Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 17 of 343
Found at i:5892194 original size:18 final size:18
Alignment explanation
Indices: 5892171--5892247 Score: 66
Period size: 18 Copynumber: 4.1 Consensus size: 18
5892161 ATTAAATAGC
*
5892171 AAAAAGGTAATAATAATA
1 AAAAAGATAATAATAATA
*
5892189 AAAAAGATAATAGTAATA
1 AAAAAGATAATAATAATA
* *
5892207 AAAATA-AAAATAATAGTA
1 AAAA-AGATAATAATAATA
*
5892225 ATGAAAATGGTAATAATAATA
1 A--AAAA-GATAATAATAATA
5892246 AA
1 AA
5892248 TAGTAGTATT
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
18 30 0.65
19 3 0.07
20 3 0.07
21 10 0.22
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.23
Consensus pattern (18 bp):
AAAAAGATAATAATAATA
Found at i:5892242 original size:21 final size:21
Alignment explanation
Indices: 5892181--5892232 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
5892171 AAAAAGGTAA
*
5892181 TAATAATAAA-AAAGATAATAG
1 TAATAA-AAATAAAAATAATAG
5892202 TAATAAAAATAAAAATAATAG
1 TAATAAAAATAAAAATAATAG
*
5892223 TAATGAAAAT
1 TAATAAAAAT
5892233 GGTAATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 3 0.11
21 25 0.89
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (21 bp):
TAATAAAAATAAAAATAATAG
Found at i:5893532 original size:44 final size:46
Alignment explanation
Indices: 5893465--5893560 Score: 160
Period size: 44 Copynumber: 2.1 Consensus size: 46
5893455 TATTATTTCA
*
5893465 CATATCAAATTATTTTACACTTTATTTTATTAGTTTACCACAAATTT
1 CATATCAAATTATTCTA-ACTTTATTTTATTAGTTTACCACAAATTT
5893512 CATATCAAATT-TTCT-ACTTTATTTTATTAGTTTACCACAAATTT
1 CATATCAAATTATTCTAACTTTATTTTATTAGTTTACCACAAATTT
5893556 CATAT
1 CATAT
5893561 AATTTATATT
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
44 34 0.71
46 3 0.06
47 11 0.23
ACGTcount: A:0.33, C:0.16, G:0.02, T:0.49
Consensus pattern (46 bp):
CATATCAAATTATTCTAACTTTATTTTATTAGTTTACCACAAATTT
Found at i:5895816 original size:34 final size:34
Alignment explanation
Indices: 5895773--5895843 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
5895763 TTTATGAAAG
5895773 AATTAATATTGGGTTGGATAAAACATAAATTCGT
1 AATTAATATTGGGTTGGATAAAACATAAATTCGT
5895807 AATTAATATTGGGTTGGATAAAACATAAATTCGT
1 AATTAATATTGGGTTGGATAAAACATAAATTCGT
5895841 AAT
1 AAT
5895844 GAAACGAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (34 bp):
AATTAATATTGGGTTGGATAAAACATAAATTCGT
Found at i:5896260 original size:6 final size:6
Alignment explanation
Indices: 5896242--5896339 Score: 74
Period size: 6 Copynumber: 16.2 Consensus size: 6
5896232 ATGGTAACCG
* * * * * *
5896242 TAATAA AAATAA TAGTAA TAA-AA GTAGTAC TAATAG CAATAA TAATAA
1 TAATAA TAATAA TAATAA TAATAA -TAATAA TAATAA TAATAA TAATAA
* * *
5896290 TAATAA TAATAA TAAATAA TAATAGA -AATAG TAACAC TAATAA TAATAA
1 TAATAA TAATAA T-AATAA TAATA-A TAATAA TAATAA TAATAA TAATAA
5896339 T
1 T
5896340 GAAATATAAA
Statistics
Matches: 71, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
5 2 0.03
6 61 0.86
7 8 0.11
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (6 bp):
TAATAA
Found at i:5896261 original size:9 final size:9
Alignment explanation
Indices: 5896249--5896319 Score: 52
Period size: 9 Copynumber: 7.4 Consensus size: 9
5896239 CCGTAATAAA
5896249 AATAATAGT
1 AATAATAGT
5896258 AATAAAAGTAGT
1 AAT--AA-TAGT
* *
5896270 ACTAATAGC
1 AATAATAGT
*
5896279 AATAATAAT
1 AATAATAGT
*
5896288 AATAATAAT
1 AATAATAGT
*
5896297 AATAATAAAT
1 AATAAT-AGT
*
5896307 AATAATAGA
1 AATAATAGT
5896316 AATA
1 AATA
5896320 GTAACACTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 32 0.63
10 11 0.22
11 2 0.04
12 6 0.12
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (9 bp):
AATAATAGT
Found at i:5896285 original size:3 final size:3
Alignment explanation
Indices: 5896279--5896339 Score: 70
Period size: 3 Copynumber: 20.0 Consensus size: 3
5896269 TACTAATAGC
* *
5896279 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AGA- AAT AGT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT A-AT AAT AAT AAT
*
5896325 ACT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT
5896340 GAAATATAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 1 0.02
3 44 0.90
4 4 0.08
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:5896462 original size:23 final size:23
Alignment explanation
Indices: 5896435--5896489 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
5896425 AAAAAAGGGA
*
5896435 ATAATAATAGTA-TAGTAAGAAT-
1 ATAATAAT-GTATTAATAAGAATG
5896457 AGTAATAATGTATTAATAAGAATG
1 A-TAATAATGTATTAATAAGAATG
5896481 ATAATAATG
1 ATAATAATG
5896490 AAACGAGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 4 0.14
23 24 0.83
24 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.33
Consensus pattern (23 bp):
ATAATAATGTATTAATAAGAATG
Found at i:5897321 original size:24 final size:25
