp):
AT
Found at i:8043437 original size:28 final size:28
Alignment explanation
Indices: 8043403--8043467 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
8043393 ATATACACAC
*
8043403 ATATATATACACACATATATATGTGTGT
1 ATATATATACACACATATATATATGTGT
* *
8043431 ATGTATATACATACATATATATATGTGT
1 ATATATATACACACATATATATATGTGT
8043459 ATATATATA
1 ATATATATA
8043468 TCAATCATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (28 bp):
ATATATATACACACATATATATATGTGT
Found at i:8043466 original size:42 final size:42
Alignment explanation
Indices: 8043361--8043453 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
8043351 ATGTATATAT
*
8043361 ATATATATACATATATATATATGTGTGTATGTATATACACAC
1 ATATATATACACATATATATATGTGTGTATGTATATACACAC
* *
8043403 ATATATATACACACATATATATGTGTGTATGTATATACATAC
1 ATATATATACACATATATATATGTGTGTATGTATATACACAC
8043445 ATATATATA
1 ATATATATA
8043454 TGTGTATATA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.40
Consensus pattern (42 bp):
ATATATATACACATATATATATGTGTGTATGTATATACACAC
Found at i:8043561 original size:42 final size:42
Alignment explanation
Indices: 8043509--8043590 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
8043499 CATCTCATAT
8043509 GCAACAGCTTATGCGCACTCCCACTAGCACATAATCGGGTTA
1 GCAACAGCTTATGCGCACTCCCACTAGCACATAATCGGGTTA
* * * * *
8043551 GCAACGGCTTATGTGCACTCCTACTCGCACATAGTCGGGT
1 GCAACAGCTTATGCGCACTCCCACTAGCACATAATCGGGT
8043591 CAATATCAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.23
Consensus pattern (42 bp):
GCAACAGCTTATGCGCACTCCCACTAGCACATAATCGGGTTA
Found at i:8055108 original size:22 final size:22
Alignment explanation
Indices: 8055083--8055125 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8055073 TATCAATAGT
8055083 CAAAATA-CTATAAACATATCAA
1 CAAAATATC-ATAAACATATCAA
8055105 CAAAATATCATAAACATATCA
1 CAAAATATCATAAACATATCA
8055126 GCATCCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (22 bp):
CAAAATATCATAAACATATCAA
Found at i:8059400 original size:22 final size:22
Alignment explanation
Indices: 8059374--8059424 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
8059364 AGGAAAAGAA
* *
8059374 AAAGAAGC-AGAAAGAGAGAGAG
1 AAAGAAACGAGAAAGAAAG-GAG
*
8059396 AAAGAAACGGGAAAGAAAGGAG
1 AAAGAAACGAGAAAGAAAGGAG
8059418 AAAGAAA
1 AAAGAAA
8059425 GGTAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.63, C:0.04, G:0.33, T:0.00
Consensus pattern (22 bp):
AAAGAAACGAGAAAGAAAGGAG
Found at i:8059411 original size:11 final size:11
Alignment explanation
Indices: 8059382--8059426 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
8059372 AAAAAGAAGC
*
8059382 AGAAAGAGAGAG
1 AGAAAGAAAG-G
8059394 AGAAAGAAACGG
1 AGAAAGAAA-GG
8059406 -GAAAGAAAGG
1 AGAAAGAAAGG
8059416 AGAAAGAAAGG
1 AGAAAGAAAGG
8059427 TAAAAATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 2 0.07
11 18 0.60
12 9 0.30
13 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.38, T:0.00
Consensus pattern (11 bp):
AGAAAGAAAGG
Found at i:8066583 original size:21 final size:23
Alignment explanation
Indices: 8066550--8066592 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
8066540 TACCTTTTTT
*
8066550 CACTTGTTTCCTTGA-ATTTTCA
1 CACTTGTTCCCTTGATATTTTCA
8066572 CACTT-TTCCCTTGATATTTTC
1 CACTTGTTCCCTTGATATTTTC
8066593 CACCTAGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.16, C:0.26, G:0.07, T:0.51
Consensus pattern (23 bp):
CACTTGTTCCCTTGATATTTTCA
Found at i:8066636 original size:11 final size:11
Alignment explanation
Indices: 8066602--8066637 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
8066592 CCACCTAGGG
8066602 TTTGTTCTTCC
1 TTTGTTCTTCC
8066613 TTT-TTCTTCC
1 TTTGTTCTTCC
*
8066623 TTTGTTCTTAC
1 TTTGTTCTTCC
8066634 TTTG
1 TTTG
8066638 GCCGGCCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.03, C:0.22, G:0.08, T:0.67
Consensus pattern (11 bp):
TTTGTTCTTCC
Found at i:8071527 original size:14 final size:14
Alignment explanation
Indices: 8071508--8071534 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8071498 TTGGTTTTAA
8071508 TTTTAGTTAATTAG
1 TTTTAGTTAATTAG
8071522 TTTTAGTTAATTA
1 TTTTAGTTAATTA
8071535 ATAAATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (14 bp):
TTTTAGTTAATTAG
Found at i:8073607 original size:2 final size:2
Alignment explanation
Indices: 8073600--8073626 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8073590 NNNNNNNNNN
8073600 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
8073627 CCTATACGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8075176 original size:28 final size:28
Alignment explanation
Indices: 8075144--8075240 Score: 104
Period size: 28 Copynumber: 3.4 Consensus size: 28
8075134 GTTTTGCCTA
*
8075144 ATCCTTGAAAATGCTGAGATTATATTTG
1 ATCCTTGAAAAGGCTGAGATTATATTTG
* * *
8075172 ATCCTTGAAAAGGCATATAGATTCTATTTA
1 ATCCTTGAAAAGGC-T-GAGATTATATTTG
* * **
8075202 ATCCTTAAAAAGGCTGAGGTTATGCTTG
1 ATCCTTGAAAAGGCTGAGATTATATTTG
8075230 ATCCTTGAAAA
1 ATCCTTGAAAA
8075241 TGCATGTGAT
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
28 30 0.55
29 2 0.04
30 23 0.42
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (28 bp):
ATCCTTGAAAAGGCTGAGATTATATTTG
Found at i:8078100 original size:21 final size:21
Alignment explanation
Indices: 8078057--8078144 Score: 115
Period size: 21 Copynumber: 4.2 Consensus size: 21
8078047 GGATATGTTC
*
8078057 ATGCAATTCATGACAAAG-TTG
1 ATGC-ATTCATGACAAAGACTG
8078078 ATGCATTCATGACAAAGACTG
1 ATGCATTCATGACAAAGACTG
* *
8078099 ATGCATTCATAACAAAGACTA
1 ATGCATTCATGACAAAGACTG
* *
8078120 ATGCATTTATGATAAAGACTG
1 ATGCATTCATGACAAAGACTG
8078141 ATGC
1 ATGC
8078145 CTCCATTCAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 13 0.22
21 46 0.78
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (21 bp):
ATGCATTCATGACAAAGACTG
Found at i:8078380 original size:12 final size:12
Alignment explanation
Indices: 8078363--8078398 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
8078353 CAATCTGATA
8078363 AAAAAGAAATTG
1 AAAAAGAAATTG
**
8078375 AAAAAGATGTTG
1 AAAAAGAAATTG
8078387 AAAAAGAAATTG
1 AAAAAGAAATTG
8078399 TACTTGAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.19, T:0.19
Consensus pattern (12 bp):
AAAAAGAAATTG
Found at i:8086100 original size:2 final size:2
Alignment explanation
Indices: 8086093--8086123 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8086083 TTCAATGTTC
8086093 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8086124 NGTGTATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8086140 original size:77 final size:76
