Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 27 of 322
Found at i:7985696 original size:2 final size:2
Alignment explanation
Indices: 7985689--7985732 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
7985679 TTGTTTTGTT
7985689 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA -A TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7985728 -A TA TA
1 TA TA TA
7985733 ATAACATTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
1 4 0.11
2 34 0.89
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:7985733 original size:10 final size:11
Alignment explanation
Indices: 7985690--7985735 Score: 69
Period size: 10 Copynumber: 4.3 Consensus size: 11
7985680 TGTTTTGTTT
7985690 ATATATATATA
1 ATATATATATA
7985701 TATATATATATA
1 -ATATATATATA
7985713 ATATA-ATATA
1 ATATATATATA
7985723 ATATA-ATATA
1 ATATATATATA
7985733 ATA
1 ATA
7985736 ACATTAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 18 0.53
11 5 0.15
12 11 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
ATATATATATA
Found at i:7989009 original size:51 final size:51
Alignment explanation
Indices: 7988933--7989039 Score: 205
Period size: 51 Copynumber: 2.1 Consensus size: 51
7988923 ATACTATTGT
7988933 TCAATAAGTGCGCTTGCCTTTATCGTGATAATAGTTAGTTTTCAAGTACGA
1 TCAATAAGTGCGCTTGCCTTTATCGTGATAATAGTTAGTTTTCAAGTACGA
*
7988984 TCAATAGGTGCGCTTGCCTTTATCGTGATAATAGTTAGTTTTCAAGTACGA
1 TCAATAAGTGCGCTTGCCTTTATCGTGATAATAGTTAGTTTTCAAGTACGA
7989035 TCAAT
1 TCAAT
7989040 CATAAATATA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (51 bp):
TCAATAAGTGCGCTTGCCTTTATCGTGATAATAGTTAGTTTTCAAGTACGA
Found at i:7991833 original size:46 final size:46
Alignment explanation
Indices: 7991773--7992135 Score: 548
Period size: 46 Copynumber: 7.9 Consensus size: 46
7991763 TTTAACGTGA
* * * * * * *
7991773 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCACGGTCTTACACA-TTTCATATCAGGT
** ** * * *
7991819 TGCCATGGTATCTTTCAACCATAGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGT
* * *
7991865 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCACATCAGGT
1 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGT
7991911 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGT
7991957 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGT
7992003 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGT
7992049 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGT
*
7992095 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATAT
7992136 AAGAGAGCAC
Statistics
Matches: 297, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.01
46 293 0.99
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGT
Found at i:7994283 original size:11 final size:11
Alignment explanation
Indices: 7994267--7994314 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
7994257 CTTTATATAC
7994267 TAATAAAATAA
1 TAATAAAATAA
*
7994278 TAATAAAATATCT
1 TAATAAAATA--A
* *
7994291 TATTAAAATAT
1 TAATAAAATAA
7994302 TAATAAAATAA
1 TAATAAAATAA
7994313 TA
1 TA
7994315 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:7996505 original size:9 final size:9
Alignment explanation
Indices: 7996491--7996530 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
7996481 CCTTTTACCC
7996491 TATTACTTT
1 TATTACTTT
7996500 TATTACTTT
1 TATTACTTT
*
7996509 TATTTCTTT
1 TATTACTTT
7996518 TACTT-CTTT
1 TA-TTACTTT
7996527 TATT
1 TATT
7996531 TGATTTATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 2 0.07
9 25 0.86
10 2 0.07
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.70
Consensus pattern (9 bp):
TATTACTTT
Found at i:7998116 original size:17 final size:18
Alignment explanation
Indices: 7998076--7998109 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7998066 ATTTTTGAAG
*
7998076 ACTTTTATTTATTATTTT
1 ACTTTTATCTATTATTTT
7998094 ACTTTTATCT-TTATTT
1 ACTTTTATCTATTATTT
7998110 ATCTTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (18 bp):
ACTTTTATCTATTATTTT
Found at i:8003572 original size:54 final size:53
Alignment explanation
Indices: 8003450--8003601 Score: 184
Period size: 54 Copynumber: 2.9 Consensus size: 53
8003440 AAAGGTTTTT
* ***
8003450 GGGGTTTGGG-GGAAGTAAAAGTTTTAGGG-GAAATCAAAAGAAAAAAATTTAA
1 GGGG-TTGGGAGGAAGTAAAAGTTTTAGGGAGAAAACAAAAGAAAAAAAACCAA
* * * *
8003502 GGGTTTGGGA-GAAGTAAAAGTTTTGGGGAGAAAGCAAAAGGAAAAAAAACCGA
1 GGGGTTGGGAGGAAGTAAAAGTTTTAGGGAGAAAACAAAA-GAAAAAAAACCAA
*
8003555 GGGGTTGGGAGGAAGTAAAAGTTTTAGGGAGAAAATAAAAGAAAAAA
1 GGGGTTGGGAGGAAGTAAAAGTTTTAGGGAGAAAACAAAAGAAAAAA
8003602 GAAAAATGTT
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
51 22 0.26
52 12 0.14
53 25 0.29
54 26 0.31
ACGTcount: A:0.46, C:0.03, G:0.33, T:0.18
Consensus pattern (53 bp):
GGGGTTGGGAGGAAGTAAAAGTTTTAGGGAGAAAACAAAAGAAAAAAAACCAA
Found at i:8004509 original size:56 final size:56
Alignment explanation
Indices: 8004434--8004548 Score: 221
Period size: 56 Copynumber: 2.1 Consensus size: 56
8004424 CTTGAGAATT
*
8004434 TCTATAGCCACCAAAAAGGAAAAGTGAAGTAGAGATCCTAGAGAGCTTGACTATCA
1 TCTATAGCCACCAAAAAGGAAAAGTGAAGTAGAGATCATAGAGAGCTTGACTATCA
8004490 TCTATAGCCACCAAAAAGGAAAAGTGAAGTAGAGATCATAGAGAGCTTGACTATCA
1 TCTATAGCCACCAAAAAGGAAAAGTGAAGTAGAGATCATAGAGAGCTTGACTATCA
8004546 TCT
1 TCT
8004549 TGGAAGTAAG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (56 bp):
TCTATAGCCACCAAAAAGGAAAAGTGAAGTAGAGATCATAGAGAGCTTGACTATCA
Found at i:8008093 original size:23 final size:25
Alignment explanation
Indices: 8008040--8008093 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 25
8008030 AATATACGTA
*
8008040 TTATATCTATTTTATAATTATTTAC
1 TTATATCTATATTATAATTATTTAC
8008065 TTATATCT-TATTAT-ATTA-TTAC
1 TTATATCTATATTATAATTATTTAC
8008087 TTCATAT
1 TT-ATAT
8008094 TTTTCTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 6 0.22
23 8 0.30
24 5 0.19
25 8 0.30
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (25 bp):
TTATATCTATATTATAATTATTTAC
Found at i:8009018 original size:46 final size:46
Alignment explanation
Indices: 8008958--8009171 Score: 279
Period size: 46 Copynumber: 4.7 Consensus size: 46
8008948 TTTGACGTGA
* * * *
8008958 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCAGGT
* * *
8009004 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* * *
8009050 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
* * *
8009096 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGG-T
8009143 T-CCATGGTATCTTTCAACCATGGTCTTAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC
8009172 ACACAGGTTG
Statistics
Matches: 154, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 4 0.03
46 148 0.96
47 2 0.01
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGT
Found at i:8009092 original size:92 final size:93
Alignment explanation
Indices: 8008958--8009306 Score: 342
Period size: 84 Copynumber: 4.0 Consensus size: 93
8008948 TTTGACGTGA
* * * *
8008958 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCACGTTGCCATGGTATCTTTCAAC
** * * *
8009023 CATGGTCTTATTCTTTTCATGTCACG-T
66 CATGGTCTTACACATCTCATATCACGAT
*
8009050 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTC-TGTCACGTTGCCATGGTATCTTTCAA
*
8009114 CCATGGTCTTACACATCTCATATCAGGAT
65 CCATGGTCTTACACATCTCATATCACGAT
* * *
8009143 T-CCATGGTATCTTTCAACCATGGTCTTA--CA----C--ACAGGTTGTCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCACGTTGCCATGGTATCTTTCAAC
* *
8009199 CATGGTCTTACACATTTCATATCA-GGT
66 CATGGTCTTACACATCTCATATCACGAT
* * * * * *
8009226 TGCCATGGTATCTTTTAGCTATGGTCTTA--CA----C--ACAGGTTGCCATGGTTTCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCACGTTGCCATGGTATCTTTCAAC
*
8009283 CATGGTCTTACACATTTCATATCA
66 CATGGTCTTACACATCTCATATCA
8009307 GAGAGCACAC
Statistics
Matches: 232, Mismatches: 21, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
83 3 0.01
84 119 0.51
87 1 0.00
90 1 0.00
91 5 0.02
92 101 0.44
93 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (93 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCACGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATCTCATATCACGAT
Found at i:8009196 original size:38 final size:38
Alignment explanation
Indices: 8009144--8009296 Score: 189
Period size: 38 Copynumber: 3.8 Consensus size: 38
8009134 TATCAGGATT
8009144 CCATGGTATCTTTCAACCATGGTCTTACACACAGGTTG
1 CCATGGTATCTTTCAACCATGGTCTTACACACAGGTTG
*
8009182 TCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
1 CCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGTTG
* * *
8009228 CCATGGTATCTTTTAGCTATGGTCTTACACACAGGTTG
1 CCATGGTATCTTTCAACCATGGTCTTACACACAGGTTG
*
8009266 CCATGGTTTCTTTCAACCATGGTCTTACACA
1 CCATGGTATCTTTCAACCATGGTCTTACACA
8009297 TTTCATATCA
Statistics
Matches: 98, Mismatches: 9, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
38 59 0.60
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 29 0.30
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (38 bp):
CCATGGTATCTTTCAACCATGGTCTTACACACAGGTTG
Found at i:8009240 original size:84 final size:84
Alignment explanation
Indices: 8009094--8009307 Score: 358
Period size: 84 Copynumber: 2.5 Consensus size: 84
8009084 TTCATGTCAC
*