Alignment explanation
Indices: 5897289--5897336 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
5897279 TTCGAAAAGA
*
5897289 AAAAAAAATA-AAAATAAAAAAGCG
1 AAAAAAAATACAAAAAAAAAAAGCG
*
5897313 AAAATAAATACCAAAAAAAAAAAG
1 AAAAAAAATA-CAAAAAAAAAAAG
5897337 AAACCTTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
26 11 0.55
ACGTcount: A:0.79, C:0.06, G:0.06, T:0.08
Consensus pattern (25 bp):
AAAAAAAATACAAAAAAAAAAAGCG
Found at i:5899556 original size:14 final size:14
Alignment explanation
Indices: 5899537--5899563 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5899527 GCTTGCCTAG
5899537 CATAGTTGGATCAC
1 CATAGTTGGATCAC
5899551 CATAGTTGGATCA
1 CATAGTTGGATCA
5899564 TAGAAGAATA
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:0.19, G:0.22, T:0.30
Consensus pattern (14 bp):
CATAGTTGGATCAC
Found at i:5900272 original size:10 final size:11
Alignment explanation
Indices: 5900259--5900307 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
5900249 GAGAAAGAGT
5900259 ATTAAAAA-TA
1 ATTAAAAATTA
5900269 ATTAAAAAATTA
1 ATT-AAAAATTA
5900281 ATTAAAACATTA
1 ATTAAAA-ATTA
*
5900293 A-TAAAAATTT
1 ATTAAAAATTA
5900303 ATTAA
1 ATTAA
5900308 TACATTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
10 7 0.21
11 17 0.50
12 10 0.29
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
ATTAAAAATTA
Found at i:5900282 original size:12 final size:12
Alignment explanation
Indices: 5900262--5900299 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
5900252 AAAGAGTATT
5900262 AAAAA-TAATTA
1 AAAAATTAATTA
5900273 AAAAATTAATTA
1 AAAAATTAATTA
*
5900285 AAACATTAA-TA
1 AAAAATTAATTA
5900296 AAAA
1 AAAA
5900300 TTTATTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAAATTAATTA
Found at i:5916842 original size:31 final size:31
Alignment explanation
Indices: 5916804--5916862 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
5916794 TTAACAACCC
*
5916804 AATGACTTAAATAAAAACTTTTGAATAGCTA
1 AATGACTTAAATAAAAACTTTTCAATAGCTA
* *
5916835 AATGACTTAAATGAAAATTTTTCAATAG
1 AATGACTTAAATAAAAACTTTTCAATAG
5916863 TTTAATAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.34
Consensus pattern (31 bp):
AATGACTTAAATAAAAACTTTTCAATAGCTA
Found at i:5920144 original size:21 final size:20
Alignment explanation
Indices: 5920111--5920149 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
5920101 TTGTGCAGCA
*
5920111 AGTTTTGCTGATGTTGCTTG
1 AGTTTTGCTGATGGTGCTTG
*
5920131 AGTTTCTGGTGATGGTGCT
1 AGTTT-TGCTGATGGTGCT
5920150 GATACCACCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.10, C:0.10, G:0.33, T:0.46
Consensus pattern (20 bp):
AGTTTTGCTGATGGTGCTTG
Found at i:5921733 original size:30 final size:30
Alignment explanation
Indices: 5921699--5921757 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
5921689 AGATATAAAA
* *
5921699 TAACACAAATACAATATTAATATACAAATT
1 TAACACAAACAAAATATTAATATACAAATT
* *
5921729 TAACACGAACAAAATGTTAATATACAAAT
1 TAACACAAACAAAATATTAATATACAAAT
5921758 CTAATTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.27
Consensus pattern (30 bp):
TAACACAAACAAAATATTAATATACAAATT
Found at i:5922414 original size:29 final size:30
Alignment explanation
Indices: 5922382--5922440 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
5922372 TATAGTTTAA
* *
5922382 TGTGTAACTGTATATATGAA-TTTTGATTT
1 TGTGTAACTGTATACATAAAGTTTTGATTT
* *
5922411 TGTGTAATTTTATACATAAAGTTTTGATTT
1 TGTGTAACTGTATACATAAAGTTTTGATTT
5922441 GATCAAATCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.29, C:0.03, G:0.15, T:0.53
Consensus pattern (30 bp):
TGTGTAACTGTATACATAAAGTTTTGATTT
Found at i:5939637 original size:15 final size:16
Alignment explanation
Indices: 5939617--5939649 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
5939607 ATATATTTTT
5939617 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
5939632 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
5939649 T
1 T
5939650 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:5946911 original size:31 final size:31
Alignment explanation
Indices: 5946873--5946931 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
5946863 GTCAAATTTT
5946873 AAAAAGTA-AAAGAATTAAAATTAATCAATTC
1 AAAAAGTATAAA-AATTAAAATTAATCAATTC
5946904 AAAAAGTATAAAAATTAAAATTAATCAA
1 AAAAAGTATAAAAATTAAAATTAATCAA
5946932 AATAAAGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 24 0.89
32 3 0.11
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.25
Consensus pattern (31 bp):
AAAAAGTATAAAAATTAAAATTAATCAATTC
Found at i:5954003 original size:16 final size:16
Alignment explanation
Indices: 5953982--5954012 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5953972 ACAATTATGT
*
5953982 AAATAATATTAAAATA
1 AAATAATAGTAAAATA