Alignment explanation
Indices: 8086048--8086205 Score: 291
Period size: 77 Copynumber: 2.1 Consensus size: 76
8086038 TCGTTTCACT
*
8086048 GTGTATCAAACAAACATTTAGTAAATACTTCAAAATTCAATGTTCATATATATATATATATATAT
1 GTGTATCAAACAAACATTTAGTAAATACTTCAAAATTCAATGATCATATATATATATATATATAT
8086113 ATATATATATA
66 ATATATATATA
8086124 NGTGTATCAAACAAACATTTAGTAAATACTTCAAAATTCAATGATCATATATATATATATATATA
1 -GTGTATCAAACAAACATTTAGTAAATACTTCAAAATTCAATGATCATATATATATATATATATA
8086189 TATATATATATA
65 TATATATATATA
8086201 -TGTAT
1 GTGTAT
8086206 ATATACCGTA
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
75 5 0.06
77 75 0.94
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (76 bp):
GTGTATCAAACAAACATTTAGTAAATACTTCAAAATTCAATGATCATATATATATATATATATAT
ATATATATATA
Found at i:8086219 original size:2 final size:2
Alignment explanation
Indices: 8086170--8086210 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
8086160 TTCAATGATC
*
8086170 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8086211 CCGTATATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8089911 original size:6 final size:6
Alignment explanation
Indices: 8089895--8089927 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
8089885 TTACTGGGAG
8089895 TTTTG- TTTTGT TTTTGT TTTTGT TTTTGT TTTT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTT
8089928 TGTGTGTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTGT
Found at i:8091257 original size:2 final size:2
Alignment explanation
Indices: 8091244--8091281 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
8091234 TGCACATGGT
* *
8091244 CA CA CG CA CA CA CA CA CA CA CA CA CA CA CA TA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
8091282 TCTTGAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.47, G:0.03, T:0.03
Consensus pattern (2 bp):
CA
Found at i:8092795 original size:20 final size:20
Alignment explanation
Indices: 8092762--8092812 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
8092752 ACGGATTCAC
*
8092762 ATTT-TTAATCTAAAATATAT
1 ATTTATTAAT-TAAAAAATAT
*
8092782 ATTTATTAATTAAAAAATTT
1 ATTTATTAATTAAAAAATAT
*
8092802 ATTTATAAATT
1 ATTTATTAATT
8092813 GAAGATCTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTATTAATTAAAAAATAT
Found at i:8094152 original size:20 final size:19
Alignment explanation
Indices: 8094116--8094154 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
8094106 TTTTTCTAAA
*
8094116 ATTTTTAATTTTAAAATAT
1 ATTTTTAATATTAAAATAT
*
8094135 ATTTTTAAATATTGAAATAT
1 ATTTTT-AATATTAAAATAT
8094155 TAATATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
ATTTTTAATATTAAAATAT
Found at i:8097301 original size:8 final size:8
Alignment explanation
Indices: 8097288--8097312 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
8097278 CCTATAACAC
8097288 ACATATAT
1 ACATATAT
8097296 ACATATAT
1 ACATATAT
8097304 ACATATAT
1 ACATATAT
8097312 A
1 A
8097313 TGTATACGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (8 bp):
ACATATAT
Found at i:8097355 original size:23 final size:23
Alignment explanation
Indices: 8097325--8097384 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
8097315 TATACGTATA
* * *
8097325 CCCATCATTATCATGCACATCAT
1 CCCATCATCATCATACACACCAT
8097348 CCCATCATCATCATACACACCAT
1 CCCATCATCATCATACACACCAT
*
8097371 CACATCATCATCAT
1 CCCATCATCATCAT
8097385 CACTAGCTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.33, C:0.38, G:0.02, T:0.27
Consensus pattern (23 bp):
CCCATCATCATCATACACACCAT
Found at i:8097430 original size:43 final size:43
Alignment explanation
Indices: 8097381--8097512 Score: 142
Period size: 43 Copynumber: 3.1 Consensus size: 43
8097371 CACATCATCA
* * * **
8097381 TCATCACTAGCTCATGCGCACTCCCTACTTGCACAT-GGCTGGG
1 TCATCACTGGCTTATGCGCACTCCCTACTCGCACATAATC-GGG
* * *
8097424 TCATCACCGGGTTATGCGCACTCTCTACTCGCACATAATCGGG
1 TCATCACTGGCTTATGCGCACTCCCTACTCGCACATAATCGGG
* *
8097467 TCATC-CTTGGCTTATGCGCACTCCCTACTCGCACATAGTCGAG
1 TCATCAC-TGGCTTATGCGCACTCCCTACTCGCACATAATCGGG
8097510 TCA
1 TCA
8097513 ATATAATTAC
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
42 1 0.01
43 72 0.97
44 1 0.01
ACGTcount: A:0.20, C:0.34, G:0.20, T:0.27
Consensus pattern (43 bp):
TCATCACTGGCTTATGCGCACTCCCTACTCGCACATAATCGGG
Found at i:8099759 original size:27 final size:28
Alignment explanation
Indices: 8099705--8099760 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
8099695 GCATAGGGGT
* *
8099705 AAAATGGTAATTTTGTCACCCCAAGGAC
1 AAAATCGTAATTTTGCCACCCCAAGGAC
8099733 AAAATCGTAATTTT-CCACCACC-AGGAC
1 AAAATCGTAATTTTGCCACC-CCAAGGAC
8099760 A
1 A
8099761 CTTGTCCAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 10 0.40
28 15 0.60
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.23
Consensus pattern (28 bp):
AAAATCGTAATTTTGCCACCCCAAGGAC
Found at i:8102411 original size:15 final size:16
Alignment explanation
Indices: 8102381--8102411 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
8102371 GTTTCAAAGC
8102381 TTTGGATTTTAAAGTT
1 TTTGGATTTTAAAGTT
8102397 TTTGG-TTTTAAAGTT
1 TTTGGATTTTAAAGTT
8102412 GTTTTAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (16 bp):
TTTGGATTTTAAAGTT
Found at i:8102485 original size:5 final size:5
Alignment explanation
Indices: 8102449--8102482 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
8102439 GTGGCCCGAC
* *
8102449 GTTAA GTTAA GTGAA GTTAA GTTAA GTTAG GTTA
1 GTTAA GTTAA GTTAA GTTAA GTTAA GTTAA GTTA
8102483 GGTCGAATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.38
Consensus pattern (5 bp):
GTTAA
Found at i:8105144 original size:4 final size:4
Alignment explanation
Indices: 8105127--8105191 Score: 60
Period size: 4 Copynumber: 15.2 Consensus size: 4
8105117 AGATTGGCTT
*
8105127 GAAA GAAA GGAA GAAA GAAA GAAA G-AA GAAA GAGAA GGGAAA GGAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA-AA --GAAA -GAAA
*
8105174 GGAAA AAAA GAAA GAAA G
1 -GAAA GAAA GAAA GAAA G
8105192 GAAAAGCACG
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
3 3 0.06
4 34 0.64
5 12 0.23
6 2 0.04
7 2 0.04
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:8110761 original size:2 final size:2
Alignment explanation
Indices: 8110754--8110786 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8110744 GCACTTGTTG
8110754 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8110787 CATCAAATGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8111402 original size:2 final size:2