8009094 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGATTCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGATTCCATGGTATCTTTCA
8009159 ACCATGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
* *
8009178 GTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGG-TTGCCATGGTATCTTTT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGATT-CCATGGTATCTTTC
* *
8009242 AGCTATGGTCTTACACACAG
65 AACCATGGTCTTACACACAG
*
8009262 GTTGCCATGGTTTCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
8009308 AGAGCACACT
Statistics
Matches: 122, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
83 2 0.02
84 120 0.98
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.36
Consensus pattern (84 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGATTCCATGGTATCTTTCA
ACCATGGTCTTACACACAG
Found at i:8009250 original size:46 final size:46
Alignment explanation
Indices: 8009175--8009307 Score: 165
Period size: 46 Copynumber: 3.1 Consensus size: 46
8009165 GTCTTACACA
*
8009175 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * *
8009221 CAGGTTGCCATGGTATCTTTTAGCTATGGTCTT--ACA---C--A-
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
8009259 CAGGTTGCCATGGTTTCTTTCAACCATGGTCTTACACATTTCATAT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
8009305 CAG
1 CAG
8009308 AGAGCACACT
Statistics
Matches: 71, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
38 29 0.41
39 1 0.01
40 3 0.04
41 1 0.01
43 1 0.01
44 3 0.04
45 1 0.01
46 32 0.45
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (46 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:8011406 original size:11 final size:11
Alignment explanation
Indices: 8011390--8011437 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
8011380 CTTTATATAC
8011390 TAATAAAATAA
1 TAATAAAATAA
*
8011401 TAATAAAATATCT
1 TAATAAAATA--A
* *
8011414 TATTAAAATAT
1 TAATAAAATAA
8011425 TAATAAAATAA
1 TAATAAAATAA
8011436 TA
1 TA
8011438 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:8011941 original size:22 final size:24
Alignment explanation
Indices: 8011906--8011949 Score: 58
Period size: 22 Copynumber: 1.9 Consensus size: 24
8011896 ATCTTCAGGG
8011906 TATTACAATTATTTTCA-TAATTGA
1 TATTACAATTA-TTTCATTAATTGA
8011930 TATTA-AA-TATTTCATTAATT
1 TATTACAATTATTTCATTAATT
8011950 ATTTCCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.26
22 7 0.37
23 2 0.11
24 5 0.26
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (24 bp):
TATTACAATTATTTCATTAATTGA
Found at i:8012059 original size:21 final size:22
Alignment explanation
Indices: 8012034--8012077 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
8012024 TATTTCAAAA
*
8012034 TTCAT-TATCAGTTACTATGTT
1 TTCATATATCAGTTAATATGTT
* *
8012055 TTCATATATTATTTAATATGTT
1 TTCATATATCAGTTAATATGTT
8012077 T
1 T
8012078 ATTATCTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.27, C:0.09, G:0.07, T:0.57
Consensus pattern (22 bp):
TTCATATATCAGTTAATATGTT
Found at i:8022535 original size:28 final size:28
Alignment explanation
Indices: 8022476--8022544 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
8022466 AACTTATTTT
* *
8022476 TTTAATAATATAAAAATTAAATTTAACCA
1 TTTAATAATA-AAAAACTAAATTTAACAA
*
8022505 TTTAATAATAAAAAACT-AATTTAATTAA
1 TTTAATAATAAAAAACTAAATTTAA-CAA
*
8022533 TTTATTAATAAA
1 TTTAATAATAAA
8022545 CCCAACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 7 0.20
28 18 0.51
29 10 0.29
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (28 bp):
TTTAATAATAAAAAACTAAATTTAACAA
Found at i:8023298 original size:19 final size:20
Alignment explanation
Indices: 8023274--8023316 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
8023264 CCATCACCTG
* *
8023274 CAAAACAAAA-ACAGAGAAC
1 CAAAACAAAACACAAAGAAA
8023293 CAAAACAAAACACAAAGAAA
1 CAAAACAAAACACAAAGAAA
8023313 CAAA
1 CAAA
8023317 GAAGAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.72, C:0.21, G:0.07, T:0.00
Consensus pattern (20 bp):
CAAAACAAAACACAAAGAAA
Found at i:8024509 original size:24 final size:24
Alignment explanation
Indices: 8024472--8024534 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
8024462 TCATGTACAC
*
8024472 ATTATT-TATATTATTTTCA-TGATT
1 ATTATTGTAT-TTATTTTCACT-ACT
* *
8024496 ATTATTGTGTTTATTTTTACTACT
1 ATTATTGTATTTATTTTCACTACT
8024520 ATTATTGTATTTATT
1 ATTATTGTATTTATT
8024535 ATTAGTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.25, C:0.05, G:0.06, T:0.63
Consensus pattern (24 bp):
ATTATTGTATTTATTTTCACTACT
Found at i:8024549 original size:24 final size:24
Alignment explanation
Indices: 8024493--8024549 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
8024483 TATTTTCATG
* *
8024493 ATTATTATTGTGTTTATTTTTACT
1 ATTATTATTGTATTTATTATTACT
* *
8024517 ACTATTATTGTATTTATTATTAGT
1 ATTATTATTGTATTTATTATTACT
*
8024541 ATTAGTATT
1 ATTATTATT
8024550 ATAATTACTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (24 bp):
ATTATTATTGTATTTATTATTACT
Found at i:8024790 original size:25 final size:24
Alignment explanation
Indices: 8024746--8024819 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 24
8024736 GTATGTATTA
8024746 TATATATTT-TTA-ATACTATATTAT
1 TATATATTTATTATATA-TAT-TTAT
8024770 GTATATATTATATTATATATATTTAT
1 -TATATATT-TATTATATATATTTAT
* *
8024796 TATATTTTTATGTATATATTTTTA
1 TATATATTTAT-TATATATATTTA
8024820 ATATCACATT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
24 3 0.07
25 26 0.60
26 5 0.12
27 6 0.14
28 3 0.07
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (24 bp):
TATATATTTATTATATATATTTAT
Found at i:8024798 original size:18 final size:18
Alignment explanation
Indices: 8024741--8024801 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 18
8024731 AATGTGTATG
8024741 TATTATATATATTT-TTAA
1 TATTATATATATTTATT-A
* *
8024759 TACTATATTATGTATATATTA
1 TA-T-TA-TATATATTTATTA
8024780 TATTATATATATTTATTA
1 TATTATATATATTTATTA
8024798 TATT
1 TATT
8024802 TTTATGTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 17 0.49
19 3 0.09
20 3 0.09
21 10 0.29
22 2 0.06
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TATTATATATATTTATTA
Found at i:8024807 original size:37 final size:39
Alignment explanation
Indices: 8024741--8024815 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
8024731 AATGTGTATG
8024741 TATTATATATATTTTTAATACTATATTATGTATATATTA
1 TATTATATATATTTTTAATACTATATTATGTATATATTA
*
8024780 TATTATATATATTTATT-ATA-T-TTTTATGTATATATT
1 TATTATATATATTT-TTAATACTATATTATGTATATATT
8024816 TTTAATATCA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
37 14 0.41
38 1 0.03
39 17 0.50
40 2 0.06
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (39 bp):
TATTATATATATTTTTAATACTATATTATGTATATATTA
Found at i:8024816 original size:23 final size:24
Alignment explanation
Indices: 8024743--8024816 Score: 73
Period size: 23 Copynumber: 3.1 Consensus size: 24
8024733 TGTGTATGTA
8024743 TTATATATATTTTTA-ATACTATA-
1 TTATATATATTTTTATATA-TATAT
* *
8024766 TTATGTATATATTATATTATATATAT
1 TTATATATAT-TTTTA-TATATATAT
*
8024792 TTAT-TATATTTTTATGTATATAT
1 TTATATATATTTTTATATATATAT
8024815 TT
1 TT
8024817 TTAATATCAC
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
23 19 0.44
24 8 0.19
25 9 0.21
26 7 0.16
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (24 bp):
TTATATATATTTTTATATATATAT
Found at i:8024993 original size:3 final size:3
Alignment explanation
Indices: 8024987--8025042 Score: 51
Period size: 3 Copynumber: 18.0 Consensus size: 3
8024977 TTTAGTCATA
* *
8024987 TAT TAT TAT CAT TAT TTT CTACGT TAT -AT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TA--T TAT TAT TAT TAT TAT TAT TAT TAT
*
8025034 TAT CAT TAT
1 TAT TAT TAT
8025043 CATTTTCATT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 2 0.05
3 37 0.86
4 1 0.02
5 2 0.05
6 1 0.02
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:8033401 original size:21 final size:21
Alignment explanation
Indices: 8033370--8033424 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
8033360 GAAGCTCGAA
* *
8033370 AGCTGAACAGAAACTCGT-ATG
1 AGCTAAACAGAAACTCATGA-G
* *
8033391 AGTTAAACAGAAGCTCATGAG
1 AGCTAAACAGAAACTCATGAG
8033412 AGCTAAACAGAAA
1 AGCTAAACAGAAA
8033425 GTAAAACACG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.16
Consensus pattern (21 bp):
AGCTAAACAGAAACTCATGAG
Found at i:8038111 original size:21 final size:20
Alignment explanation
Indices: 8038079--8038119 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
8038069 ATTATCATCA
8038079 CATTAAACAAGCAATAAAAC
1 CATTAAACAAGCAATAAAAC
* *
8038099 CATTCAAATAAGCAATCAAAC
1 CATT-AAACAAGCAATAAAAC
8038120 AAGCAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.56, C:0.22, G:0.05, T:0.17
Consensus pattern (20 bp):
CATTAAACAAGCAATAAAAC
Found at i:8038419 original size:30 final size:30
Alignment explanation
Indices: 8038383--8038441 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
8038373 GAGCTTGGGA
8038383 AAGCTCAGTGTGAACACATGCATACAACAG
1 AAGCTCAGTGTGAACACATGCATACAACAG
8038413 AAGCTCAGTGTGAACACATGCATACAACA
1 AAGCTCAGTGTGAACACATGCATACAACA
8038442 CAAGTAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.17
Consensus pattern (30 bp):
AAGCTCAGTGTGAACACATGCATACAACAG
Found at i:8043195 original size:104 final size:105