5953998 AAATAATAGTAAAAT
1 AAATAATAGTAAAAT
5954013 TATTGAATAT
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:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
AAATAATAGTAAAATA
Found at i:5954309 original size:22 final size:22
Alignment explanation
Indices: 5954262--5954314 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
5954252 CAATTAAGTT
* **
5954262 ATAATTAATAATTATTACATTG
1 ATAATTAAAAATTATTACATAA
5954284 ATAATTAAAATATTATTA-ATAA
1 ATAATTAAAA-ATTATTACATAA
*
5954306 ATAAATAAA
1 ATAATTAAA
5954315 TTTATACATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
ATAATTAAAAATTATTACATAA
Found at i:5954551 original size:35 final size:38
Alignment explanation
Indices: 5954476--5954552 Score: 88
Period size: 39 Copynumber: 2.1 Consensus size: 38
5954466 ATATAAAATA
* * *
5954476 TATTTATTTAATTAAATTTTTTGGATTTTTATTATTATT
1 TATTTATTTAATTAAATTTATT-GAATTTTATTATGATT
*
5954515 TATTTATTTAATTATATTTATT-AATTTTA-TA-GATT
1 TATTTATTTAATTAAATTTATTGAATTTTATTATGATT
5954550 TAT
1 TAT
5954553 AATTTTATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
35 6 0.18
36 2 0.06
37 6 0.18
39 20 0.59
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (38 bp):
TATTTATTTAATTAAATTTATTGAATTTTATTATGATT
Found at i:5967208 original size:17 final size:17
Alignment explanation
Indices: 5967186--5967220 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
5967176 TAAAAGTTAA
*
5967186 ATATAAAATTAGTACCC
1 ATATAAAATTAATACCC
5967203 ATATAAAATTAATACCC
1 ATATAAAATTAATACCC
5967220 A
1 A
5967221 AATTTGTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.29
Consensus pattern (17 bp):
ATATAAAATTAATACCC
Found at i:5988596 original size:44 final size:44
Alignment explanation
Indices: 5988513--5988596 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
5988503 TTCATTTTTA
*
5988513 TTTCTATTTTGGGAAAACCACATCATTTTCAAATGATTTTATTT
1 TTTCTATTTTGGGAAAACCAAATCATTTTCAAATGATTTTATTT
* *
5988557 TTTC-ATTTTGGAGAAAACCATAATTATTTTTAAAT-ATTTT
1 TTTCTATTTTGG-GAAAACCA-AATCATTTTCAAATGATTTT
5988597 TCATTTCTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
43 7 0.20
44 17 0.49
45 11 0.31
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (44 bp):
TTTCTATTTTGGGAAAACCAAATCATTTTCAAATGATTTTATTT
Found at i:5994475 original size:12 final size:12
Alignment explanation
Indices: 5994449--5994492 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
5994439 CTTTTTCCAG
*
5994449 TTTTCTTCTTCTT
1 TTTTCTT-TTTTT
5994462 TTTTCTTTTTTT
1 TTTTCTTTTTTT
*
5994474 TTTTCCTTTTTT
1 TTTTCTTTTTTT
5994486 TTTTCTT
1 TTTTCTT
5994493 CTCTCACTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 21 0.75
13 7 0.25
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:6003642 original size:25 final size:26
Alignment explanation
Indices: 6003606--6003654 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
6003596 TCAAATTATA
*
6003606 CAATTTGTTGCTGCTGG-TCTTTGAT
1 CAATTTGTTGCTACTGGTTCTTTGAT
6003631 CAATTT-TCTGCTACTGGTTCTTTG
1 CAATTTGT-TGCTACTGGTTCTTTG
6003655 TTGCACTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 14 0.67
26 6 0.29
ACGTcount: A:0.12, C:0.18, G:0.20, T:0.49
Consensus pattern (26 bp):
CAATTTGTTGCTACTGGTTCTTTGAT
Found at i:6008126 original size:25 final size:26
Alignment explanation
Indices: 6008090--6008138 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
6008080 TCAAATTATA
*
6008090 CAATTTGTTGCTGCTGG-TCTTTGAT
1 CAATTTGTTGCTACTGGTTCTTTGAT
6008115 CAATTT-TCTGCTACTGGTTCTTTG
1 CAATTTGT-TGCTACTGGTTCTTTG
6008139 TTGCACTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 14 0.67
26 6 0.29
ACGTcount: A:0.12, C:0.18, G:0.20, T:0.49
Consensus pattern (26 bp):
CAATTTGTTGCTACTGGTTCTTTGAT
Found at i:6023104 original size:118 final size:118
Alignment explanation
Indices: 6022892--6023137 Score: 431
Period size: 118 Copynumber: 2.1 Consensus size: 118
6022882 AATGTTCTTC
6022892 TTGA-TTTTTGTGGAGAGGGAGCAATCATACTTACGTAACTAGCCATGCTTGTCTTTATGCCTAT
1 TTGATTTTTTGTGGAGAGGGAGCAATCATACTTACGTAACTAGCCATGCTTGTCTTTATGCCTAT
6022956 AAGCAGAGCCTAGAACTCAAACTAATTGATGCATTAATTGCCCAAAGCAGACA
66 AAGCAGAGCCTAGAACTCAAACTAATTGATGCATTAATTGCCCAAAGCAGACA
* * *
6023009 TTGATTTTTTGTGGGGAGGGAGCAATTATACTTATGTAACTAGCCATGCTTGTCTTTATGCCTAT
1 TTGATTTTTTGTGGAGAGGGAGCAATCATACTTACGTAACTAGCCATGCTTGTCTTTATGCCTAT
* *
6023074 AAGCAGAGCTTCGAACTCAAACTAATTGATGCATTAATTGCCCAAAGCAGACA
66 AAGCAGAGCCTAGAACTCAAACTAATTGATGCATTAATTGCCCAAAGCAGACA
6023127 TTGATCTTTTT
1 TTGAT-TTTTT
6023138 TTCTTTTTCT
Statistics
Matches: 122, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
117 4 0.03
118 113 0.93
119 5 0.04
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (118 bp):
TTGATTTTTTGTGGAGAGGGAGCAATCATACTTACGTAACTAGCCATGCTTGTCTTTATGCCTAT