Alignment explanation
Indices: 8111395--8111427 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8111385 ACTTGTTGAG
8111395 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8111428 CAAATGCTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8120547 original size:20 final size:20
Alignment explanation
Indices: 8120518--8120560 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
8120508 ATTAGGTTAC
8120518 TTTTAAGTTAGTT-ATTTTAA
1 TTTTAAGTTA-TTCATTTTAA
* *
8120538 TTTTATGTTATTCCTTTTAA
1 TTTTAAGTTATTCATTTTAA
8120558 TTT
1 TTT
8120561 GGTTATGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTAAGTTATTCATTTTAA
Found at i:8123750 original size:21 final size:22
Alignment explanation
Indices: 8123707--8123750 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
8123697 GCCCTGCTTC
8123707 TCACTACAGCGAGAAAGCATTA
1 TCACTACAGCGAGAAAGCATTA
8123729 TCACTACAGCGAGAAA-CATTA
1 TCACTACAGCGAGAAAGCATTA
8123750 T
1 T
8123751 GTTTTGGCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (22 bp):
TCACTACAGCGAGAAAGCATTA
Found at i:8130417 original size:42 final size:42
Alignment explanation
Indices: 8130359--8130483 Score: 164
Period size: 42 Copynumber: 3.0 Consensus size: 42
8130349 GTAATGATAT
* * * *
8130359 TGACCCAGCTATGTGCGAGTAAGAGTGCGCATAAGCTGTTGT
1 TGACCCTGCTATGTGCGAGTAGGAGTGCGCATAAGCCGTTGC
*
8130401 TGA-CCTGACTATGTGCG-GTGGGAGTGCGCATAAGCCGTTGC
1 TGACCCTG-CTATGTGCGAGTAGGAGTGCGCATAAGCCGTTGC
* *
8130442 TGACCCTGCTATGTGCAAGTAGGAGTACGCATAAGCCGTTGC
1 TGACCCTGCTATGTGCGAGTAGGAGTGCGCATAAGCCGTTGC
8130484 ATATGAGCTG
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
41 34 0.47
42 38 0.53
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.25
Consensus pattern (42 bp):
TGACCCTGCTATGTGCGAGTAGGAGTGCGCATAAGCCGTTGC
Found at i:8132863 original size:20 final size:20
Alignment explanation
Indices: 8132835--8132873 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
8132825 TAAATGGCCA
8132835 GTGTCAATGTATCGATACAT
1 GTGTCAATGTATCGATACAT
*
8132855 GTGTGAATGTATCGATACA
1 GTGTCAATGTATCGATACA
8132874 AATCCCACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (20 bp):
GTGTCAATGTATCGATACAT
Found at i:8141227 original size:22 final size:23
Alignment explanation
Indices: 8141197--8141245 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
8141187 AAAACATGCA
* * *
8141197 AAACATAACTTAA-AATAAGACT
1 AAACATAACATAATAAAAAGAAT
*
8141219 AAACTTAACATAATAAAAAGAAT
1 AAACATAACATAATAAAAAGAAT
8141242 AAAC
1 AAAC
8141246 CAACGAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.63, C:0.12, G:0.04, T:0.20
Consensus pattern (23 bp):
AAACATAACATAATAAAAAGAAT
Found at i:8145717 original size:23 final size:23
Alignment explanation
Indices: 8145687--8145730 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
8145677 GGGCCTACCC
*
8145687 TTCCTTGTTTCCATTGGGCCTCT
1 TTCCTTGTTGCCATTGGGCCTCT
*
8145710 TTCCTTGTTGCTATTGGGCCT
1 TTCCTTGTTGCCATTGGGCCT
8145731 TTCGCATGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.05, C:0.27, G:0.20, T:0.48
Consensus pattern (23 bp):
TTCCTTGTTGCCATTGGGCCTCT
Found at i:8148823 original size:13 final size:13
Alignment explanation
Indices: 8148805--8148829 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8148795 AGAGAAATTG
8148805 TGATTTTATAAAA
1 TGATTTTATAAAA
8148818 TGATTTTATAAA
1 TGATTTTATAAA
8148830 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:8153124 original size:22 final size:22
Alignment explanation
Indices: 8153082--8153122 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
8153072 TACCTTTTGT
*
8153082 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
8153104 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
8153123 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:8157062 original size:19 final size:21
Alignment explanation
Indices: 8157038--8157081 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
8157028 CCTATAAATA
*
8157038 TCTTGACA-TTCCAGCAGCT-
1 TCTTGAAATTTCCAGCAGCTG
8157057 TCTTGAAATTTCCAGCAGCTG
1 TCTTGAAATTTCCAGCAGCTG
8157078 TCTT
1 TCTT
8157082 CTTCTTCCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
20 11 0.50
21 4 0.18
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.36
Consensus pattern (21 bp):
TCTTGAAATTTCCAGCAGCTG
Found at i:8158047 original size:40 final size:38
Alignment explanation
Indices: 8157953--8158049 Score: 115
Period size: 38 Copynumber: 2.5 Consensus size: 38
8157943 GATAGTGCCC
* * *
8157953 TTGTGCACGATGTAGGGGGATGTACACGATGGCACTGA
1 TTGTGCACGATGTGGGGGGATGCACACGATGGCACGGA
*
8157991 TTGTGCACGATGTGGGGGGATGCACACGATGGTGC-CGGC
1 TTGTGCACGATGTGGGGGGATGCACACGAT-G-GCACGGA
*
8158030 TATGTGCACGAAGTGGGGGG
1 T-TGTGCACGATGTGGGGGG
8158050 GATGTATATG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
38 28 0.55
39 4 0.08
40 19 0.37
ACGTcount: A:0.20, C:0.16, G:0.42, T:0.22
Consensus pattern (38 bp):
TTGTGCACGATGTGGGGGGATGCACACGATGGCACGGA
Found at i:8158477 original size:21 final size:21
Alignment explanation
Indices: 8158437--8158478 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
8158427 TTCATCAGCT
**
8158437 GAATTTCGCTGCAGTGAGAAA
1 GAATTTCGCTGCAGCAAGAAA
8158458 GAATTTCGCTGCAGCAAGAAA
1 GAATTTCGCTGCAGCAAGAAA
8158479 CCTTCTGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (21 bp):
GAATTTCGCTGCAGCAAGAAA
Found at i:8158502 original size:60 final size:60
Alignment explanation
Indices: 8158438--8158551 Score: 178
Period size: 60 Copynumber: 1.9 Consensus size: 60
8158428 TCATCAGCTG
* *
8158438 AATTTCGCTGCAGTGAGAAAGAAT-TTCGCT-GCAGCAAGAAACCTTCTGTTTTTGGGTTAC
1 AATTTCGCTGCAGTGAGAAAGAATCTT-GCTACCACCAA-AAACCTTCTGTTTTTGGGTTAC
8158498 AATTTCGCTGCAGTGAGAAAGAATCTTGCTACCACCAAAAACCTTCTGTTTTTG
1 AATTTCGCTGCAGTGAGAAAGAATCTTGCTACCACCAAAAACCTTCTGTTTTTG
8158552 TCTCCTATCT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
60 43 0.86
61 7 0.14
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (60 bp):
AATTTCGCTGCAGTGAGAAAGAATCTTGCTACCACCAAAAACCTTCTGTTTTTGGGTTAC
Found at i:8160757 original size:22 final size:22
Alignment explanation
Indices: 8160729--8160772 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8160719 TTTAAAACAA
*
8160729 CTTTAAACCCAAAAGCTCTGAT
1 CTTTAAAACCAAAAGCTCTGAT
* *
8160751 CTTTAAAACTAAAAGTTCTGAT
1 CTTTAAAACCAAAAGCTCTGAT
8160773 ACCAATCCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (22 bp):
CTTTAAAACCAAAAGCTCTGAT
Found at i:8163094 original size:22 final size:22
Alignment explanation