Alignment explanation
Indices: 8042975--8043207 Score: 287
Period size: 104 Copynumber: 2.2 Consensus size: 105
8042965 TATGCTATAG
* * *
8042975 AGCCCGGACACACACCCATGTCCTTACCCGTATGGCTCACACGGCCTGGGCACACGCCTATATCA
1 AGCCTGGACACACACCCATGTCCTTACCAGTATGGCTCACACGGCCTGGGCACACACCTATATCA
* *
8043040 TCTGCTCATTTGGTTCTAAACCATAAACAGTGAGTTACAC
66 CCTGCTCATGTGGTTCTAAACCATAAACAGTGAGTTACAC
* * *
8043080 -GACCTGG-CACACGCCCATGTCCTTACCAGTGTGGCTCACACGGCCTGGGCACACACCTATGTC
1 AG-CCTGGACACACACCCATGTCCTTACCAGTATGGCTCACACGGCCTGGGCACACACCTATATC
* * * *
8043143 -CCTGGC-CGTGTGTTTCTAAA-GAGTAGACAGTGAGTTACAC
65 ACCT-GCTCATGTGGTTCTAAACCA-TAAACAGTGAGTTACAC
*
8043183 AGCCTGGACACACACACATGTCCTT
1 AGCCTGGACACACACCCATGTCCTT
8043208 GTTCGTGTAG
Statistics
Matches: 109, Mismatches: 14, Indels: 11
0.81 0.10 0.08
Matches are distributed among these distances:
102 1 0.01
103 34 0.31
104 70 0.64
105 4 0.04
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (105 bp):
AGCCTGGACACACACCCATGTCCTTACCAGTATGGCTCACACGGCCTGGGCACACACCTATATCA
CCTGCTCATGTGGTTCTAAACCATAAACAGTGAGTTACAC
Found at i:8043286 original size:42 final size:42
Alignment explanation
Indices: 8043240--8043344 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
8043230 AGACATATGT
* *
8043240 CGATGTCCTTGCTCGTGTGGCTCACACGGCCTGGGCACACGC
1 CGATGTCCTTGCTCGTGTGGCTCACACAGCCTGGGCACACAC
* * * ** *
8043282 CGATGTCATTGCCCGTGTGGCTTACACAGTTTGGGCACATAC
1 CGATGTCCTTGCTCGTGTGGCTCACACAGCCTGGGCACACAC
* *
8043324 CCATGTCCTTGGTCGTGTGGC
1 CGATGTCCTTGCTCGTGTGGC
8043345 GTCGATAGTC
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.13, C:0.30, G:0.30, T:0.27
Consensus pattern (42 bp):
CGATGTCCTTGCTCGTGTGGCTCACACAGCCTGGGCACACAC
Found at i:8045454 original size:26 final size:25
Alignment explanation
Indices: 8045410--8045459 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
8045400 TTATTTAATT
8045410 TAATTATTATTTTTACTATTATTAAC
1 TAATTATTATTTTTACTATT-TTAAC
*
8045436 TAATT-TTATTTTATCCTATTTTAA
1 TAATTATTATTTT-TACTATTTTAA
8045460 TTCCTATGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (25 bp):
TAATTATTATTTTTACTATTTTAAC
Found at i:8048951 original size:34 final size:33
Alignment explanation
Indices: 8048908--8048974 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 33
8048898 TTAAAGCAGA
*
8048908 ATCCTCCATGGTAGGGAAAGAATGTTTAATATT
1 ATCCTCCATGGAAGGGAAAGAATGTTTAATATT
8048941 NATCCTCCATGGAAGGGAAAGAATGTTTAATATT
1 -ATCCTCCATGGAAGGGAAAGAATGTTTAATATT
8048975 TGGATCAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.31
Consensus pattern (33 bp):
ATCCTCCATGGAAGGGAAAGAATGTTTAATATT
Found at i:8050239 original size:12 final size:12
Alignment explanation
Indices: 8050222--8050252 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
8050212 AGAATGGCTA
8050222 GAGTTATTTTCT
1 GAGTTATTTTCT
8050234 GAGTTATTTTCT
1 GAGTTATTTTCT
8050246 GA-TTATT
1 GAGTTATT
8050253 CGATACAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.19, C:0.06, G:0.16, T:0.58
Consensus pattern (12 bp):
GAGTTATTTTCT
Found at i:8054156 original size:7 final size:7
Alignment explanation
Indices: 8054144--8054173 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
8054134 CTAAAGCTAC
8054144 CACTTAT
1 CACTTAT
8054151 CACTTAT
1 CACTTAT
8054158 CACTTAT
1 CACTTAT
*
8054165 CACTGAT
1 CACTTAT
8054172 CA
1 CA
8054174 GATAAGTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.30, C:0.30, G:0.03, T:0.37
Consensus pattern (7 bp):
CACTTAT
Found at i:8054160 original size:51 final size:51
Alignment explanation
Indices: 8054103--8054217 Score: 185
Period size: 51 Copynumber: 2.3 Consensus size: 51
8054093 CGGATCACAT
*
8054103 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* *
8054154 TTATCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* *
8054205 TTGTCACTGATCA
1 TTATCACTTATCA
8054218 GAAGTACTCA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (51 bp):
TTATCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:8055133 original size:116 final size:113
Alignment explanation
Indices: 8054999--8055226 Score: 411
Period size: 113 Copynumber: 2.0 Consensus size: 113
8054989 TTCTATTCAA
8054999 TTCTTTCAATAAAATCAGCATATAAACAATTTAAAACTCTAATTCCATGCTAAATCATCATATAC
1 TTCTTTCAATAAAATCAGCATATAAACAATTTAAAACTCTAATTCCATGCT-AA--ATCATATAC
*
8055064 TTCCAACACATATTCATAACAACTTCCAATTTCTTTTATAGAATCAAAAAC
63 TTCCAACACATATTCATAACAACTTCCAATTTCTTTCATAGAATCAAAAAC
8055115 TTCTTTCAATAAAATCAGCATATAAACAATTTAAAACTCTAATTCCATGCTAAATCATATACTTC
1 TTCTTTCAATAAAATCAGCATATAAACAATTTAAAACTCTAATTCCATGCTAAATCATATACTTC
*
8055180 CAACACATATTCATAGCAACTTCCAATTTCTTTCATAGAATCAAAAA
66 CAACACATATTCATAACAACTTCCAATTTCTTTCATAGAATCAAAAA
8055227 TTAATGAATT
Statistics
Matches: 110, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
113 57 0.52
115 2 0.02
116 51 0.46
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.33
Consensus pattern (113 bp):
TTCTTTCAATAAAATCAGCATATAAACAATTTAAAACTCTAATTCCATGCTAAATCATATACTTC
CAACACATATTCATAACAACTTCCAATTTCTTTCATAGAATCAAAAAC
Found at i:8055509 original size:59 final size:59
Alignment explanation
Indices: 8055432--8055551 Score: 197
Period size: 59 Copynumber: 2.0 Consensus size: 59
8055422 ATTAAGTAAA
*
8055432 TTTTACAATATTCCAATTTTACCCTTAATTCATCAATTT-TCCTGCTGGTTTCATGCACC
1 TTTTACAATATTCCAATTTTACCCTTAATTCATCAATTTCT-CTGCTGATTTCATGCACC
* *
8055491 TTTTGCAATATTCCAATTTTGCCCTTAATTCATCAATTTCTCTGCTGATTTCATGCACC
1 TTTTACAATATTCCAATTTTACCCTTAATTCATCAATTTCTCTGCTGATTTCATGCACC
8055550 TT
1 TT
8055552 GCCGTCCAGC
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 56 0.98
60 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.07, T:0.45
Consensus pattern (59 bp):
TTTTACAATATTCCAATTTTACCCTTAATTCATCAATTTCTCTGCTGATTTCATGCACC
Found at i:8063877 original size:23 final size:23
Alignment explanation
Indices: 8063828--8063880 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
8063818 TAATTTAAAT
* *
8063828 AAATACTCATATTTATATAATTG
1 AAATATTCATATTTATATAATTA
*
8063851 AAATATTCATATTT-TATATTATA
1 AAATATTCATATTTATATAAT-TA
8063874 AAATATT
1 AAATATT
8063881 TATTATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (23 bp):
AAATATTCATATTTATATAATTA
Found at i:8063886 original size:14 final size:14
Alignment explanation
Indices: 8063867--8063897 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8063857 TCATATTTTA
8063867 TATTATAAAATATT
1 TATTATAAAATATT
*
8063881 TATTATTAAATATT
1 TATTATAAAATATT
8063895 TAT
1 TAT
8063898 AAATTGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTATAAAATATT
Found at i:8064963 original size:23 final size:21
Alignment explanation
Indices: 8064932--8064974 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8064922 TATTATATGA
8064932 ATTAAAAAATCATAATATATAAT
1 ATTAAAAAA--ATAATATATAAT
*
8064955 ATTATAAAAATAATATATAA
1 ATTAAAAAAATAATATATAA
8064975 CCTACTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTAAAAAAATAATATATAAT
Found at i:8068136 original size:15 final size:15
Alignment explanation
Indices: 8068118--8068148 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8068108 TTAAATACTT
8068118 TTTTAAAATTTTATA
1 TTTTAAAATTTTATA
*
8068133 TTTTAGAATTTTATA
1 TTTTAAAATTTTATA
8068148 T
1 T
8068149 AAAGAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (15 bp):
TTTTAAAATTTTATA
Found at i:8068297 original size:20 final size:20
Alignment explanation
Indices: 8068268--8068343 Score: 61
Period size: 20 Copynumber: 4.0 Consensus size: 20
8068258 AATTTATGTT
*
8068268 TTTTAGATTTTATATATATA
1 TTTTAAATTTTATATATATA
8068288 TTTTAAATTTT-T-TATAT-
1 TTTTAAATTTTATATATATA
* * * *
8068305 GTTT-ATTTTTATTTTTATA
1 TTTTAAATTTTATATATATA
*
8068324 TTTTTAATTTGTATATATAT
1 TTTTAAATTT-TATATATAT
8068344 TTAATAAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
16 5 0.12
17 4 0.09
18 9 0.21
19 4 0.09
20 14 0.33
21 7 0.16
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTAAATTTTATATATATA
Found at i:8068298 original size:29 final size:27
Alignment explanation
Indices: 8068266--8068345 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 27
8068256 GTAATTTATG
8068266 TTTTTTAGATTTTATATATATATTTTAAA
1 TTTTTTA-ATTTTATATATAT-TTTTAAA
* * *
8068295 TTTTTTATATGTTTATTTTTATTTTTATA
1 TTTTTTA-AT-TTTATATATATTTTTAAA
8068324 -TTTTTAATTTGTATATATATTT
1 TTTTTTAATTT-TATATATATTT
8068346 AATAAAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.05
27 11 0.26
28 6 0.14
29 15 0.35
30 9 0.21
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (27 bp):
TTTTTTAATTTTATATATATTTTTAAA
Found at i:8075449 original size:22 final size:22
Alignment explanation
Indices: 8075421--8075490 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
8075411 TTAAACATAC
8075421 ATTAATAAAAATAATATTTTAA
1 ATTAATAAAAATAATATTTTAA
** ** *
8075443 ATTAAT-ATGATAA-A-CATAC
1 ATTAATAAAAATAATATTTTAA
8075462 ATTAATAAAAATAATATTTTAA
1 ATTAATAAAAATAATATTTTAA
8075484 ATTAATA
1 ATTAATA
8075491 TGATAAATAT
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
19 8 0.23
20 6 0.17
21 6 0.17
22 15 0.43
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (22 bp):
ATTAATAAAAATAATATTTTAA
Found at i:8075457 original size:41 final size:41