AAGCAGAGCCTAGAACTCAAACTAATTGATGCATTAATTGCCCAAAGCAGACA
Found at i:6026416 original size:17 final size:16
Alignment explanation
Indices: 6026370--6026417 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
6026360 TCTCAAATAG
* *
6026370 AAAATAAAAGGAAAAC
1 AAAAAAAAAGAAAAAC
* *
6026386 AAATAACAAGAAAAAC
1 AAAAAAAAAGAAAAAC
6026402 AAAAAAAATAGAAAAA
1 AAAAAAAA-AGAAAAA
6026418 AACCCAAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 18 0.72
17 7 0.28
ACGTcount: A:0.79, C:0.06, G:0.08, T:0.06
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAC
Found at i:6026988 original size:22 final size:21
Alignment explanation
Indices: 6026963--6027026 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
6026953 TTAAGTATTC
6026963 TTTTTATATTTGAAATTTAATA
1 TTTTTAT-TTTGAAATTTAATA
* **
6026985 TTTTTATTTTAGAAAGTTGGTA
1 TTTTTATTTT-GAAATTTAATA
* *
6027007 CTTTTATTTTTCAAATTTAA
1 TTTTTA-TTTTGAAATTTAA
6027027 AAATTCAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
21 3 0.09
22 25 0.78
23 4 0.12
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (21 bp):
TTTTTATTTTGAAATTTAATA
Found at i:6030027 original size:9 final size:9
Alignment explanation
Indices: 6030015--6030087 Score: 69
Period size: 9 Copynumber: 7.8 Consensus size: 9
6030005 ATTAAATATG
6030015 AAAAATTAT
1 AAAAATTAT
6030024 AAAAATTCCAT
1 AAAAATT--AT
*
6030035 AAAAAGTAT
1 AAAAATTAT
6030044 AAAAATT-T
1 AAAAATTAT
6030052 AAAAAAGTTAT
1 -AAAAA-TTAT
6030063 AAATAATTAT
1 AAA-AATTAT
*
6030073 -AAAATAAT
1 AAAAATTAT
6030081 AAAAATT
1 AAAAATT
6030088 GCAAGAAATA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
8 6 0.11
9 27 0.51
10 9 0.17
11 11 0.21
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:6030038 original size:20 final size:18
Alignment explanation
Indices: 6030015--6030087 Score: 69
Period size: 20 Copynumber: 3.9 Consensus size: 18
6030005 ATTAAATATG
6030015 AAAAATTATAAAAATTCCAT
1 AAAAATTATAAAAATT--AT
*
6030035 AAAAAGTATAAAAATT-T
1 AAAAATTATAAAAATTAT
6030052 AAAAAAGTTATAAATAATTAT
1 -AAAAA-TTATAAA-AATTAT
*
6030073 -AAAATAATAAAAATT
1 AAAAATTATAAAAATT
6030088 GCAAGAAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
17 5 0.11
18 11 0.24
19 10 0.22
20 19 0.41
21 1 0.02
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (18 bp):
AAAAATTATAAAAATTAT
Found at i:6030125 original size:26 final size:26
Alignment explanation
Indices: 6030067--6030128 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
6030057 AGTTATAAAT
*
6030067 AATTATAAAATAATAAAAATTGCAAG
1 AATTATAAAATAATAAAAAATGCAAG
*
6030093 AAATATAAAATACATTAAAAAATG-AA-
1 AATTATAAAATA-A-TAAAAAATGCAAG
6030119 AATTATAAAA
1 AATTATAAAA
6030129 AAAAAGTTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 20 0.65
27 3 0.10
28 8 0.26
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (26 bp):
AATTATAAAATAATAAAAAATGCAAG
Found at i:6030660 original size:21 final size:20
Alignment explanation
Indices: 6030636--6030680 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
6030626 TCGTTATTAA
*
6030636 TTTTATAATCTTTTTAAATAG
1 TTTTACAATCTTTTT-AATAG
*
6030657 TTTTACAATCTTTTTTATAG
1 TTTTACAATCTTTTTAATAG
6030677 TTTT
1 TTTT
6030681 GATGTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTTACAATCTTTTTAATAG
Found at i:6052323 original size:47 final size:47
Alignment explanation
Indices: 6052269--6052364 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
6052259 GTTAACAAGA
*
6052269 AAAGATGCCTGAGTTTCAGTTCATTTAATGAACTTTAATGCCAAGCT
1 AAAGATGCCTGAGTTTCAGTTCATTTAACGAACTTTAATGCCAAGCT
* *
6052316 AAAGATGCCTGAGTTTCAGTTTATTTAACGATCTTTAATGCCAAGCT
1 AAAGATGCCTGAGTTTCAGTTCATTTAACGAACTTTAATGCCAAGCT
6052363 AA
1 AA
6052365 CTGAATTTGG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (47 bp):
AAAGATGCCTGAGTTTCAGTTCATTTAACGAACTTTAATGCCAAGCT
Found at i:6064969 original size:20 final size:20
Alignment explanation
Indices: 6064940--6065059 Score: 73
Period size: 20 Copynumber: 6.0 Consensus size: 20
6064930 TGATAAATTC
* * *
6064940 AAAATTTTAGTTATTTTGTT
1 AAAATATTAGATATTTTGGT
6064960 AAAATATTAGATATTTTGGT
1 AAAATATTAGATATTTTGGT
* * * * *
6064980 -AAATTTATAAAAATATTAG-
1 AAAATAT-TAGATATTTTGGT
* * *
6064999 CAAATCAATAGATATGTTGGT
1 AAAAT-ATTAGATATTTTGGT
*
6065020 AAAATATTAGATATTTTGAT
1 AAAATATTAGATATTTTGGT
* *
6065040 AAAAATATTAAATATATTGG
1 -AAAATATTAGATATTTTGG
6065060 CAAATCTTTA
Statistics
Matches: 74, Mismatches: 21, Indels: 9
0.71 0.20 0.09
Matches are distributed among these distances:
19 5 0.07
20 49 0.66
21 20 0.27
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (20 bp):
AAAATATTAGATATTTTGGT
Found at i:6065044 original size:21 final size:20
Alignment explanation
Indices: 6065007--6065054 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