Indices: 8163046--8163092 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
8163036 AAATCTTACC
* *
8163046 TTTTGTCACTTGTTTCCTTGAA
1 TTTTCTCACTTGTTCCCTTGAA
8163068 TTTTCTCACTT-TTCCCTTGAA
1 TTTTCTCACTTGTTCCCTTGAA
8163089 TTTT
1 TTTT
8163093 TCCACCTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.13, C:0.21, G:0.09, T:0.57
Consensus pattern (22 bp):
TTTTCTCACTTGTTCCCTTGAA
Found at i:8166483 original size:43 final size:42
Alignment explanation
Indices: 8166422--8166550 Score: 172
Period size: 42 Copynumber: 3.0 Consensus size: 42
8166412 ATCCCACCAT
8166422 ATCAGCTCATGTGCACTCCCCACTCGCACATAGCTTGGTCATC
1 ATCAGCTCATGTGCACTCCCCAC-CGCACATAGCTTGGTCATC
* * *
8166465 ATCAGCTCATGTGCACTCCACACCACACATAGCTAGGTCATC
1 ATCAGCTCATGTGCACTCCCCACCGCACATAGCTTGGTCATC
* *
8166507 ATCAGCTCATGTGCA-TTCCCACACGAACATAG-TTGGGTCATC
1 ATCAGCTCATGTGCACTCCCCAC-CGCACATAGCTT-GGTCATC
8166549 AT
1 AT
8166551 TATCACAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
41 6 0.08
42 48 0.63
43 22 0.29
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (42 bp):
ATCAGCTCATGTGCACTCCCCACCGCACATAGCTTGGTCATC
Found at i:8170855 original size:16 final size:16
Alignment explanation
Indices: 8170834--8170869 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
8170824 TATCTTAAGG
8170834 TCAAAAGAAACAAGAT
1 TCAAAAGAAACAAGAT
*
8170850 TCAAAAGGAACAAGAT
1 TCAAAAGAAACAAGAT
8170866 TCAA
1 TCAA
8170870 GTTGCTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.58, C:0.14, G:0.14, T:0.14
Consensus pattern (16 bp):
TCAAAAGAAACAAGAT
Found at i:8171023 original size:60 final size:59
Alignment explanation
Indices: 8170931--8171049 Score: 229
Period size: 60 Copynumber: 2.0 Consensus size: 59
8170921 CTAATATTGA
8170931 AATAAGAAAATAAAATTTGAAGTAAGACTAAATTGCTTGGTATTAGTATTAGCAAAGAT
1 AATAAGAAAATAAAATTTGAAGTAAGACTAAATTGCTTGGTATTAGTATTAGCAAAGAT
8170990 AATAAGAAAAATAAAATTTGAAGTAAGACTAAATTGCTTGGTATTAGTATTAGCAAAGAT
1 AATAAG-AAAATAAAATTTGAAGTAAGACTAAATTGCTTGGTATTAGTATTAGCAAAGAT
8171050 TCTAGAAACA
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
59 6 0.10
60 53 0.90
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.30
Consensus pattern (59 bp):
AATAAGAAAATAAAATTTGAAGTAAGACTAAATTGCTTGGTATTAGTATTAGCAAAGAT
Found at i:8171257 original size:28 final size:28
Alignment explanation
Indices: 8171226--8171300 Score: 66
Period size: 28 Copynumber: 2.8 Consensus size: 28
8171216 CAAAACAATC
* * *
8171226 AAAATCAAATAA-CTAAATTAATTAACTA
1 AAAAT-AAATAACCAAAAATAATTAACCA
*
8171254 AAAATAATTAACCAAAAATAATTAACC-
1 AAAATAAATAACCAAAAATAATTAACCA
**
8171281 AAAATTTA-AACCAAAAATAA
1 AAAATAAATAACCAAAAATAA
8171301 ATATCAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
26 12 0.31
27 10 0.26
28 17 0.44
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (28 bp):
AAAATAAATAACCAAAAATAATTAACCA
Found at i:8171263 original size:14 final size:14
Alignment explanation
Indices: 8171244--8171300 Score: 75
Period size: 14 Copynumber: 4.2 Consensus size: 14
8171234 ATAACTAAAT
*
8171244 TAATTAACTAAAAA
1 TAATTAACCAAAAA
8171258 TAATTAACCAAAAA
1 TAATTAACCAAAAA
8171272 TAATTAACC-AAAA
1 TAATTAACCAAAAA
8171285 T--TTAAACCAAAAA
1 TAATT-AACCAAAAA
8171298 TAA
1 TAA
8171301 ATATCAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
11 2 0.05
12 4 0.11
13 10 0.26
14 22 0.58
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.25
Consensus pattern (14 bp):
TAATTAACCAAAAA
Found at i:8171284 original size:13 final size:13
Alignment explanation
Indices: 8171225--8171285 Score: 59
Period size: 14 Copynumber: 4.5 Consensus size: 13
8171215 TCAAAACAAT
*
8171225 CAAAATCAAATAAC
1 CAAAAT-AATTAAC
* *
8171239 TAAATTAATTAAC
1 CAAAATAATTAAC
*
8171252 TAAAAATAATTAAC
1 -CAAAATAATTAAC
8171266 CAAAAATAATTAAC
1 C-AAAATAATTAAC
8171280 CAAAAT
1 CAAAAT
8171286 TTAAACCAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
13 11 0.28
14 28 0.72
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.25
Consensus pattern (13 bp):
CAAAATAATTAAC
Found at i:8173359 original size:20 final size:21
Alignment explanation
Indices: 8173336--8173388 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
8173326 TTATGCTTGA
*
8173336 CTTTG-AATGATGGCATCAGT
1 CTTTGTAATGAAGGCATCAGT
* *
8173356 CTTTGTCATGAAGGCATCTGT
1 CTTTGTAATGAAGGCATCAGT
*
8173377 CTTTGTCATGAA
1 CTTTGTAATGAA
8173389 TCACATGAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 5 0.17
21 24 0.83
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (21 bp):
CTTTGTAATGAAGGCATCAGT
Found at i:8173371 original size:21 final size:21
Alignment explanation
Indices: 8173342--8173388 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
8173332 TTGACTTTGA
*
8173342 ATGATGGCATCAGTCTTTGTC
1 ATGAAGGCATCAGTCTTTGTC
*
8173363 ATGAAGGCATCTGTCTTTGTC
1 ATGAAGGCATCAGTCTTTGTC
8173384 ATGAA
1 ATGAA
8173389 TCACATGAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (21 bp):
ATGAAGGCATCAGTCTTTGTC
Found at i:8177397 original size:7 final size:7
Alignment explanation
Indices: 8177387--8177419 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
8177377 TTTCTTAAAT
8177387 TTATTTA
1 TTATTTA
8177394 TTATTTA
1 TTATTTA
8177401 TTATTTA
1 TTATTTA
8177408 TTATTTA
1 TTATTTA
8177415 -TATTT
1 TTATTT
8177420 TCTCATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTTA
Found at i:8180393 original size:16 final size:16
Alignment explanation
Indices: 8180372--8180402 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8180362 CAAAATTTAA
8180372 ATTTTGATTCTTTTGG
1 ATTTTGATTCTTTTGG
*
8180388 ATTTTGATTTTTTTG
1 ATTTTGATTCTTTTG
8180403 ATATTTTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.03, G:0.16, T:0.68
Consensus pattern (16 bp):
ATTTTGATTCTTTTGG
Found at i:8182474 original size:27 final size:31
Alignment explanation
Indices: 8182444--8182503 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 31
8182434 ATTTTCTAAT
*
8182444 TTTCCT-TTGGTTTT-TCTCTT-TTCT-TCC
1 TTTCCTCTTGATTTTCTCTCTTGTTCTCTCC
*
8182471 TTTCCTCTTTATTTTCTCTCTTGTTCTCTCC
1 TTTCCTCTTGATTTTCTCTCTTGTTCTCTCC
8182502 TT
1 TT
8182504 ATGGCCGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 6 0.22
28 6 0.22
29 6 0.22
30 4 0.15
31 5 0.19
ACGTcount: A:0.02, C:0.28, G:0.05, T:0.65
Consensus pattern (31 bp):
TTTCCTCTTGATTTTCTCTCTTGTTCTCTCC
Found at i:8192978 original size:59 final size:60
Alignment explanation
Indices: 8192855--8192966 Score: 163
Period size: 60 Copynumber: 1.9 Consensus size: 60
8192845 CCACCCCCCA