Alignment explanation
Indices: 8075412--8075497 Score: 172
Period size: 41 Copynumber: 2.1 Consensus size: 41
8075402 TTTCAACAGT
8075412 TAAACATACATTAATAAAAATAATATTTTAAATTAATATGA
1 TAAACATACATTAATAAAAATAATATTTTAAATTAATATGA
8075453 TAAACATACATTAATAAAAATAATATTTTAAATTAATATGA
1 TAAACATACATTAATAAAAATAATATTTTAAATTAATATGA
8075494 TAAA
1 TAAA
8075498 TATAACAGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (41 bp):
TAAACATACATTAATAAAAATAATATTTTAAATTAATATGA
Found at i:8075499 original size:22 final size:22
Alignment explanation
Indices: 8075433--8075500 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
8075423 TAATAAAAAT
8075433 AATATTTTAAATTAATATGATA
1 AATATTTTAAATTAATATGATA
* * * *
8075455 AACA---TACATTAATA-AAAA
1 AATATTTTAAATTAATATGATA
8075473 TAATATTTTAAATTAATATGATA
1 -AATATTTTAAATTAATATGATA
8075496 AATAT
1 AATAT
8075501 AACAGATTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 10
0.65 0.16 0.20
Matches are distributed among these distances:
18 2 0.06
19 12 0.36
22 17 0.52
23 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (22 bp):
AATATTTTAAATTAATATGATA
Found at i:8081367 original size:9 final size:9
Alignment explanation
Indices: 8081350--8081386 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
8081340 TGAATATCAC
8081350 AATTCGAAT
1 AATTCGAAT
*
8081359 AACTCGAAT
1 AATTCGAAT
*
8081368 AATTTGAAT
1 AATTCGAAT
8081377 AATTCGAAT
1 AATTCGAAT
8081386 A
1 A
8081387 GCAGATTGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:8081480 original size:10 final size:10
Alignment explanation
Indices: 8081452--8081503 Score: 54
Period size: 10 Copynumber: 5.1 Consensus size: 10
8081442 AGTCACTCTC
8081452 TCAACAAAAAT
1 TCAA-AAAAAT
8081463 TACAAAAAAAAT
1 T-C-AAAAAAAT
8081475 TCAAAAAAAT
1 TCAAAAAAAT
8081485 TC--AAAAAT
1 TCAAAAAAAT
*
8081493 TCAAAATAAT
1 TCAAAAAAAT
8081503 T
1 T
8081504 TTTAAAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
8 8 0.22
10 16 0.44
11 2 0.06
12 8 0.22
13 2 0.06
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (10 bp):
TCAAAAAAAT
Found at i:8081510 original size:19 final size:19
Alignment explanation
Indices: 8081470--8081528 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 19
8081460 AATTACAAAA
* *
8081470 AAAATTCAAAAAAATTCA-
1 AAAATTCAAAATAATTTAT
*
8081488 AAAATTCAAAATAATTTTT
1 AAAATTCAAAATAATTTAT
*
8081507 AAAATTAAAAAT-ATTTAT
1 AAAATTCAAAATAATTTAT
8081525 AAAA
1 AAAA
8081529 ATTTTAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 24 0.69
19 11 0.31
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATTCAAAATAATTTAT
Found at i:8081529 original size:19 final size:19
Alignment explanation
Indices: 8081469--8081531 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
8081459 AAATTACAAA
*
8081469 AAAAATTCAAAAA-AA-TTC
1 AAAAATT-AAAAATAATTTT
*
8081487 AAAAATTCAAAATAATTTT
1 AAAAATTAAAAATAATTTT
*
8081506 TAAAATTAAAAAT-ATTTAT
1 AAAAATTAAAAATAATTT-T
8081525 AAAAATT
1 AAAAATT
8081532 TTAAAATTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
17 4 0.11
18 13 0.35
19 20 0.54
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATTAAAAATAATTTT
Found at i:8081576 original size:21 final size:21
Alignment explanation
Indices: 8081543--8081585 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8081533 TAAAATTTAT
* *
8081543 AGTTTTTAGAAAATTATAAAA
1 AGTTTCTAAAAAATTATAAAA
*
8081564 AGTTTCTAAAAAATTCTAAAA
1 AGTTTCTAAAAAATTATAAAA
8081585 A
1 A
8081586 ACATATAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (21 bp):
AGTTTCTAAAAAATTATAAAA
Found at i:8082398 original size:17 final size:17
Alignment explanation
Indices: 8082363--8082397 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
8082353 CATTATTGTA
8082363 CCATGCACTAACACCCC
1 CCATGCACTAACACCCC
8082380 CCATGCACTAAC-CCCC
1 CCATGCACTAACACCCC
8082396 CC
1 CC
8082398 CCCCCTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.26, C:0.57, G:0.06, T:0.11
Consensus pattern (17 bp):
CCATGCACTAACACCCC
Found at i:8107183 original size:31 final size:29
Alignment explanation
Indices: 8107118--8107192 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 29
8107108 ATAACGTTTC
* *
8107118 AAATAAATAGAATATATATAAAAATTAGA
1 AAATAAATAGAATATATAGAAAAATTAAA
*
8107147 CAATAAATA-AATAATAATAGAAACAATTAAA
1 AAATAAATAGAAT-AT-ATAGAAA-AATTAAA
*
8107178 AAATAAATAGTATAT
1 AAATAAATAGAATAT
8107193 TTAAAATAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
28 3 0.08
29 10 0.27
30 6 0.16
31 16 0.43
32 2 0.05
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (29 bp):
AAATAAATAGAATATATAGAAAAATTAAA
Found at i:8107851 original size:82 final size:82
Alignment explanation
Indices: 8107714--8107877 Score: 310
Period size: 82 Copynumber: 2.0 Consensus size: 82
8107704 AACCGGGTCG
*
8107714 GGTCTTTGGGTCAAACGCGAAACGACGTCGTTTTGGCTATCGTCACTTAAGCCCAAAACGACGCC
1 GGTCTTTGGGTCAAAAGCGAAACGACGTCGTTTTGGCTATCGTCACTTAAGCCCAAAACGACGCC
8107779 GTATAGATACCCATATA
66 GTATAGATACCCATATA
*
8107796 GGTCTTTGGGTCAAAAGCGAAACGACGTCGTTTTGGCTATCGTTACTTAAGCCCAAAACGACGCC
1 GGTCTTTGGGTCAAAAGCGAAACGACGTCGTTTTGGCTATCGTCACTTAAGCCCAAAACGACGCC
8107861 GTATAGATACCCATATA
66 GTATAGATACCCATATA
8107878 AATAGCCTAA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (82 bp):
GGTCTTTGGGTCAAAAGCGAAACGACGTCGTTTTGGCTATCGTCACTTAAGCCCAAAACGACGCC
GTATAGATACCCATATA
Found at i:8110459 original size:15 final size:16
Alignment explanation
Indices: 8110433--8110462 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8110423 TACCCAACAG
8110433 ATTTATATATAATAAC
1 ATTTATATATAATAAC
8110449 ATTTA-ATATAATAA
1 ATTTATATATAATAA
8110463 TTGGAAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTTATATATAATAAC
Found at i:8117832 original size:30 final size:31
Alignment explanation
Indices: 8117769--8117835 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 31
8117759 GAGTGCAGTT
*
8117769 GTGTGGGCCACACGGGCTAGGCCAAGTTGGGC
1 GTGTGGGCCACACAGGCTAGGCCAAG-TGGGC
*
8117801 GTGTGGGCCACACAGGC-ATGCCACA-TGGGC
1 GTGTGGGCCACACAGGCTAGGCCA-AGTGGGC
8117831 GTGTG
1 GTGTG
8117836 AGTTTTAGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 10 0.31
31 5 0.16
32 17 0.53
ACGTcount: A:0.16, C:0.25, G:0.42, T:0.16
Consensus pattern (31 bp):
GTGTGGGCCACACAGGCTAGGCCAAGTGGGC
Found at i:8125784 original size:46 final size:46
Alignment explanation
Indices: 8125693--8125784 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
8125683 TCATTGACTT
* * *
8125693 AAAAATTAGCAATTCAACTATCTATATATAAAGAATTAGCAAAAAA
1 AAAAATGAGCAATTCAACAATCTATATATAAAAAATTAGCAAAAAA
8125739 AAAAATGAGCAATTCAACAA-CT-TATAAGTAAAAAAATTAGCAAAAA
1 AAAAATGAGCAATTCAACAATCTATAT-A-T-AAAAAATTAGCAAAAA
8125785 GCATCGATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
44 3 0.08
45 3 0.08
46 19 0.47
47 15 0.38
ACGTcount: A:0.59, C:0.11, G:0.08, T:0.23
Consensus pattern (46 bp):
AAAAATGAGCAATTCAACAATCTATATATAAAAAATTAGCAAAAAA
Found at i:8130076 original size:31 final size:31
Alignment explanation
Indices: 8130030--8130095 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
8130020 TTTTTTAGCT
* * * *
8130030 AAATTTGACCCTCAACCTTTTAAAAAG-GATC
1 AAATTTAACCATCAACATTTCAAAAAGAG-TC
8130061 AAATTTAACCATCAACATTTCAAAAAGAGTC
1 AAATTTAACCATCAACATTTCAAAAAGAGTC
8130092 AAAT
1 AAAT
8130096 GGTTGGCCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.27
Consensus pattern (31 bp):
AAATTTAACCATCAACATTTCAAAAAGAGTC
Found at i:8130736 original size:55 final size:54
Alignment explanation
Indices: 8130636--8130739 Score: 145
Period size: 55 Copynumber: 1.9 Consensus size: 54
8130626 AACAATGTCA
* * * * *
8130636 TCTTTAAAGTTTTGAACTCGAAGATTTTCTTTTAAAAGTGCAATGTAAAAATTG
1 TCTTCAAAGTTTTGAACTCGAAAATCTCCTTTTAAAAGTGAAATGTAAAAATTG
*
8130690 TCTTCAAAGTTTTGAACTCAGAAAATCTCCTTTTTAAAGTGAAATGTAAA
1 TCTTCAAAGTTTTGAACTC-GAAAATCTCCTTTTAAAAGTGAAATGTAAA
8130740 TTATGTAAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
54 18 0.42
55 25 0.58
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (54 bp):
TCTTCAAAGTTTTGAACTCGAAAATCTCCTTTTAAAAGTGAAATGTAAAAATTG
Found at i:8132313 original size:15 final size:15
Alignment explanation
Indices: 8132295--8132344 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
8132285 GAGTTGTGTC
8132295 ATTTCAGATTTGATT
1 ATTTCAGATTTGATT
8132310 ATTTTC-GATTTGATTT
1 A-TTTCAGATTTGA-TT
* *
8132326 ATTCCAAATTTGATT
1 ATTTCAGATTTGATT
8132341 ATTT
1 ATTT
8132345 TGGGTTTGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 16 0.55
16 13 0.45
ACGTcount: A:0.26, C:0.08, G:0.10, T:0.56
Consensus pattern (15 bp):
ATTTCAGATTTGATT
Found at i:8132317 original size:31 final size:31
Alignment explanation
Indices: 8132280--8132345 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
8132270 TCATTTAAAT
* *
8132280 TTTTCGAGTTG-TGTCATTTCAGATTTGATTA
1 TTTTCGAGTTGAT-TCATTCCAAATTTGATTA
* *
8132311 TTTTCGATTTGATTTATTCCAAATTTGATTA
1 TTTTCGAGTTGATTCATTCCAAATTTGATTA
8132342 TTTT
1 TTTT
8132346 GGGTTTGGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.21, C:0.09, G:0.14, T:0.56
Consensus pattern (31 bp):
TTTTCGAGTTGATTCATTCCAAATTTGATTA
Found at i:8132327 original size:16 final size:16
Alignment explanation