6064997 AGCAAATCAA
*
6065007 TAGATATGTTGGTAAAATAT
1 TAGATATGTTGATAAAATAT
*
6065027 TAGATATTTTGATAAAAATAT
1 TAGATATGTTGAT-AAAATAT
*
6065048 TAAATAT
1 TAGATAT
6065055 ATTGGCAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (20 bp):
TAGATATGTTGATAAAATAT
Found at i:6065120 original size:40 final size:40
Alignment explanation
Indices: 6065035--6065257 Score: 149
Period size: 40 Copynumber: 5.7 Consensus size: 40
6065025 ATTAGATATT
* * * * ** *
6065035 TTGATAAAAATATTAAATATATTGGCAAATCTTTAGTAATT
1 TTGAT-AAATTATTAGATATATTAGTAAATCTTTACAAATA
** *
6065076 TTGATAAATCGTTAGATATATTAGTAAATCTTTAAAAATA
1 TTGATAAATTATTAGATATATTAGTAAATCTTTACAAATA
* * * * * *
6065116 TTGATATATAATTAAAAATATCAAT-AA--TTT-----T-
1 TTGATAAATTATTAGATATATTAGTAAATCTTTACAAATA
* *
6065147 TTGGTAAATTATTAGATATATTAGTAAATCCTTACAAATA
1 TTGATAAATTATTAGATATATTAGTAAATCTTTACAAATA
*
6065187 TTGATATATATTATTAGATATATTAGTAAATCCTTACAAATA
1 TTGATA-A-ATTATTAGATATATTAGTAAATCTTTACAAATA
* * * *
6065229 TTGATATATTGTTAGAAATATTGGTAAAT
1 TTGATAAATTATTAGATATATTAGTAAAT
6065258 TCTTAAATGT
Statistics
Matches: 142, Mismatches: 29, Indels: 23
0.73 0.15 0.12
Matches are distributed among these distances:
31 18 0.13
32 3 0.02
34 2 0.01
37 3 0.02
39 3 0.02
40 68 0.48
41 6 0.04
42 39 0.27
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.42
Consensus pattern (40 bp):
TTGATAAATTATTAGATATATTAGTAAATCTTTACAAATA
Found at i:6065175 original size:20 final size:20
Alignment explanation
Indices: 6065150--6065217 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
6065140 TAATTTTTTG
6065150 GTAAATTATTAGATATATTA
1 GTAAATTATTAGATATATTA
** * *
6065170 GTAAATCCTTACAAATATT-
1 GTAAATTATTAGATATATTA
6065189 GATATATATTATTAGATATATTA
1 G-TA-A-ATTATTAGATATATTA
6065212 GTAAAT
1 GTAAAT
6065218 CCTTACAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
19 1 0.03
20 19 0.53
21 2 0.06
22 13 0.36
23 1 0.03
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (20 bp):
GTAAATTATTAGATATATTA
Found at i:6065202 original size:42 final size:40
Alignment explanation
Indices: 6065154--6065262 Score: 164
Period size: 42 Copynumber: 2.7 Consensus size: 40
6065144 TTTTTGGTAA
6065154 ATTATTAGATATATTAGTAAATCCTTACAAATATTGATATAT
1 ATTATTAGATATATTAGTAAATCCTTACAAATATTG--ATAT
6065196 ATTATTAGATATATTAGTAAATCCTTACAAATATTGATAT
1 ATTATTAGATATATTAGTAAATCCTTACAAATATTGATAT
* * * *
6065236 ATTGTTAGAAATATTGGTAAATTCTTA
1 ATTATTAGATATATTAGTAAATCCTTA
6065263 AATGTTTTGG
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 27 0.43
42 36 0.57
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.43
Consensus pattern (40 bp):
ATTATTAGATATATTAGTAAATCCTTACAAATATTGATAT
Found at i:6065229 original size:22 final size:22
Alignment explanation
Indices: 6065162--6065229 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
6065152 AAATTATTAG
6065162 ATATATTAGTAAATCCTTACAA
1 ATATATTAGTAAATCCTTACAA
* * * * *
6065184 ATAT-TGA-TATAT-ATTATTAG
1 ATATATTAGTAAATCCTTA-CAA
6065204 ATATATTAGTAAATCCTTACAA
1 ATATATTAGTAAATCCTTACAA
6065226 ATAT
1 ATAT
6065230 TGATATATTG
Statistics
Matches: 32, Mismatches: 10, Indels: 8
0.64 0.20 0.16
Matches are distributed among these distances:
19 3 0.09
20 9 0.28
21 4 0.12
22 13 0.41
23 3 0.09
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (22 bp):
ATATATTAGTAAATCCTTACAA
Found at i:6066631 original size:17 final size:17
Alignment explanation
Indices: 6066611--6066659 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
6066601 ACATTATAAG
6066611 AAATAGAGAAG-GAAAGA
1 AAATAGAGAAGAGAAA-A
6066628 AAATAGA-AAGAGAAAA
1 AAATAGAGAAGAGAAAA
* *
6066644 AAAAAGAGAATAGAAA
1 AAATAGAGAAGAGAAA
6066660 GTAAAGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 10 0.36
17 18 0.64
ACGTcount: A:0.71, C:0.00, G:0.22, T:0.06
Consensus pattern (17 bp):
AAATAGAGAAGAGAAAA
Found at i:6066635 original size:23 final size:23
Alignment explanation
Indices: 6066623--6066678 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 23
6066613 ATAGAGAAGG
6066623 AAAGAAAATAGAAAGAGAAAAAA
1 AAAGAAAATAGAAAGAGAAAAAA
*
6066646 AAAGAGAATAGAAAGTAAAGAAAAAA
1 AAAGAAAATAGAAAG---AGAAAAAA
6066672 AAAGAAA
1 AAAGAAA
6066679 GTTCAAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 14 0.50
26 14 0.50
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (23 bp):
AAAGAAAATAGAAAGAGAAAAAA
Found at i:6066720 original size:23 final size:23
Alignment explanation
Indices: 6066690--6066735 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
6066680 TTCAAAGAAC
*
6066690 ATGGGTACATTCATCCATATTTG
1 ATGGGTACACTCATCCATATTTG
6066713 ATGGGTACACTCATCCATATTTG
1 ATGGGTACACTCATCCATATTTG
6066736 TGGTTGATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (23 bp):
ATGGGTACACTCATCCATATTTG