** *
8192855 ACAATTTTAAAATTTTTAGAACTTACCTTTACTTTTTTGAAATTTTATAGTTTCTCCACT
1 ACAATTTTAAAATTTTTAGAACAAACCTTTACTTTTTTGAAATTTTATAATTTCTCCACT
** *
8192915 ACAATTTTAAAATTTTTCTAACAAACTTTTA-TTTTTTGAAATTTTATAATTT
1 ACAATTTTAAAATTTTTAGAACAAACCTTTACTTTTTTGAAATTTTATAATTT
8192967 TACCTGTACA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
59 20 0.43
60 26 0.57
ACGTcount: A:0.33, C:0.12, G:0.04, T:0.52
Consensus pattern (60 bp):
ACAATTTTAAAATTTTTAGAACAAACCTTTACTTTTTTGAAATTTTATAATTTCTCCACT
Found at i:8193755 original size:25 final size:26
Alignment explanation
Indices: 8193718--8193769 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
8193708 TAGTTAATTA
8193718 TTTTAAATAAATTATTAAAATTGATT
1 TTTTAAATAAATTATTAAAATTGATT
* * *
8193744 TTTTGAAT-AATTTTTAAAATTTATT
1 TTTTAAATAAATTATTAAAATTGATT
8193769 T
1 T
8193770 ACATAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (26 bp):
TTTTAAATAAATTATTAAAATTGATT
Found at i:8193848 original size:15 final size:13
Alignment explanation
Indices: 8193810--8193884 Score: 53
Period size: 14 Copynumber: 5.3 Consensus size: 13
8193800 AAATTATTTT
8193810 ATATT-TTTATTAA
1 ATATTATTT-TTAA
8193823 ATATTAAATTTTTAA
1 ATATT--ATTTTTAA
8193838 TATAATTATTTTATAA
1 -AT-ATTATTTT-TAA
*
8193854 ATATTATTTTTTA
1 ATATTATTTTTAA
* *
8193867 CTATTTACTTTTAA
1 ATA-TTATTTTTAA
8193881 ATAT
1 ATAT
8193885 AAAATCTTGA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
13 10 0.20
14 18 0.36
15 11 0.22
16 8 0.16
17 3 0.06
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATTATTTTTAA
Found at i:8195859 original size:21 final size:22
Alignment explanation
Indices: 8195834--8195874 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
8195824 CCTAGGTGGA
*
8195834 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
8195855 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
8195875 ACAAAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:8195880 original size:22 final size:21
Alignment explanation
Indices: 8195834--8195880 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
8195824 CCTAGGTGGA
* **
8195834 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGAAAAAGTGAC
8195855 AAAATTCAAGGAAACAAGTGAC
1 AAAATTCAAGGAAA-AAGTGAC
8195877 AAAA
1 AAAA
8195881 GGTAAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.55, C:0.09, G:0.21, T:0.15
Consensus pattern (21 bp):
AAAATTCAAGGAAAAAGTGAC
Found at i:8196753 original size:39 final size:39
Alignment explanation
Indices: 8196709--8196849 Score: 124
Period size: 39 Copynumber: 3.4 Consensus size: 39
8196699 GATTTTATGG
8196709 AAAATGAGTTTAAATGGTAAATCTTTATGTTTTATAAAC
1 AAAATGAGTTTAAATGGTAAATCTTTATGTTTTATAAAC
* * * **
8196748 AAAATGTGTTTAAAT-GAAATGATTTTTTAAATTGTCTNTTAT-AGG
1 AAAATGAGTTTAAATGGTAA--A-TCTTT--A-TGT-T-TTATAAAC
8196793 AAAATGTAAGTTTAAATGGTAAATCTTTATGTTTTATAAAC
1 AAAATG--AGTTTAAATGGTAAATCTTTATGTTTTATAAAC
*
8196834 AAAATGTGTTTAAATG
1 AAAATGAGTTTAAATG
8196850 AAATGATTTT
Statistics
Matches: 79, Mismatches: 11, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
38 3 0.04
39 23 0.29
40 5 0.06
41 12 0.15
42 3 0.04
43 2 0.03
44 3 0.04
45 12 0.15
46 5 0.06
47 8 0.10
48 3 0.04
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.42
Consensus pattern (39 bp):
AAAATGAGTTTAAATGGTAAATCTTTATGTTTTATAAAC
Found at i:8196860 original size:86 final size:82
Alignment explanation
Indices: 8196702--8196871 Score: 304
Period size: 86 Copynumber: 2.0 Consensus size: 82
8196692 ATTTTGTGAT
8196702 TTTATGGAAAATGAGTTTAAATGGTAAATCTTTATGTTTTATAAACAAAATGTGTTTAAATGAAA
1 TTTATGGAAAATGAGTTTAAATGGTAAATCTTTATGTTTTATAAACAAAATGTGTTTAAATGAAA
8196767 TGATTTTTTAAATTGTC
66 TGATTTTTTAAATTGTC
8196784 TNTTATAGGAAAATGTAAGTTTAAATGGTAAATCTTTATGTTTTATAAACAAAATGTGTTTAAAT
1 T-TTAT-GGAAAATG--AGTTTAAATGGTAAATCTTTATGTTTTATAAACAAAATGTGTTTAAAT
8196849 GAAATGATTTTTTAAATTGTC
62 GAAATGATTTTTTAAATTGTC
8196870 TT
1 TT
8196872 GAAATTGAAT
Statistics
Matches: 84, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
82 1 0.01
83 4 0.05
84 8 0.10
85 1 0.01
86 70 0.83
ACGTcount: A:0.38, C:0.04, G:0.14, T:0.44
Consensus pattern (82 bp):
TTTATGGAAAATGAGTTTAAATGGTAAATCTTTATGTTTTATAAACAAAATGTGTTTAAATGAAA
TGATTTTTTAAATTGTC
Found at i:8207240 original size:2 final size:2
Alignment explanation
Indices: 8207197--8207229 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8207187 ATGATGATTG
8207197 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8207230 CACACATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8211379 original size:44 final size:44
Alignment explanation
Indices: 8211316--8211409 Score: 188
Period size: 44 Copynumber: 2.1 Consensus size: 44
8211306 AAGGTTTCAA
8211316 AGGATACTTCCATGAAAGGTGCAAAGAAACATGGAATGGAGAGG
1 AGGATACTTCCATGAAAGGTGCAAAGAAACATGGAATGGAGAGG
8211360 AGGATACTTCCATGAAAGGTGCAAAGAAACATGGAATGGAGAGG
1 AGGATACTTCCATGAAAGGTGCAAAGAAACATGGAATGGAGAGG
8211404 AGGATA
1 AGGATA
8211410 GGACCAAGAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (44 bp):
AGGATACTTCCATGAAAGGTGCAAAGAAACATGGAATGGAGAGG
Found at i:8214938 original size:72 final size:73
Alignment explanation
Indices: 8214750--8214944 Score: 216
Period size: 73 Copynumber: 2.7 Consensus size: 73
8214740 CAAATTGCAA
* * * *** *
8214750 ACAGAGAACTTTTAGTCGACTAACTTTCTTCTTGGTCGACTAAGTTGGTTCTGTCTTCTGGTCGT
1 ACAGAGAGCATTTAGTCGACTAACTCTCTTCTTGGTCGACTAAGTTGGTTCTGTCTTAAAGTCGC
8214815 AAATTCTG
66 AAATTCTG
*
8214823 GCAGAGAGCATTTAGTCGACTAACTCAT-TTCTTGGTCGACTAAGTTGGTTCTGTCTTAAAGTC-
1 ACAGAGAGCATTTAGTCGACTAACTC-TCTTCTTGGTCGACTAAGTTGGTTCTGTCTTAAAGTCG
* *
8214886 CAGATTTTG
65 CAAATTCTG
* * * * *
8214895 ACAG-TAGCTTCTTAGTCGACTAACTCTCATCTTGGTCAACTAAGTCGGTT
1 ACAGAGAGCAT-TTAGTCGACTAACTCTCTTCTTGGTCGACTAAGTTGGTT
8214945 TTGTTTCTCA
Statistics
Matches: 103, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
71 5 0.05
72 43 0.42
73 54 0.52
74 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (73 bp):
ACAGAGAGCATTTAGTCGACTAACTCTCTTCTTGGTCGACTAAGTTGGTTCTGTCTTAAAGTCGC
AAATTCTG
Found at i:8215686 original size:22 final size:22
Alignment explanation
Indices: 8215661--8215708 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
8215651 AATCATCAGT
8215661 AGCAAAATACCATAAACATATC
1 AGCAAAATACCATAAACATATC
* *
8215683 AGCAACATATCATAAACATATC
1 AGCAAAATACCATAAACATATC
8215705 AGCA
1 AGCA
8215709 TCCATTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.52, C:0.23, G:0.06, T:0.19
Consensus pattern (22 bp):
AGCAAAATACCATAAACATATC