Indices: 8132296--8132345 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
8132286 AGTTGTGTCA
8132296 TTTCAGATTTGATTAT
1 TTTCAGATTTGATTAT
8132312 TTTC-GATTTGATT-T
1 TTTCAGATTTGATTAT
* *
8132326 ATTCCAAATTTGATTAT
1 -TTTCAGATTTGATTAT
8132343 TTT
1 TTT
8132346 GGGTTTGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 1 0.04
15 12 0.43
16 14 0.50
17 1 0.04
ACGTcount: A:0.24, C:0.08, G:0.10, T:0.58
Consensus pattern (16 bp):
TTTCAGATTTGATTAT
Found at i:8142470 original size:22 final size:22
Alignment explanation
Indices: 8142445--8142487 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8142435 ACTTTATTAT
* *
8142445 TATTATTTTGCTACCATTTTAC
1 TATTATATTACTACCATTTTAC
*
8142467 TATTATATTACTACTATTTTA
1 TATTATATTACTACCATTTTA
8142488 TTGTTGTTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.14, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTATATTACTACCATTTTAC
Found at i:8143807 original size:15 final size:14
Alignment explanation
Indices: 8143787--8143873 Score: 62
Period size: 15 Copynumber: 6.4 Consensus size: 14
8143777 TTTTTAAAAA
8143787 TATTTTATATTATAT
1 TATTTTATATTA-AT
8143802 TATTTTAATATTAAT
1 TATTTT-ATATTAAT
* *
8143817 AATTTTAT-TT-TT
1 TATTTTATATTAAT
*
8143829 TA-TTTAT-TAAAT
1 TATTTTATATTAAT
8143841 T-TTTTATA-TAAT
1 TATTTTATATTAAT
8143853 TATCTTTAATATT-AT
1 TAT-TTT-ATATTAAT
8143868 TATTTT
1 TATTTT
8143874 GTTAATACAT
Statistics
Matches: 58, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
11 6 0.10
12 13 0.22
13 3 0.05
14 8 0.14
15 21 0.36
16 7 0.12
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTTTATATTAAT
Found at i:8143822 original size:52 final size:50
Alignment explanation
Indices: 8143759--8143898 Score: 115
Period size: 52 Copynumber: 2.7 Consensus size: 50
8143749 AAAGATGCCC
8143759 ATATT-AT-ATTTTAAATATTTTTTAAAAATATTTTATATTATATTAT-TTTA
1 ATATTAATAATTTT-AATATTTTTTAAAAATATTTTATA-TA-ATTATCTTTA
* * * *
8143809 ATATTAATAATTTTATTTTTTATTTATTAAATTTTTTATATAATTATCTTTA
1 ATATTAATAATTTTAATATTT-TTTA-AAAATATTTTATATAATTATCTTTA
* * ** *
8143861 ATATTATTATTTTGTTAATACATTTTAAAATTATTTTA
1 ATATTAATA-ATT-TTAATATTTTTTAAAAATATTTTA
8143899 AAGTTTATAT
Statistics
Matches: 70, Mismatches: 13, Indels: 12
0.74 0.14 0.13
Matches are distributed among these distances:
50 5 0.07
51 12 0.17
52 31 0.44
53 17 0.24
54 5 0.07
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (50 bp):
ATATTAATAATTTTAATATTTTTTAAAAATATTTTATATAATTATCTTTA
Found at i:8148489 original size:16 final size:17
Alignment explanation
Indices: 8148439--8148491 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 17
8148429 AAGAATAACG
8148439 AAAAATAATAGTAATATT
1 AAAAATAATAGT-ATATT
8148457 AAAGAACTACTATAGTATA-T
1 AAA-AA-TA--ATAGTATATT
8148477 AAAAATAATAGTATA
1 AAAAATAATAGTATA
8148492 ATAATATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
16 8 0.26
18 5 0.16
19 4 0.13
20 6 0.19
21 3 0.10
22 5 0.16
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (17 bp):
AAAAATAATAGTATATT
Found at i:8152118 original size:72 final size:72
Alignment explanation
Indices: 8152035--8152178 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
8152025 GATATAAAGT
8152035 AGAATTTTAAAAACTTATTAGTGTTGCATGTTTTAACTTAAAATCATTTTATAATTTTTATATAT
1 AGAATTTTAAAAACTTATTAGTGTTGCATGTTTTAACTTAAAATCATTTTATAATTTTTATATAT
8152100 TTTATAA
66 TTTATAA
8152107 AGAATTTTAAAAACTTATTAGTGTTGCATGTTTTAACTTAAAATCATTTTATAATTTTTATATAT
1 AGAATTTTAAAAACTTATTAGTGTTGCATGTTTTAACTTAAAATCATTTTATAATTTTTATATAT
8152172 TTTATAA
66 TTTATAA
8152179 TTCAATATTT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.50
Consensus pattern (72 bp):
AGAATTTTAAAAACTTATTAGTGTTGCATGTTTTAACTTAAAATCATTTTATAATTTTTATATAT
TTTATAA
Found at i:8152241 original size:44 final size:44
Alignment explanation
Indices: 8152152--8152241 Score: 105
Period size: 44 Copynumber: 2.0 Consensus size: 44
8152142 ACTTAAAATC
* *
8152152 ATTTTATAATTTTTATATATTTTATAATTCAATATTTTTATATA
1 ATTTTATAATTTTTATATATTTTATAATTCAATATATGTATATA
*
8152196 ATTTATATAATTTTCT-TGTATTTT-TAATTCAATATCATGTA-ATA
1 ATTT-TATAATTTT-TATATATTTTATAATTCAATAT-ATGTATATA
8152240 AT
1 AT
8152242 ATTTTTAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
44 20 0.50
45 19 0.47
46 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (44 bp):
ATTTTATAATTTTTATATATTTTATAATTCAATATATGTATATA
Found at i:8158467 original size:15 final size:15
Alignment explanation
Indices: 8158447--8158476 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8158437 TCGGGAGTCC
8158447 ATTTTCCAAGGTACT
1 ATTTTCCAAGGTACT
8158462 ATTTTCCAAGGTACT
1 ATTTTCCAAGGTACT
8158477 GTTTAGACGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (15 bp):
ATTTTCCAAGGTACT
Found at i:8159679 original size:20 final size:20
Alignment explanation
Indices: 8159650--8159688 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
8159640 AATACATTAC
*
8159650 ACACGTCCGTGTGCTTTGGG
1 ACACGCCCGTGTGCTTTGGG
8159670 ACACGCCCGTGTGCTTTGG
1 ACACGCCCGTGTGCTTTGG
8159689 TCCTCTACCC
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:0.10, C:0.28, G:0.33, T:0.28
Consensus pattern (20 bp):
ACACGCCCGTGTGCTTTGGG
Found at i:8166118 original size:27 final size:27
Alignment explanation
Indices: 8166021--8166125 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
8166011 AGGAAGCATC
*
8166021 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
8166048 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
8166075 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
8166102 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
8166126 GTAGCCTCAC
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 9 0.13
27 61 0.86
28 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:8169092 original size:9 final size:9
Alignment explanation
Indices: 8169078--8169106 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
8169068 TGCAAATTAG
8169078 AAAGAAAGA
1 AAAGAAAGA
8169087 AAAGAAAGA
1 AAAGAAAGA
8169096 AAA-AAAGA
1 AAAGAAAGA
8169104 AAA
1 AAA
8169107 AAGGAGACGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAGAAAGA
Found at i:8170243 original size:18 final size:19
Alignment explanation
Indices: 8170217--8170265 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
8170207 AGTTGTCAAG
8170217 GATGAGAAATG-AATATGA
1 GATGAGAAATGAAATATGA
*
8170235 GATGGGAAATGAAATATGA
1 GATGAGAAATGAAATATGA
*
8170254 AATGATGAAATG
1 GATGA-GAAATG
8170266 GGATATGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 10 0.38
19 10 0.38
20 6 0.23
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (19 bp):
GATGAGAAATGAAATATGA
Found at i:8181763 original size:55 final size:55
Alignment explanation
Indices: 8181678--8181803 Score: 135
Period size: 55 Copynumber: 2.3 Consensus size: 55
8181668 CTATATGCGT
* * * * * * *
8181678 ACGCCTGTGTTATTTTGACAGTTTCGACCACGGGTGGTGGGCACGGGCGTGTTGC
1 ACGCCCGTGTTAATTTCACAGTTTCAACCACGGGTGATAGGCACGGGCGTGTCGC
* * * * *
8181733 ACGCCCGTGTTAATTTCTCAGTTTCAACCACTGTTTATAGGCATGGGCGTGTCGC
1 ACGCCCGTGTTAATTTCACAGTTTCAACCACGGGTGATAGGCACGGGCGTGTCGC
*
8181788 ACGCCCGTGTTGATTT
1 ACGCCCGTGTTAATTT
8181804 GGCAGGATTG
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.15, C:0.24, G:0.29, T:0.32
Consensus pattern (55 bp):
ACGCCCGTGTTAATTTCACAGTTTCAACCACGGGTGATAGGCACGGGCGTGTCGC
Found at i:8193696 original size:41 final size:41
Alignment explanation
Indices: 8193636--8193719 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
8193626 GTCAAATTGA
* *
8193636 AAAAAAGAAAAGAAAATAATTCAATTTCAAATAGAAATAGG
1 AAAAAAGAAAAGAAAATAATCCAATTCCAAATAGAAATAGG
* * * * *
8193677 AAAAGAGAAGAGAGAATAATCCAATTCCAAATTGAAGTAGG
1 AAAAAAGAAAAGAAAATAATCCAATTCCAAATAGAAATAGG
8193718 AA
1 AA
8193720 TACAAAATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.58, C:0.07, G:0.17, T:0.18
Consensus pattern (41 bp):
AAAAAAGAAAAGAAAATAATCCAATTCCAAATAGAAATAGG
Found at i:8194295 original size:32 final size:32
Alignment explanation
Indices: 8194254--8194316 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
8194244 ATATAAAATT
*
8194254 GTTTGTTAATTCATATCAGAATGAGCCTGCTG
1 GTTTGTTAATTCATATCAGAATAAGCCTGCTG
*
8194286 GTTTGTTAATTCATATTAGAATAAGCCTGCT
1 GTTTGTTAATTCATATCAGAATAAGCCTGCT
8194317 AGTATGGAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (32 bp):
GTTTGTTAATTCATATCAGAATAAGCCTGCTG
Found at i:8199525 original size:30 final size:30
Alignment explanation
Indices: 8199467--8199527 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
8199457 TTCCTGAGCC
*
8199467 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATACAAAAGTT
* *
8199497 TAGGGGCAAAA-TGATAATTTTACCAAAGTT
1 TAGGGGCAAAAGTG-TAATTATACAAAAGTT
8199527 T
1 T
8199528 GTATTAAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATACAAAAGTT
Found at i:8200235 original size:49 final size:49
Alignment explanation
Indices: 8200176--8200363 Score: 250
Period size: 49 Copynumber: 3.8 Consensus size: 49
8200166 TGAGGTCACG
* ** *
8200176 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGATCGCA
* * * *
8200225 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT-GATCGCA
* *
8200276 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGATCGCA
* *
8200325 TGTGTAGTACTAAGTACAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
8200364 GCTTTGGCTA
Statistics
Matches: 120, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 75 0.62
50 4 0.03
51 41 0.34
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGATCGCA
Found at i:8200345 original size:100 final size:100
Alignment explanation
Indices: 8200171--8200363 Score: 332
Period size: 100 Copynumber: 1.9 Consensus size: 100
8200161 TATTGTGAGG
** *
8200171 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGATCGCATGTGTAGTACT
* *
8200236 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTACAGGCTACTATGCGTACCAGATAACTTCGA
*
8200271 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGATCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGATCGCATGTGTAGTACT
8200336 AAGTACAGGCTACTATGCGTACCAGATA
66 AAGTACAGGCTACTATGCGTACCAGATA
8200364 GCTTTGGCTA
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGATCGCATGTGTAGTACT
AAGTACAGGCTACTATGCGTACCAGATAACTTCGA
Found at i:8203327 original size:50 final size:50
Alignment explanation
Indices: 8203247--8203343 Score: 133
Period size: 50 Copynumber: 1.9 Consensus size: 50
8203237 GAAACGACTG
*
8203247 AGTGAGTATGAGACTGTCGCTCTGAAAAAGGAGTACAGTGCATTCCTATA
1 AGTGAGTATGAGACTATCGCTCTGAAAAAGGAGTACAGTGCATTCCTATA
* * **
8203297 AGTGAGTATGAGACTATCGC-CTTGACAAAGGGGTGGAGTGCATTCCT
1 AGTGAGTATGAGACTATCGCTC-TGAAAAAGGAGTACAGTGCATTCCT
8203344 GCAGAACAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
49 1 0.02
50 40 0.98
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (50 bp):
AGTGAGTATGAGACTATCGCTCTGAAAAAGGAGTACAGTGCATTCCTATA
Found at i:8203648 original size:68 final size:68
Alignment explanation
Indices: 8203539--8203674 Score: 220
Period size: 68 Copynumber: 2.0 Consensus size: 68
8203529 CGGATCGATC
*
8203539 TTTAGCATACCCTGAAGAAAAGATCGAGAATGTTTTGGTAAGAGTCGATAAATTTATTTTTCCTG
1 TTTAGCATACCCTGAAGAAAAGATCGAGAATGTTTTGGTAAGAGTCGATAAATTTATCTTTCCTG
8203604 CTG
66 CTG
* * *
8203607 TTTAGCATACCCTGAAGGAAAGATTGA-AGATGTTTTGGTAAGAGTTGATAAATTTATCTTTCCT
1 TTTAGCATACCCTGAAGAAAAGATCGAGA-ATGTTTTGGTAAGAGTCGATAAATTTATCTTTCCT
8203671 GCTG
65 GCTG
8203675 ATTTCATTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
67 1 0.02
68 62 0.98
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.36
Consensus pattern (68 bp):
TTTAGCATACCCTGAAGAAAAGATCGAGAATGTTTTGGTAAGAGTCGATAAATTTATCTTTCCTG
CTG
Found at i:8204583 original size:19 final size:19
Alignment explanation
Indices: 8204548--8204585 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
8204538 AAATAAAACA
*
8204548 AATAATAATATATATATAG
1 AATAATAATATAAATATAG
8204567 AATAAT-ATAATAAATATAG
1 AATAATAAT-ATAAATATAG
8204586 GACTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
AATAATAATATAAATATAG
Found at i:8206712 original size:83 final size:83
Alignment explanation
Indices: 8206042--8206696 Score: 1121
Period size: 83 Copynumber: 7.9 Consensus size: 83
8206032 CGATTTAAAT
* * * *
8206042 CATCTTAAGTCTGTTTGAGATCATTTGAGAGTCATATCTGCAAGGTCCTCGACTTGTTCCTTGTA
1 CATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTA
8206107 AGCACAAGGATGCCAAAC
66 AGCACAAGGATGCCAAAC
* * *
8206125 CATCTTGAGTCTGTTTGAAAACATTTGAGAGTCATATCTGCAAGGTCCTCGACTTGTTCCTTGTA
1 CATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTA
*
8206190 AGCACAAGGATGCTTAAAC
66 AGCACAAGGATGC-CAAAC
* *
8206209 TATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGATTTGTTCCTTGTA
1 CATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTA
*
8206274 GGCACAAGGATGCCAAAC
66 AGCACAAGGATGCCAAAC
* * *
8206292 CATCTTGAGTCTGTTTGAAAACATTTGAGAGTCATATCTGCAAGGTCCTCGACTTGTTCCTTGTA
1 CATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTA
8206357 AGCACAAGGATGCCAAAC
66 AGCACAAGGATGCCAAAC
8206375 CATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTA
1 CATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTA
8206440 AGCACAAGGATGCCAAAC
66 AGCACAAGGATGCCAAAC
* *
8206458 CACCTTAAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTA
1 CATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTA
8206523 AGCACAAGGATGCCAAAC
66 AGCACAAGGATGCCAAAC
* *
8206541 CACCTTAAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTA
1 CATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTA
8206606 AGCACAAGGATGCCAAAC
66 AGCACAAGGATGCCAAAC
*
8206624 CATCTTGAGTCTGTTTGAGAACGTTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTA
1 CATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTA
*
8206689 AACACAAG
66 AGCACAAG
8206697 AACACCAAAT
Statistics
Matches: 545, Mismatches: 26, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
83 469 0.86
84 76 0.14
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (83 bp):
CATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTA
AGCACAAGGATGCCAAAC
Found at i:8206848 original size:119 final size:119
Alignment explanation
Indices: 8206637--8207193 Score: 939
Period size: 119 Copynumber: 4.7 Consensus size: 119
8206627 CTTGAGTCTG
* * * *
8206637 TTTGAGAACGTTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAACAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
8206702 CAAATCATCTTAGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * *
8206756 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTATAAACACAAGAACAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
8206821 CAAATCATCTTGGATCTGCTTCAGTATAAACGTCTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
8206875 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
8206940 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
8206994 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
8207059 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
8207113 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGA-------CTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
8207171 CCAATCATCTTGGATCTGCTTCA
66 CAAATCATCTTGGATCTGCTTCA
8207194 ACATAAATGT
Statistics
Matches: 422, Mismatches: 16, Indels: 7
0.95 0.04 0.02
Matches are distributed among these distances:
112 41 0.10
119 381 0.90
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:8219298 original size:46 final size:41
Alignment explanation
Indices: 8219207--8219300 Score: 98
Period size: 46 Copynumber: 2.2 Consensus size: 41
8219197 CATAACATTT
* *
8219207 ATATAAAAAAAGTAATATAAAAATGAAACATAATAAAGATT
1 ATATAAAAAAAGTAATATAAAAATGAAAAATAATAAAGATA
* * *
8219248 ATATAATAAAATGTAATATAAACATATAAGAAAAATAATAGATATA
1 ATATAA-AAAAAGTAATATAAA-A-AT--GAAAAATAATAAAGATA
8219294 ATATAAA
1 ATATAAA
8219301 GTAACACATA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
41 6 0.14
42 14 0.33
43 1 0.02
44 2 0.05
45 1 0.02
46 19 0.44
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (41 bp):
ATATAAAAAAAGTAATATAAAAATGAAAAATAATAAAGATA
Found at i:8219465 original size:16 final size:17
Alignment explanation
Indices: 8219434--8219467 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8219424 TATATAATTA
8219434 AAAATAATACTTATAAT
1 AAAATAATACTTATAAT
*
8219451 AAAATAAT-TTTATAAT
1 AAAATAATACTTATAAT
8219467 A
1 A
8219468 TATAATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATAATACTTATAAT
Found at i:8235066 original size:22 final size:21
Alignment explanation
Indices: 8235036--8235082 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
8235026 TACAAATTAA
8235036 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
8235058 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
8235079 ATCT
1 ATCT
8235083 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:8235076 original size:16 final size:16
Alignment explanation
Indices: 8235055--8235105 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
8235045 ATTACAAGAT
8235055 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
8235071 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
8235090 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
8235106 ATATTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:8235088 original size:19 final size:21
Alignment explanation
Indices: 8235053--8235095 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
8235043 AGATTACAAG
8235053 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
8235074 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
8235093 ATC
1 ATC
8235096 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:8235502 original size:45 final size:44
Alignment explanation
Indices: 8235446--8235530 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
8235436 CGATATCTGC
*
8235446 TATCTTTGATCTACTCCCCGTCTAATACAGAGACGCCAAATTTGT
1 TATCTTCGATCTACTCCCCGTC-AATACAGAGACGCCAAATTTGT
* ** * *
8235491 TATCTTCGATCTATTTTCTGTCAATACAGAGATGCCAAAT
1 TATCTTCGATCTACTCCCCGTCAATACAGAGACGCCAAAT
8235531 CATCTTAGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 17 0.50
45 17 0.50
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (44 bp):
TATCTTCGATCTACTCCCCGTCAATACAGAGACGCCAAATTTGT
Found at i:8235861 original size:175 final size:175
Alignment explanation
Indices: 8235561--8236318 Score: 1196
Period size: 175 Copynumber: 4.3 Consensus size: 175
8235551 GTAAACAGGT
* * * * *