Found at i:6099197 original size:22 final size:23
Alignment explanation
Indices: 6099172--6099217 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
6099162 CAACCAAATC
6099172 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
6099194 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
6099217 A
1 A
6099218 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:6099223 original size:23 final size:23
Alignment explanation
Indices: 6099179--6099223 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6099169 ATCAATTCAA
*
6099179 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
6099202 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
6099224 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:6099935 original size:41 final size:41
Alignment explanation
Indices: 6099845--6099960 Score: 164
Period size: 41 Copynumber: 2.9 Consensus size: 41
6099835 AATAGGGTTT
* * * * *
6099845 TAGCGGCG-TTTTTGTTAACACGCCGCTAAAA-ACAGAGTAA
1 TAGCGGCGCTTTTAG-TAAAACGCCGCTAAAAGTCAAAGCAA
6099885 TAGCGGCGCTTTTAGTAAAACGCCGCTAAAAGTCAAAGCAA
1 TAGCGGCGCTTTTAGTAAAACGCCGCTAAAAGTCAAAGCAA
6099926 TAGCGGCGCTTTTAGTAAAACGCCGCTAAAAGTCA
1 TAGCGGCGCTTTTAGTAAAACGCCGCTAAAAGTCA
6099961 TATAACCCCT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
40 23 0.33
41 46 0.67
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (41 bp):
TAGCGGCGCTTTTAGTAAAACGCCGCTAAAAGTCAAAGCAA
Found at i:6100865 original size:8 final size:8
Alignment explanation
Indices: 6100852--6100957 Score: 109
Period size: 7 Copynumber: 14.0 Consensus size: 8
6100842 CTCAAAAAAT
6100852 AAAATTTA
1 AAAATTTA
6100860 AAAATTTA
1 AAAATTTA
6100868 AAAATTT-
1 AAAATTTA
6100875 AAAATTT-
1 AAAATTTA
6100882 AAAATTT-
1 AAAATTTA
6100889 AAAATTT-
1 AAAATTTA
6100896 AAAATTT-
1 AAAATTTA
6100903 AAAATTTA
1 AAAATTTA
*
6100911 AAAA-TAA
1 AAAATTTA
* *
6100918 AAAAATAA
1 AAAATTTA
6100926 AAAATTTTA
1 AAAA-TTTA
6100935 AAAATTT-
1 AAAATTTA
*
6100942 AATATTTA
1 AAAATTTA
*
6100950 ATAATTTA
1 AAAATTTA
6100958 GTCCATATTT
Statistics
Matches: 88, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
7 47 0.53
8 35 0.40
9 6 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
AAAATTTA
Found at i:6100920 original size:21 final size:21
Alignment explanation
Indices: 6100845--6100957 Score: 109
Period size: 23 Copynumber: 5.0 Consensus size: 21
6100835 AAATAAACTC
*
6100845 AAAAAATAAAATTTAAAAATTT
1 AAAAATTAAAATTT-AAAATTT
6100867 AAAAATTTAAAATTTAAAATTT
1 AAAAA-TTAAAATTTAAAATTT
*
6100889 AAAATTTAAAATTTAAAATTT
1 AAAAATTAAAATTTAAAATTT
* **
6100910 AAAAATAAAAAAATAAAAAATTTT
1 AAAAAT--TAAAATTTAAAA-TTT
*
6100934 AAAAATTTAATATTTAATAATTT
1 AAAAA-TTAAAATTTAA-AATTT
6100957 A
1 A
6100958 GTCCATATTT
Statistics
Matches: 75, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
21 21 0.28
22 16 0.21
23 27 0.36
24 10 0.13
25 1 0.01
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAATTAAAATTTAAAATTT
Found at i:6101028 original size:18 final size:19
Alignment explanation
Indices: 6101007--6101046 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
6100997 AAAAAAATTC
6101007 AAAA-GAGAAAAATAAAAA
1 AAAATGAGAAAAATAAAAA
**
6101025 AAAATGTTAAAAATAAAAA
1 AAAATGAGAAAAATAAAAA
6101044 AAA
1 AAA
6101047 TTTAAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAATGAGAAAAATAAAAA
Found at i:6110645 original size:27 final size:26
Alignment explanation
Indices: 6110597--6110690 Score: 89
Period size: 26 Copynumber: 3.6 Consensus size: 26
6110587 AAAGTAAACA
*
6110597 ATAAAACAATTTAAAATGAATAATAC
1 ATAAAACAATTTAAAATAAATAATAC
**
6110623 ATAAAACAAGTTTAAAATAAATAATGT
1 ATAAAACAA-TTTAAAATAAATAATAC
* * **
6110650 ATAAAGCATTTTAAAATTTATAATAC
1 ATAAAACAATTTAAAATAAATAATAC
* * *
6110676 ACAAAGCAAATTAAA
1 ATAAAACAATTTAAA
6110691 GAATGACATA
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 34 0.62
27 21 0.38
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (26 bp):
ATAAAACAATTTAAAATAAATAATAC
Found at i:6110727 original size:26 final size:27
Alignment explanation
Indices: 6110698--6110753 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
6110688 AAAGAATGAC
* *
6110698 ATATATGAA-TAATTTTAAAATAAATA
1 ATATATAAATTAATTTAAAAATAAATA
*
6110724 ATATATAAATTAATTTAAAAATAATTA
1 ATATATAAATTAATTTAAAAATAAATA
6110751 ATA
1 ATA
6110754 AGAAGTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (27 bp):
ATATATAAATTAATTTAAAAATAAATA
Found at i:6110885 original size:17 final size:17
Alignment explanation
Indices: 6110863--6110902 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
6110853 TGAAATATAT
*
6110863 AATATACAATAACTTAA
1 AATATAAAATAACTTAA
* *
6110880 AATATAAAATAATTTGA
1 AATATAAAATAACTTAA
6110897 AATATA
1 AATATA
6110903 TATATAACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (17 bp):