Found at i:8215691 original size:11 final size:11
Alignment explanation
Indices: 8215675--8215708 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
8215665 AAATACCATA
8215675 AACATATCAGC
1 AACATATCAGC
**
8215686 AACATATCATA
1 AACATATCAGC
8215697 AACATATCAGC
1 AACATATCAGC
8215708 A
1 A
8215709 TCCATTTTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.50, C:0.24, G:0.06, T:0.21
Consensus pattern (11 bp):
AACATATCAGC
Found at i:8219069 original size:18 final size:18
Alignment explanation
Indices: 8219046--8219089 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
8219036 TTTCAACTTC
8219046 AGCATATCAAACTTTTTG
1 AGCATATCAAACTTTTTG
*
8219064 AGCATATCGAACTTTTTG
1 AGCATATCAAACTTTTTG
*
8219082 GGCATATC
1 AGCATATC
8219090 TTGAGTGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (18 bp):
AGCATATCAAACTTTTTG
Found at i:8226099 original size:19 final size:21
Alignment explanation
Indices: 8226075--8226118 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
8226065 CCTATAAATA
8226075 TCTTGAAA-TTCCAGCAGCT-
1 TCTTGAAATTTCCAGCAGCTG
8226094 TCTTGAAATTTCCAGCAGCTG
1 TCTTGAAATTTCCAGCAGCTG
8226115 TCTT
1 TCTT
8226119 CTTCTTCCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.35
20 11 0.48
21 4 0.17
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (21 bp):
TCTTGAAATTTCCAGCAGCTG
Found at i:8227519 original size:21 final size:21
Alignment explanation
Indices: 8227495--8227536 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
8227485 TTCATCAGCT
*
8227495 GAATTTCGCTGCAGCAAGAAA
1 GAATTTCACTGCAGCAAGAAA
*
8227516 GAATTTCACTGCAGCGAGAAA
1 GAATTTCACTGCAGCAAGAAA
8227537 CCTTATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (21 bp):
GAATTTCACTGCAGCAAGAAA
Found at i:8229600 original size:72 final size:73
Alignment explanation
Indices: 8229470--8229654 Score: 234
Period size: 72 Copynumber: 2.6 Consensus size: 73
8229460 GATAGAGAAC
* ** *
8229470 TCTTAGTCGACTAACTTTCTTCTTGGTCGACTAAGTT-GTTCTGTCTTCTGGTAGCAGATTTTGG
1 TCTTAGTCGACTAACTCTCTTCTTGGTCGACTAAGTTGGTTCTGTCTTCAAGTACCAGATTTTGG
8229534 CAGAGAGCA
66 CAG-GAGCA
*
8229543 T-TTAGTCGACTAACTCAT-TTCTTGGTCGACTAAGTTGGTTCTGTCTTGAAGT-CCAGATTTTG
1 TCTTAGTCGACTAACTC-TCTTCTTGGTCGACTAAGTTGGTTCTGTCTTCAAGTACCAGATTTTG
* *
8229605 GCAGTAGCT
65 GCAGGAGCA
* * *
8229614 TCTTAGTCGACTAACTCTCATCTTGGTCAACTAAGTCGGTT
1 TCTTAGTCGACTAACTCTCTTCTTGGTCGACTAAGTTGGTT
8229655 TTGTTTCTCA
Statistics
Matches: 98, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
71 5 0.05
72 79 0.81
73 14 0.14
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (73 bp):
TCTTAGTCGACTAACTCTCTTCTTGGTCGACTAAGTTGGTTCTGTCTTCAAGTACCAGATTTTGG
CAGGAGCA
Found at i:8238574 original size:18 final size:18
Alignment explanation
Indices: 8238531--8238586 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
8238521 AGCACCACTC
* * *
8238531 CATATGGAACAACTAATA
1 CATATAGAACAACTACTT
8238549 CA-AGTAGAACAACTACTT
1 CATA-TAGAACAACTACTT
* *
8238567 CATATAGAAAAACCACTT
1 CATATAGAACAACTACTT
8238585 CA
1 CA
8238587 CATGGATGAC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 1 0.03
18 29 0.94
19 1 0.03
ACGTcount: A:0.48, C:0.21, G:0.09, T:0.21
Consensus pattern (18 bp):
CATATAGAACAACTACTT
Found at i:8238792 original size:29 final size:29
Alignment explanation
Indices: 8238760--8238816 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
8238750 CATATACTTG
8238760 TTCACATACA-CATTCTTCTCTTGTACCTA
1 TTCACATACAGC-TTCTTCTCTTGTACCTA
** *
8238789 TTCATGTATAGCTTCTTCTCTTGTACCT
1 TTCACATACAGCTTCTTCTCTTGTACCT
8238817 GTTTTCCCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.19, C:0.28, G:0.07, T:0.46
Consensus pattern (29 bp):
TTCACATACAGCTTCTTCTCTTGTACCTA
Found at i:8239325 original size:16 final size:15
Alignment explanation
Indices: 8239306--8239348 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
8239296 TTACTTATTT
8239306 TTAGTTATTTTTATAA
1 TTAGTTATTTTTA-AA
*
8239322 TTAGTTTATTTTTAAG
1 TTAG-TTATTTTTAAA
*
8239338 TGAGTTATTTT
1 TTAGTTATTTT
8239349 AATTTTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.29
16 8 0.33
17 9 0.38
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.63
Consensus pattern (15 bp):
TTAGTTATTTTTAAA
Found at i:8241904 original size:43 final size:43
Alignment explanation
Indices: 8241856--8241981 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 43
8241846 CCCATCATCA
* * * ** *
8241856 TCATCACCAGCTCATGTGCACTCCTTACTCACACATGGCTGGG
1 TCATCACCAGCTTATGCGCACTCCTTACTCGCACATAACCGGG
* * * *
8241899 TCATCACCGGGTTATGCGCACTCCCTACTCGCTCATAACCGGG
1 TCATCACCAGCTTATGCGCACTCCTTACTCGCACATAACCGGG
*
8241942 TCATC-CTCAACTTATGCGCACTCCTTACTCGCACATAACC
1 TCATCAC-CAGCTTATGCGCACTCCTTACTCGCACATAACC
8241982 AAGTCCATGT
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 1 0.01
43 66 0.99
ACGTcount: A:0.21, C:0.37, G:0.16, T:0.25
Consensus pattern (43 bp):
TCATCACCAGCTTATGCGCACTCCTTACTCGCACATAACCGGG
Found at i:8242010 original size:2 final size:2
Alignment explanation
Indices: 8242003--8242029 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8241993 ATTACACAAC
8242003 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8242030 TAACACAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8245476 original size:18 final size:18
Alignment explanation
Indices: 8245429--8245484 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
8245419 ACATCAACTC
*
8245429 CAATATCAAGAACAGCCT
1 CAATATCAAGAACAACCT
* * * *
8245447 TAATAGCGAGAATAACCT
1 CAATATCAAGAACAACCT
*
8245465 CAATATCAAGAACAAACT
1 CAATATCAAGAACAACCT
8245483 CA
1 CA
8245485 TCTCAAATAA
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.48, C:0.23, G:0.11, T:0.18
Consensus pattern (18 bp):
CAATATCAAGAACAACCT
Found at i:8245830 original size:17 final size:18
Alignment explanation
Indices: 8245807--8245853 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
8245797 TTCCTAAAAA
8245807 AAAATAAACAAAATG-AG
1 AAAATAAACAAAATGTAG
*
8245824 GAAATAAA-AAAATGTAG
1 AAAATAAACAAAATGTAG
*
8245841 AAAAAAAACAAAA
1 AAAATAAACAAAA
8245854 GACGAACTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 6 0.24
17 15 0.60
18 4 0.16
ACGTcount: A:0.74, C:0.04, G:0.11, T:0.11
Consensus pattern (18 bp):
AAAATAAACAAAATGTAG
Found at i:8252498 original size:20 final size:20
Alignment explanation
Indices: 8252473--8252511 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
8252463 TAAGTATATA
8252473 TATCAATTAAATAAAAAAAG
1 TATCAATTAAATAAAAAAAG
8252493 TATCAATTAAATAAAAAAA