8235561 GAAAGCCAAATCTGCTATGTCTTTGATTT-TCTCCTTGTGAACACAAGGATGCCAAATAATCTTG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGT-TCCTTGTAAACACAAGAATGCCAAATCATCTTG
* * *
8235625 GATCTGCTTCAGTA-AAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
65 GATCTGCTTCAGTATAAA-CATCTGAAGGTTAGACCTGCTATGTACCTACTCTCCGTCGAAATGG
* * *
8235689 AGATGCCAGATCTGTTATCTTGGATCTGCTTTGGTATAAGAACATCC
129 AGATGCCAGATCTGTTATCTTGGATCTACTTTGGTGTGAGAACATCC
* * *
8235736 GAAAGTCAAATCTTCTACGTCTTCGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
*
8235801 ATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTACTCTCCATCGAAATGGAG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTACTCTCCGTCGAAATGGAG
* *
8235866 ATGGCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTACTTTGGTGTGAGAACATCC
* * *
8235911 GAAAGTCAAATCTGCTATGTCATCAATTTGTTCCTTGTAAACACAAGAATGCCAAATCATATTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
*
8235976 ATCTGCTTCAGTATAAACATCTGAAGGTTAGACTTGCTATGTACCTACTCTCCGTCGAAATGGAG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTACTCTCCGTCGAAATGGAG
*
8236041 ATGCCAGATCTGTTATCTTGGATCTACTTTAGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTACTTTGGTGTGAGAACATCC
* * *
8236086 GAAAATCAAATCTGTTATGTCTTCGATTTGTTCCTTGTAAACACCAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
*
8236151 ATCTGCTTCAGTATAAACATCTGAAGGTTAGACTTGCTATGTACCTACTCTCCGTCGAAATGGAG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTACTCTCCGTCGAAATGGAG
8236216 ATGCCAGATCTGTTATCTTGGATCTACTTTGGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTACTTTGGTGTGAGAACATCC
* * * * * *
8236261 GAAAATCAGATCTGCTATGTCTTCAATTTGTTCCCTGTAAACACAGGGATGCCAAATC
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATC
8236319 TGCTATCTTC
Statistics
Matches: 541, Mismatches: 40, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
175 537 0.99
176 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (175 bp):
GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTACTCTCCGTCGAAATGGAG
ATGCCAGATCTGTTATCTTGGATCTACTTTGGTGTGAGAACATCC
Found at i:8236336 original size:44 final size:44
Alignment explanation
Indices: 8236270--8236540 Score: 183
Period size: 44 Copynumber: 6.1 Consensus size: 44
8236260 CGAAAATCAG
* *
8236270 ATCTGCTATGTCTTCAATTTGTTCCCTGTAAACACAGGGATGCCAA
1 ATCTGCTA--TCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
*
8236316 ATCTGCTATCTTCAA-CTTGTTCCCTATAAACACAGGGATGCCAT
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAACACAGGGATGCCAA
* *** ** * * * * * * *
8236360 GT-TAAAATCTTTGATCTGTTTCGCTGTAAGCACATGAATGTCAG
1 ATCTGCTATCTTCAATCTG-TTCCCTATAAACACAGGGATGCCAA
*
8236404 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
** * ** * * * *
8236446 ATGCTGAAATCTTCGATCTGCTTCGATGTAAGCACA-GGAGTGTCAG
1 AT-CTGCTATCTTCAATCTG-TTCCCTATAAACACAGGGA-TGCCAA
* *
8236492 ATCTGCTATCTTCGATCTATTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCAATCT-GTTCCCTATAAACACAGGGATGCCAA
8236537 ATCT
1 ATCT
8236541 TGTTTTTTTT
Statistics
Matches: 171, Mismatches: 43, Indels: 23
0.72 0.18 0.10
Matches are distributed among these distances:
42 2 0.01
43 27 0.16
44 84 0.49
45 45 0.26
46 13 0.08
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (44 bp):
ATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:8236444 original size:88 final size:88
Alignment explanation
Indices: 8236296--8236535 Score: 338
Period size: 88 Copynumber: 2.7 Consensus size: 88
8236286 ATTTGTTCCC
* * * * *
8236296 TGTAAACACAGGGATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGCCAT
1 TGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGGATGCCAT
* * * *
8236360 GTTAAAATCTTTGATCTGTTTCGC
65 GCTAAAATCTTCGATCTGCTTCGA
*
8236384 TGTAAGCACATGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCATG
1 TGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCATG
*
8236449 CTGAAATCTTCGATCTGCTTCGA
66 CTAAAATCTTCGATCTGCTTCGA
* *
8236472 TGTAAGCACAGGAGTGTCAGATCTGCTATCTTCGATCTATTTCCCTATAAACACAGGGATGCCA
1 TGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCT-GTTCCCTATAAACACAGGGATGCCA
8236536 AATCTTGTTT
Statistics
Matches: 136, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
88 110 0.81
89 26 0.19
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (88 bp):
TGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCATG
CTAAAATCTTCGATCTGCTTCGA
Found at i:8242957 original size:17 final size:17
Alignment explanation
Indices: 8242935--8242968 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8242925 CAAGATTGCA
8242935 TATCATATCTAAGATTG
1 TATCATATCTAAGATTG
8242952 TATCATATCTAAGATTG
1 TATCATATCTAAGATTG
8242969 CATAACCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
TATCATATCTAAGATTG
Found at i:8243112 original size:10 final size:10
Alignment explanation
Indices: 8243097--8243130 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
8243087 TTGGACTTTG
8243097 TTTTTTATTT
1 TTTTTTATTT
8243107 TTTTTTA--T
1 TTTTTTATTT
8243115 TTTTTTATTT
1 TTTTTTATTT
8243125 TTTTTT
1 TTTTTT
8243131 GAACTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.36
10 14 0.64
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:8248920 original size:26 final size:26
Alignment explanation
Indices: 8248889--8248996 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
8248879 TGAAATTCCC
*
8248889 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
8248915 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
8248941 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
8248967 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
8248993 ATCA
1 ATCA
8248997 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:8259970 original size:21 final size:21
Alignment explanation
Indices: 8259930--8259970 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8259920 ACACGCCCAT
*
8259930 GTGAAGGCCACACACTCTCGG
1 GTGAAGGCCACACACGCTCGG
* *
8259951 GTGAAGGCCATACAGGCTCG
1 GTGAAGGCCACACACGCTCG
8259971 TGTGGAGGGG
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:0.24, C:0.29, G:0.32, T:0.15
Consensus pattern (21 bp):
GTGAAGGCCACACACGCTCGG
Found at i:8260409 original size:66 final size:65
Alignment explanation
Indices: 8260330--8260460 Score: 183
Period size: 66 Copynumber: 2.0 Consensus size: 65
8260320 AGCATGACTT
* * *
8260330 ACACGGGTGGATCACACGCCCGTGCCTATTTAATACCCTTGACCATGACCTTCAA-TAATCGCAC
1 ACACGGGTGGATCACACGCCCGTGCCCATTTAACACCCTTGACCACGACC-TCAAGTAATCGCAC
8260394 A
65 A
* * *
8260395 NACACGGGTGGATCACACGCCCGTGCCCATTTAACAGCCTTGGCCACGACCTGAAGTAATCGCAC
1 -ACACGGGTGGATCACACGCCCGTGCCCATTTAACACCCTTGACCACGACCTCAAGTAATCGCAC
8260460 A
65 A
8260461 CGGGCGTGTC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 3 0.05
66 55 0.95
ACGTcount: A:0.27, C:0.33, G:0.20, T:0.20
Consensus pattern (65 bp):
ACACGGGTGGATCACACGCCCGTGCCCATTTAACACCCTTGACCACGACCTCAAGTAATCGCACA
Found at i:8271306 original size:16 final size:16
Alignment explanation
Indices: 8271272--8271322 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
8271262 TTTTACTTCC
*
8271272 AAAAAT-AAAATAAGTT
1 AAAAATCAAAATAA-AT
8271288 AAAAATCAAAATAAAT
1 AAAAATCAAAATAAAT
*
8271304 AAATAA-CTAAATAAAT
1 AAA-AATCAAAATAAAT
8271320 AAA
1 AAA
8271323 TACTTAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 22 0.71
17 9 0.29
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.22
Consensus pattern (16 bp):
AAAAATCAAAATAAAT
Found at i:8274533 original size:15 final size:15
Alignment explanation
Indices: 8274509--8274539 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8274499 ACATCTATTT
*
8274509 AAATAGATGAATTAC
1 AAATAAATGAATTAC
8274524 AAATAAATGAATTAC
1 AAATAAATGAATTAC
8274539 A
1 A
8274540 TACAACATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.10, T:0.26
Consensus pattern (15 bp):
AAATAAATGAATTAC
Found at i:8282652 original size:23 final size:22
Alignment explanation
Indices: 8282587--8282678 Score: 96
Period size: 22 Copynumber: 4.1 Consensus size: 22
8282577 AGAAAAGACG
*
8282587 AATGAACAATAAAATTCTCT-A
1 AATGAACAGTAAAATTCTCTGA
* *
8282608 GCATGAACAGTGAAATTCTCTGA
1 -AATGAACAGTAAAATTCTCTGA
*
8282631 AATGAACAGTAAATATTCTCTGG
1 AATGAACAGTAAA-ATTCTCTGA
* *
8282654 CATGAACAGTGAATATTCTCTGA
1 AATGAACAGT-AAAATTCTCTGA
8282677 AA
1 AA
8282679 AAAAAAGTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
22 28 0.49
23 27 0.47
24 2 0.04
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (22 bp):
AATGAACAGTAAAATTCTCTGA
Found at i:8282657 original size:45 final size:45
Alignment explanation
Indices: 8282587--8282678 Score: 150
Period size: 45 Copynumber: 2.0 Consensus size: 45
8282577 AGAAAAGACG
8282587 AATGAACAATAAAATTCTCTAGCATGAACAGTGAA-ATTCTCTGA
1 AATGAACAATAAAATTCTCTAGCATGAACAGTGAATATTCTCTGA
* *
8282631 AATGAACAGTAAATATTCTCTGGCATGAACAGTGAATATTCTCTGA
1 AATGAACAATAAA-ATTCTCTAGCATGAACAGTGAATATTCTCTGA
8282677 AA
1 AA
8282679 AAAAAAGTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 12 0.27
45 21 0.48
46 11 0.25
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (45 bp):
AATGAACAATAAAATTCTCTAGCATGAACAGTGAATATTCTCTGA
Found at i:8291538 original size:34 final size:34
Alignment explanation