AATATAAAATAACTTAA
Found at i:6112770 original size:25 final size:26
Alignment explanation
Indices: 6112715--6112771 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
6112705 TTTAATTTCA
*
6112715 TATATTTATATATTTAAATTTTTATT
1 TATATTTATATATGTAAATTTTTATT
*
6112741 T-TATTTATA-GTGTAAATTATTT-TT
1 TATATTTATATATGTAAATT-TTTATT
6112765 TATATTT
1 TATATTT
6112772 CAATTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 10 0.37
25 16 0.59
26 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.65
Consensus pattern (26 bp):
TATATTTATATATGTAAATTTTTATT
Found at i:6116201 original size:9 final size:9
Alignment explanation
Indices: 6116184--6116217 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
6116174 AGATATTGGC
6116184 GGAGGTGGA
1 GGAGGTGGA
*
6116193 GGCGGTGGA
1 GGAGGTGGA
6116202 GGAGGTGGA
1 GGAGGTGGA
*
6116211 GGTGGTG
1 GGAGGTG
6116218 AAGCTGGTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.15, C:0.03, G:0.68, T:0.15
Consensus pattern (9 bp):
GGAGGTGGA
Found at i:6116402 original size:21 final size:21
Alignment explanation
Indices: 6116368--6116407 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6116358 ACAGCCTTAG
* *
6116368 GAGGCTGCGGTGGAGGCGACT
1 GAGGCGGCGGTGGACGCGACT
*
6116389 GAGGCGGCGTTGGACGCGA
1 GAGGCGGCGGTGGACGCGA
6116408 TGCTGCTGCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.20, G:0.53, T:0.12
Consensus pattern (21 bp):
GAGGCGGCGGTGGACGCGACT
Found at i:6117654 original size:19 final size:19
Alignment explanation
Indices: 6117617--6117654 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
6117607 TTTATACACT
*
6117617 AAAATGATTATTTTGTTAA
1 AAAATGATTAATTTGTTAA
6117636 AAAATTGATTAATTT-TTAA
1 AAAA-TGATTAATTTGTTAA
6117655 TTTTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (19 bp):
AAAATGATTAATTTGTTAA
Found at i:6117955 original size:15 final size:15
Alignment explanation
Indices: 6117937--6117969 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
6117927 TTTTAAAAAG
*
6117937 ATATTTTATTAATTA
1 ATATTTTATAAATTA
6117952 ATATTTTATAAATTA
1 ATATTTTATAAATTA
6117967 ATA
1 ATA
6117970 GCGAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTTTATAAATTA
Found at i:6120600 original size:12 final size:12
Alignment explanation
Indices: 6120583--6120607 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6120573 TATATATATT
6120583 TAAAAAATAATA
1 TAAAAAATAATA
6120595 TAAAAAATAATA
1 TAAAAAATAATA
6120607 T
1 T
6120608 GGGCGGGCCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TAAAAAATAATA
Found at i:6124775 original size:29 final size:29
Alignment explanation
Indices: 6124743--6124861 Score: 91
Period size: 29 Copynumber: 4.1 Consensus size: 29
6124733 TTTAATATAT
* *
6124743 TATTGCTATTATTATTATGTTTCTATTTA
1 TATTTCTATTATTATTATATTTCTATTTA
* * * * *
6124772 TATTTATTTTGTTATTCCA-ATAT-TATTTT
1 TATTTCTATTATTATT--ATATTTCTATTTA
* * *
6124801 TATTTATCTAATTATTAT-TTATCTATTTA
1 TATTTCTATTATTATTATATT-TCTATTTA
*
6124830 TATTTCTACTATTATTATATTTCTATTTA
1 TATTTCTATTATTATTATATTTCTATTTA
6124859 TAT
1 TAT
6124862 ACTAATATTA
Statistics
Matches: 68, Mismatches: 16, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
27 2 0.03
28 1 0.01
29 60 0.88
30 4 0.06
31 1 0.01
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.63
Consensus pattern (29 bp):
TATTTCTATTATTATTATATTTCTATTTA
Found at i:6124820 original size:15 final size:15
Alignment explanation
Indices: 6124800--6124847 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
6124790 AATATTATTT
6124800 TTATTTATCTAATTA
1 TTATTTATCTAATTA
*
6124815 TTATTTATCTATTTA
1 TTATTTATCTAATTA
*
6124830 -TATTTCTACT-ATTA
1 TTATTTAT-CTAATTA
6124844 TTAT
1 TTAT
6124848 ATTTCTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 9 0.32
15 19 0.68
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATTTATCTAATTA
Found at i:6124885 original size:29 final size:30
Alignment explanation
Indices: 6124811--6124886 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 30
6124801 TATTTATCTA
* *
6124811 ATTATTAT-TTATCTATTTATATTTCTACT
1 ATTATTATATTATCTATTTATATTACTAAT
6124840 ATTATTATATT-TCTATTTATA-TACTAAT
1 ATTATTATATTATCTATTTATATTACTAAT
*
6124868 ATTATTTTCATTAT-TATTT
1 ATTATTAT-ATTATCTATTT
6124887 TTTTTATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 12 0.29
29 26 0.63
30 3 0.07
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (30 bp):
ATTATTATATTATCTATTTATATTACTAAT
Found at i:6124999 original size:3 final size:3
Alignment explanation
Indices: 6124991--6125122 Score: 110
Period size: 3 Copynumber: 43.3 Consensus size: 3
6124981 TTTAAAACTT
6124991 TTA TTA TTA TTA TTA TTA TTA TTA -TA TT- TCTA TT- TATA TTTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA T-TA -TTA T-TA