1 TATCAATTAAATAAAAAAA
8252512 TATATATCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (20 bp):
TATCAATTAAATAAAAAAAG
Found at i:8253470 original size:61 final size:61
Alignment explanation
Indices: 8253372--8253601 Score: 298
Period size: 61 Copynumber: 3.8 Consensus size: 61
8253362 CAGCTCATGC
* * * * *
8253372 ACATCATCACCGGCATGTGCACTGCCAACTCCACACATGCACGGTTATAATTATCACGACA
1 ACATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAATTATCATGACA
* *
8253433 ACATCATTACCGGCATGTGCACTACCCGCTCCGCACATGCACGGTTGTAATTATCATGACA
1 ACATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAATTATCATGACA
* * * * * *
8253494 TCATCATTATCGGCACGTGCACTGCCCATTCCGCACATGCATGGTTGTAATTATTATGACA
1 ACATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAATTATCATGACA
* * ** *
8253555 GCATTATTATTGGCATGTGCACTGCCCACTCCGTACATGCACGGTTG
1 ACATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTG
8253602 CATTTGTCAC
Statistics
Matches: 147, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 147 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (61 bp):
ACATCATTACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAATTATCATGACA
Found at i:8254818 original size:23 final size:24
Alignment explanation
Indices: 8254783--8254828 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
8254773 TCAAGAAGTT
8254783 TGGAGAAGAAAAGACAAGAAAACA
1 TGGAGAAGAAAAGACAAGAAAACA
* **
8254807 TGGA-AAGGAAAGTGAAGAAAAC
1 TGGAGAAGAAAAGACAAGAAAAC
8254829 TTGATTTCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.59, C:0.07, G:0.28, T:0.07
Consensus pattern (24 bp):
TGGAGAAGAAAAGACAAGAAAACA
Found at i:8256894 original size:8 final size:8
Alignment explanation
Indices: 8256878--8256953 Score: 89
Period size: 8 Copynumber: 9.5 Consensus size: 8
8256868 TATAACACAC
*
8256878 ATATTTAT
1 ATATATAT
*
8256886 ATATGTAT
1 ATATATAT
*
8256894 ATATCTAT
1 ATATATAT
8256902 ATATATAT
1 ATATATAT
*
8256910 CTATATAT
1 ATATATAT
*
8256918 CTATATAT
1 ATATATAT
*
8256926 ATATATCT
1 ATATATAT
*
8256934 ATATATAG
1 ATATATAT
8256942 ATATATAT
1 ATATATAT
8256950 ATAT
1 ATAT
8256954 CCATCACCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 59 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (8 bp):
ATATATAT
Found at i:8256902 original size:6 final size:6
Alignment explanation
Indices: 8256878--8256953 Score: 89
Period size: 6 Copynumber: 12.7 Consensus size: 6
8256868 TATAACACAC
* * * * *
8256878 ATATTT ATATAT GTATAT ATCTAT ATATAT ATCTAT ATATCT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* *
8256926 ATATAT CTATAT ATAGAT ATATAT ATAT
1 ATATAT ATATAT ATATAT ATATAT ATAT
8256954 CCATCACCAT
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (6 bp):
ATATAT
Found at i:8256902 original size:14 final size:14
Alignment explanation
Indices: 8256878--8256953 Score: 89
Period size: 14 Copynumber: 5.4 Consensus size: 14
8256868 TATAACACAC
* *
8256878 ATATTTATATATGT
1 ATATATATATATAT
*
8256892 ATATATCTATATAT
1 ATATATATATATAT
* *
8256906 ATATCTATATATCT
1 ATATATATATATAT
*
8256920 ATATATATATATCT
1 ATATATATATATAT
*
8256934 ATATATAGATATAT
1 ATATATATATATAT
8256948 ATATAT
1 ATATAT
8256954 CCATCACCAT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 53 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (14 bp):
ATATATATATATAT
Found at i:8256903 original size:22 final size:22
Alignment explanation
Indices: 8256878--8256954 Score: 104
Period size: 22 Copynumber: 3.6 Consensus size: 22
8256868 TATAACACAC
* *
8256878 ATATTTATATATGTATATATC-
1 ATATATATATATCTATATATCT
8256899 -TATATATATATCTATATATCT
1 ATATATATATATCTATATATCT
**
8256920 ATATATATATATCTATATATAG
1 ATATATATATATCTATATATCT
8256942 ATATATATATATC
1 ATATATATATATC
8256955 CATCACCATA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
20 18 0.36
22 32 0.64
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.49
Consensus pattern (22 bp):
ATATATATATATCTATATATCT
Found at i:8256908 original size:20 final size:20
Alignment explanation
Indices: 8256883--8256953 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
8256873 CACACATATT
*
8256883 TATATATGTATATATCTATA
1 TATATATATATATATCTATA
*
8256903 TATATATCTATATATCTATA
1 TATATATATATATATCTATA
* * *
8256923 TATATATATCTATATATAGA
1 TATATATATATATATCTATA
8256943 TATATATATAT
1 TATATATATAT
8256954 CCATCACCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.49
Consensus pattern (20 bp):
TATATATATATATATCTATA
Found at i:8257104 original size:42 final size:42
Alignment explanation
Indices: 8257058--8257184 Score: 168
Period size: 42 Copynumber: 3.0 Consensus size: 42
8257048 ACATATAGTC
* *
8257058 GGGTCATCATCGGCTTATGAACACTCCCACTGTCACATAGCA
1 GGGTCATCATCGGCTTATGCACACTCCTACTGTCACATAGCA
* *
8257100 GGGTCATCATCGGCTTATGCACACTCCTATTCG-CACATAGCC
1 GGGTCATCATCGGCTTATGCACACTCCTACT-GTCACATAGCA
* *
8257142 GGGTCATCATCGGCGTATGCGCACTCCTACT-TGCACATAGCA
1 GGGTCATCATCGGCTTATGCACACTCCTACTGT-CACATAGCA
8257184 G
1 G
8257185 AGTCTACATC
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
42 73 0.99
43 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.24
Consensus pattern (42 bp):
GGGTCATCATCGGCTTATGCACACTCCTACTGTCACATAGCA
Found at i:8267056 original size:33 final size:33
Alignment explanation
Indices: 8267019--8267109 Score: 96
Period size: 33 Copynumber: 2.7 Consensus size: 33
8267009 CATATACACA
*
8267019 TCAAAATCAGCAACCAAGCTACTCTATT-TCTCC
1 TCAAAATCAGCAACAAAGCTACTCTATTCTC-CC
* *
8267052 TCAAAATCAGCAGCTAAA-CTGCTCTATTCTCCC
1 TCAAAATCAGCAAC-AAAGCTACTCTATTCTCCC
8267085 TCCAAAAATCAGCAAACAAAGCTAC
1 T-C-AAAATCAGC-AACAAAGCTAC
8267110 AAAAATTAGC
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
33 25 0.53
34 5 0.11
35 12 0.26
36 5 0.11
ACGTcount: A:0.37, C:0.32, G:0.08, T:0.23
Consensus pattern (33 bp):
TCAAAATCAGCAACAAAGCTACTCTATTCTCCC
Found at i:8267150 original size:35 final size:35
Alignment explanation
Indices: 8267110--8267188 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
8267100 ACAAAGCTAC
* * *
8267110 AAAAATTAGCAA-CAAAAATCGCACCTTTCAGCCTT
1 AAAAATCAGCAAGCAAAAAT-ACACCTTTCAACCTT
* * *
8267145 CAAAATCAGTAAGCAAAACTACACCTTTCAACCTT
1 AAAAATCAGCAAGCAAAAATACACCTTTCAACCTT
8267180 AAAAATCAG
1 AAAAATCAG
8267189 TGATTAAAGC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
35 30 0.83
36 6 0.17
ACGTcount: A:0.46, C:0.25, G:0.08, T:0.22
Consensus pattern (35 bp):
AAAAATCAGCAAGCAAAAATACACCTTTCAACCTT
Found at i:8272602 original size:84 final size:84
Alignment explanation