Indices: 8291490--8291557 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
8291480 TGGAAGTGGG
*
8291490 AAAGGGTGACAATGGACTTTGTGAGTAGGTTACC
1 AAAGAGTGACAATGGACTTTGTGAGTAGGTTACC
*
8291524 AAAGAGTGACAATGGACTTTGTGAGTGGGTTACC
1 AAAGAGTGACAATGGACTTTGTGAGTAGGTTACC
8291558 TTTGACACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.29, C:0.12, G:0.32, T:0.26
Consensus pattern (34 bp):
AAAGAGTGACAATGGACTTTGTGAGTAGGTTACC
Found at i:8295491 original size:48 final size:48
Alignment explanation
Indices: 8295426--8295622 Score: 333
Period size: 48 Copynumber: 4.1 Consensus size: 48
8295416 GCTGAAATTG
* *
8295426 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
8295474 ATGTATGAGATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
8295522 ATGTATGAGATAAT-TATATGTGGTAAAACCGAATGGCTAATGTGAAAT
1 ATGTATGAGAT-ATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
8295570 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
8295618 ATGTA
1 ATGTA
8295623 GGCGATGTGT
Statistics
Matches: 140, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
47 2 0.01
48 136 0.97
49 2 0.01
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:8295832 original size:37 final size:37
Alignment explanation
Indices: 8295769--8295840 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
8295759 GGAAATATAT
*
8295769 TCCGAGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGAGTAAGACCCGATAACTACGTGTGGAGATTTTG
* *
8295806 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGAGTAAGACCCGATAACTACGTGTGGAGATTT
8295841 CATCTGAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
TCCGAGTAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:8298459 original size:26 final size:25
Alignment explanation
Indices: 8298430--8298480 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
8298420 ACTTTAGCCA
*
8298430 TTTTTTTATTTTTACTGTAAATTACT
1 TTTTTTTAATTTTACT-TAAATTACT
*
8298456 TTTTTTTAATTTTGCTTAAATTACT
1 TTTTTTTAATTTTACTTAAATTACT
8298481 AAATTTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.65
Consensus pattern (25 bp):
TTTTTTTAATTTTACTTAAATTACT
Found at i:8298487 original size:26 final size:26
Alignment explanation
Indices: 8298432--8298487 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 26
8298422 TTTAGCCATT
* **
8298432 TTTTTATTTTTACTGTAAATTACTTT
1 TTTTTAATTTTACTGTAAATTACTAA
*
8298458 TTTTTAATTTTGCT-TAAATTACTAA
1 TTTTTAATTTTACTGTAAATTACTAA
*
8298483 ATTTT
1 TTTTT
8298488 CTTTTATTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (26 bp):
TTTTTAATTTTACTGTAAATTACTAA
Found at i:8306953 original size:11 final size:11
Alignment explanation
Indices: 8306939--8306964 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8306929 TTTAAATTGC
8306939 TTTTCTTTTTA
1 TTTTCTTTTTA
8306950 TTTTCTTTTTA
1 TTTTCTTTTTA
8306961 TTTT
1 TTTT
8306965 GGCATTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTCTTTTTA
Found at i:8312948 original size:16 final size:16
Alignment explanation
Indices: 8312927--8312957 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8312917 ATATGTTTTC
*
8312927 ATTTGCATCATATATT
1 ATTTGCATCAAATATT
8312943 ATTTGCATCAAATAT
1 ATTTGCATCAAATAT
8312958 CAAATAACCA
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:0.35, C:0.13, G:0.06, T:0.45
Consensus pattern (16 bp):
ATTTGCATCAAATATT
Found at i:8313204 original size:56 final size:56
Alignment explanation
Indices: 8313142--8313309 Score: 273
Period size: 56 Copynumber: 3.0 Consensus size: 56
8313132 TCTTACATGT
* *
8313142 AATCACATATCGATGCCAACGTACTAAACGTGGTCTTACTCGCACATATATATCGA
1 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGA
* * * *
8313198 AATCACATATCGATACCAACGTATTAAATGTGGTCTTACTTGCACACATATATCGG
1 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGA
*
8313254 AATCACATATTGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGA
1 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGA
8313310 TGCCATGGTC
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 101 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (56 bp):
AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGA
Found at i:8316144 original size:30 final size:30
Alignment explanation
Indices: 8316110--8316171 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
8316100 GTATCTTTTA
8316110 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
* *
8316140 TTGTTTATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
8316170 TT
1 TT
8316172 TCTTGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.93
31 2 0.07
ACGTcount: A:0.24, C:0.05, G:0.10, T:0.61
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:8322246 original size:26 final size:26
Alignment explanation
Indices: 8322217--8322268 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
8322207 TCCCCATAGG
*
8322217 ATTGTTTGTATATTCCTGAGTAGCAC
1 ATTGTTTGTATATTCCTAAGTAGCAC
8322243 ATTGTTTGTATATTCCTAAGTAGCAC
1 ATTGTTTGTATATTCCTAAGTAGCAC
8322269 CAATCGACTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.42
Consensus pattern (26 bp):
ATTGTTTGTATATTCCTAAGTAGCAC
Found at i:8322429 original size:6 final size:6
Alignment explanation
Indices: 8322415--8322453 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
8322405 AGAACATGAC
*
8322415 AAATGA AAATCA AAATCA AAATCA AAAT-A AAATCA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
8322454 GAAATGCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.69, C:0.10, G:0.03, T:0.18
Consensus pattern (6 bp):
AAATCA
Found at i:8322446 original size:11 final size:11
Alignment explanation
Indices: 8322415--8322479 Score: 67
Period size: 12 Copynumber: 5.6 Consensus size: 11
8322405 AGAACATGAC
8322415 AAATGAAAATCA
1 AAAT-AAAATCA
8322427 AAATCAAAATCA
1 AAAT-AAAATCA
8322439 AAATAAAATCA
1 AAATAAAATCA
*
8322450 AAATGAAATGCA
1 AAATAAAAT-CA
* * *
8322462 AAACAAATTAA
1 AAATAAAATCA
8322473 AAATAAA
1 AAATAAA
8322480 TAGACTCAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
11 22 0.49
12 23 0.51
ACGTcount: A:0.69, C:0.09, G:0.05, T:0.17
Consensus pattern (11 bp):
AAATAAAATCA
Found at i:8322480 original size:11 final size:11
Alignment explanation
Indices: 8322424--8322480 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
8322414 CAAATGAAAA
*
8322424 TCAAAATCAAAA
1 TCAAAAT-AAAT
*
8322436 TCAAAATAAAA
1 TCAAAATAAAT
8322447 TCAAAATGAAAT
1 TCAAAAT-AAAT
* *
8322459 GCAAAACAAAT
1 TCAAAATAAAT
*
8322470 TAAAAATAAAT
1 TCAAAATAAAT
8322481 AGACTCAAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
11 23 0.61
12 15 0.39
ACGTcount: A:0.67, C:0.11, G:0.04, T:0.19
Consensus pattern (11 bp):
TCAAAATAAAT
Found at i:8325018 original size:44 final size:42
Alignment explanation
Indices: 8324969--8325120 Score: 178
Period size: 44 Copynumber: 3.4 Consensus size: 42
8324959 TTCCTATTCC
* * *
8324969 TAATTTAAAACATGTTAAATTATAGTACAATAAACATGCATATT
1 TAATTTAAAACA--TTAAATTATAATACAATATACATACATATT
*
8325013 TAATTTAAAGGACATTAAACTATAATACAATATACATACATATT
1 TAATTTAAA--ACATTAAATTATAATACAATATACATACATATT
*
8325057 TATTTTAAAACACATTAAATTATAATACAATATACATACATATT
1 TAATTT-AAA-ACATTAAATTATAATACAATATACATACATATT
*
8325101 TAGTTTAAAATACATTAAAT
1 TAATTT-AAA-ACATTAAAT
8325121 GAAATAAATT
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
44 90 0.94
45 3 0.03
46 3 0.03
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (42 bp):
TAATTTAAAACATTAAATTATAATACAATATACATACATATT
Found at i:8325113 original size:22 final size:22
Alignment explanation
Indices: 8325044--8325115 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
8325034 ATAATACAAT
*
8325044 ATACATACATATTTATTTTAAA
1 ATACATACATATTTAATTTAAA
* ** *
8325066 ACACATTA-A-ATTATAATACAAT
1 ATACA-TACATATT-TAATTTAAA
*
8325088 ATACATACATATTTAGTTTAAA
1 ATACATACATATTTAATTTAAA
8325110 ATACAT
1 ATACAT
8325116 TAAATGAAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
21 5 0.14
22 26 0.72
23 5 0.14
ACGTcount: A:0.49, C:0.11, G:0.01, T:0.39
Consensus pattern (22 bp):
ATACATACATATTTAATTTAAA
Found at i:8325189 original size:21 final size:21
Alignment explanation
Indices: 8325165--8325397 Score: 128
Period size: 21 Copynumber: 10.1 Consensus size: 21
8325155 AAAATACGTA
*
8325165 AATTAAAATGAAAAGAAAGAT
1 AATTTAAATGAAAAGAAAGAT
* *
8325186 AATTTAAATGAAATAAAAAAATT
1 AATTTAAATGAAA-AGAAAGA-T
* * *
8325209 AAAGTAAAATGGAAAGAAAGAT
1 -AATTTAAATGAAAAGAAAGAT
8325231 AATTTAAATGAAATGAGTAAAGAAATT
1 AATTTAAATGAAA--AG-AAAG--A-T
8325258 AAATTTAAATAGAAAAGAAAGAT
1 -AATTTAAAT-GAAAAGAAAGAT
*
8325281 AATTTAAATGACATGAA-AAAAATT
1 AATTTAAATGA-A--AAGAAAGA-T
* * * *
8325305 AAATTAAAATGGAAATAAAAAT
1 -AATTTAAATGAAAAGAAAGAT
*
8325327 AATTTAAATGAAATAAGAAAAAAATT
1 AATTTAAATG-AA-AAG--AAAGA-T
*
8325353 AAATTTAAATGAAAAAAAAGAT
1 -AATTTAAATGAAAAGAAAGAT
*
8325375 AATTTAAATGAAATGAAA-AT
1 AATTTAAATGAAAAGAAAGAT
8325395 AAT
1 AAT
8325398 AAAAAAATGA
Statistics
Matches: 168, Mismatches: 21, Indels: 47
0.71 0.09 0.20
Matches are distributed among these distances:
20 5 0.03
21 49 0.29
22 21 0.12
23 24 0.14
24 19 0.11
25 16 0.10
26 8 0.05
27 13 0.08
28 9 0.05
29 4 0.02
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.25
Consensus pattern (21 bp):
AATTTAAATGAAAAGAAAGAT
Done.