Indices: 8272512--8272670 Score: 210
Period size: 84 Copynumber: 1.9 Consensus size: 84
8272502 TCAGCTCATC
* * * * * * *
8272512 TGCACTCTCACGCGCACATGGCTAGGTCATCATCGGCTTATGCATACACTTGCTCGCATATAGTC
1 TGCACTCCCACGCGCACATAGCTAGGTCATCATCGACTTATGCACACACCTACTCGCACATAGTC
8272577 GGGTCATCATTGACTTATG
66 GGGTCATCATTGACTTATG
* * * *
8272596 TGCACTCCCACTCGTACATAGCTGGGTCATCATCGACTTATGCACACTCCTACTCGCACATAGTC
1 TGCACTCCCACGCGCACATAGCTAGGTCATCATCGACTTATGCACACACCTACTCGCACATAGTC
*
8272661 TGGTCATCAT
66 GGGTCATCAT
8272671 CAGTGTATGC
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
84 63 1.00
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (84 bp):
TGCACTCCCACGCGCACATAGCTAGGTCATCATCGACTTATGCACACACCTACTCGCACATAGTC
GGGTCATCATTGACTTATG
Found at i:8272623 original size:42 final size:43
Alignment explanation
Indices: 8272514--8272700 Score: 159
Period size: 42 Copynumber: 4.4 Consensus size: 43
8272504 AGCTCATCTG
* * * * *
8272514 CACTCTCACGCGCACAT-GGCTAGGTCATCATCGGCTTATGCA
1 CACTCCCACTCGCACATAGTCTGGGTCATCATCGACTTATGCA
* * *** * * **
8272556 TACACTTGCTCGCATATAGTC-GGGTCATCATTGACTTATGTG
1 CACTCCCACTCGCACATAGTCTGGGTCATCATCGACTTATGCA
*
8272598 CACTCCCACTCGTACATAG-CTGGGTCATCATCGACTTATGCA
1 CACTCCCACTCGCACATAGTCTGGGTCATCATCGACTTATGCA
* *
8272640 CACTCCTACTCGCACATAGTCT-GGTCATCATC-AGTGTATGCA
1 CACTCCCACTCGCACATAGTCTGGGTCATCATCGACT-TATGCA
* *
8272682 CACTCCTACTCGAACATAG
1 CACTCCCACTCGCACATAG
8272701 CCCGGTCCAC
Statistics
Matches: 115, Mismatches: 26, Indels: 8
0.77 0.17 0.05
Matches are distributed among these distances:
41 3 0.03
42 108 0.94
43 4 0.03
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (43 bp):
CACTCCCACTCGCACATAGTCTGGGTCATCATCGACTTATGCA
Found at i:8272686 original size:84 final size:84
Alignment explanation
Indices: 8272527--8272701 Score: 199
Period size: 84 Copynumber: 2.1 Consensus size: 84
8272517 TCTCACGCGC
* * * * * * *
8272527 ACATGGCTAGGTCATCATCGGCTTATGCATACACTTGCTCGCATATAGTCGGGTCATCATTGACT
1 ACATAGCTAGGTCATCATCGACTTATGCACACACCTACTCGCACATAGTCGGGTCATCATTCACT
** *
8272592 TATGTGCACTCCCACTCGT
66 TATGCACACTCCCACTCGA
* * * *
8272611 ACATAGCTGGGTCATCATCGACTTATGCACACTCCTACTCGCACATAGTCTGGTCATCA-TCAGT
1 ACATAGCTAGGTCATCATCGACTTATGCACACACCTACTCGCACATAGTCGGGTCATCATTCACT
*
8272675 GTATGCACACTCCTACTCGA
66 -TATGCACACTCCCACTCGA
8272695 ACATAGC
1 ACATAGC
8272702 CCGGTCCACA
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
83 3 0.04
84 72 0.96
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (84 bp):
ACATAGCTAGGTCATCATCGACTTATGCACACACCTACTCGCACATAGTCGGGTCATCATTCACT
TATGCACACTCCCACTCGA
Found at i:8275682 original size:43 final size:43
Alignment explanation
Indices: 8275629--8275730 Score: 170
Period size: 43 Copynumber: 2.4 Consensus size: 43
8275619 GCTATGTACA
**
8275629 AGTAGGGAGTGCGCATAAACC-GATGATGACCCGGTTATGTGCG
1 AGTAGGGAGTGCGCATAAACCAG-TGATGACCCAATTATGTGCG
8275672 AGTAGGGAGTGCGCATAAACCAGTGATGACCCAATTATGTGCG
1 AGTAGGGAGTGCGCATAAACCAGTGATGACCCAATTATGTGCG
8275715 AGTAGGGAGTGCGCAT
1 AGTAGGGAGTGCGCAT
8275731 GAGCTGGTGA
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
43 55 0.98
44 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.34, T:0.21
Consensus pattern (43 bp):
AGTAGGGAGTGCGCATAAACCAGTGATGACCCAATTATGTGCG
Found at i:8280468 original size:35 final size:35
Alignment explanation
Indices: 8280420--8280488 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 35
8280410 TATTGTATAG
* *
8280420 AGAACAACCAAAACGAGTAAAGCACTACTTCACGC
1 AGAACAAACAAAACAAGTAAAGCACTACTTCACGC
* * **
8280455 AGAACAAATAAAACAAGTGAAGTGCTACTTCACG
1 AGAACAAACAAAACAAGTAAAGCACTACTTCACG
8280489 TAGAGCAACT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.46, C:0.23, G:0.16, T:0.14
Consensus pattern (35 bp):
AGAACAAACAAAACAAGTAAAGCACTACTTCACGC
Found at i:8280505 original size:35 final size:35
Alignment explanation
Indices: 8280444--8280511 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
8280434 GAGTAAAGCA
8280444 CTACTTCACGCAGAACAAATAAAACAAGTGAAGTG
1 CTACTTCACGCAGAACAAATAAAACAAGTGAAGTG
* * * *
8280479 CTACTTCACGTAGAGCAACTAGAACAAGTGAAG
1 CTACTTCACGCAGAACAAATAAAACAAGTGAAG
8280512 CATTATTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.18
Consensus pattern (35 bp):
CTACTTCACGCAGAACAAATAAAACAAGTGAAGTG
Found at i:8280828 original size:29 final size:29
Alignment explanation
Indices: 8280771--8280877 Score: 83
Period size: 29 Copynumber: 3.7 Consensus size: 29
8280761 TCACCCTCCT
* * ** *
8280771 ACCTTGTTCTCTTATACCAGTTCATGTAC
1 ACCTTCTTCTCTTGTACCTTTTCACGTAC
8280800 ACCTTCTTCTCTTGTACCTATTT-ACGTAC
1 ACCTTCTTCTCTTGTACCT-TTTCACGTAC
** * **
8280829 AGTTTCTTCTTTTGTACCTTTTCACGTTT
1 ACCTTCTTCTCTTGTACCTTTTCACGTAC
**
8280858 ACCTT-TTCTCTAATACCTTT
1 ACCTTCTTCTCTTGTACCTTT
8280878 GACTCGAAAA
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
28 15 0.25
29 44 0.72
30 2 0.03
ACGTcount: A:0.17, C:0.27, G:0.07, T:0.49
Consensus pattern (29 bp):
ACCTTCTTCTCTTGTACCTTTTCACGTAC
Found at i:8281583 original size:19 final size:20
Alignment explanation
Indices: 8281561--8281611 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
8281551 TACATACTAA
8281561 ATAAATTTTTTAA-TTTTTT
1 ATAAATTTTTTAATTTTTTT
8281580 ATAAATCTTTTTAATTTTTTT
1 ATAAAT-TTTTTAATTTTTTT
*
8281601 ATAACTTTTTT
1 ATAAATTTTTT
8281612 TAATGGTCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 6 0.21
20 12 0.41
21 11 0.38
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (20 bp):
ATAAATTTTTTAATTTTTTT
Found at i:8281590 original size:21 final size:20
Alignment explanation
Indices: 8281561--8281615 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 20
8281551 TACATACTAA
8281561 ATAAA-TTTTTTAATTTTTT
1 ATAAATTTTTTTAATTTTTT
*
8281580 ATAAATCTTTTTAATTTTTTT
1 ATAAATTTTTTTAA-TTTTTT
*
8281601 ATAACTTTTTTTAAT
1 ATAAATTTTTTTAAT
8281616 GGTCCTCTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 8 0.26
21 18 0.58
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (20 bp):
ATAAATTTTTTTAATTTTTT
Found at i:8286191 original size:29 final size:29
Alignment explanation
Indices: 8286145--8286206 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
8286135 CTTTCCATGC
* *
8286145 TTTTATTACTTGTGTTGCGGTTACAATCA
1 TTTTATTACTCGTATTGCGGTTACAATCA
*
8286174 TTTTATTACTCGTATTGCTGTTACAATCA
1 TTTTATTACTCGTATTGCGGTTACAATCA
8286203 TTTT
1 TTTT
8286207 GAGCGCTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.52
Consensus pattern (29 bp):
TTTTATTACTCGTATTGCGGTTACAATCA
Done.