* * * * *
6125037 TCA ATA TCA TTA TT- TTT TTA TATA TTA TTA TTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
* * *
6125082 TTA CTA TTA GTA TTA TTA TTA TTT TCTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T
6125123 ATTTATTTAT
Statistics
Matches: 104, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
2 6 0.06
3 86 0.83
4 11 0.11
5 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:6134559 original size:46 final size:46
Alignment explanation
Indices: 6134509--6134684 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
6134499 TGATTGAGCA
*
6134509 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
6134555 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
6134602 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
6134648 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6134685 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
46 71 0.67
47 35 0.33
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:6134665 original size:93 final size:93
Alignment explanation
Indices: 6134506--6134676 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
6134496 GGATGATTGA
* * *
6134506 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
6134571 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
6134599 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
6134664 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
6134677 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:6136883 original size:33 final size:33
Alignment explanation
Indices: 6136843--6136908 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
6136833 AATTTGAGAG
6136843 AAAAATTTATTATTATACAAATAAAAATTATAT
1 AAAAATTTATTATTATACAAATAAAAATTATAT
6136876 AAAAATTTATTATTATACAAATAAAAATTATAT
1 AAAAATTTATTATTATACAAATAAAAATTATAT
6136909 GCAATTGCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (33 bp):
AAAAATTTATTATTATACAAATAAAAATTATAT
Found at i:6136905 original size:18 final size:18
Alignment explanation
Indices: 6136851--6136906 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
6136841 AGAAAAATTT
6136851 ATTATTATACAAATAAAA
1 ATTATTATACAAATAAAA
***
6136869 ATTA-TATA-AAA-ATTT
1 ATTATTATACAAATAAAA
6136884 ATTATTATACAAATAAAA
1 ATTATTATACAAATAAAA
6136902 ATTAT
1 ATTAT
6136907 ATGCAATTGC
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
15 5 0.17
16 7 0.24
17 7 0.24
18 10 0.34
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (18 bp):
ATTATTATACAAATAAAA
Found at i:6143015 original size:37 final size:37
Alignment explanation
Indices: 6142951--6143043 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
6142941 AGTACACAAG
* * *
6142951 TAATCCAACTGA-AACACGCCAATCGCTCACAAGAGG
1 TAATCCAACCGATAACACGCCAAACGCTCACAAGAGC
* * * *
6142987 TACTCCACCCGATAACATGCCAAACGCTCATAAGAGC
1 TAATCCAACCGATAACACGCCAAACGCTCACAAGAGC
6143024 TAATCCAACCGATAACACGC
1 TAATCCAACCGATAACACGC
6143044 TATGACACTA
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
36 9 0.20
37 37 0.80
ACGTcount: A:0.38, C:0.33, G:0.14, T:0.15
Consensus pattern (37 bp):
TAATCCAACCGATAACACGCCAAACGCTCACAAGAGC
Found at i:6145643 original size:50 final size:50
Alignment explanation
Indices: 6145519--6145767 Score: 291
Period size: 50 Copynumber: 4.8 Consensus size: 50
6145509 GATAATAACA
* * ** * * *
6145519 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
6145570 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
6145620 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
6145670 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
6145725 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
6145768 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
50 93 0.55
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:6145697 original size:100 final size:104
Alignment explanation
Indices: 6145518--6145767 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 104
6145508 TGATAATAAC
** * *
6145518 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGTTGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTCTCGGTGCCCATGCCATG
* *
6145583 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
*
6145620 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
6145684 CCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
66 CCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
6145725 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
6145768 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
100 51 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:6145883 original size:13 final size:13
Alignment explanation
Indices: 6145862--6145893 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6145852 GCTTGGATCA
*
6145862 TCATCAAATAAAT
1 TCATAAAATAAAT
6145875 TCATAAAATAAAT
1 TCATAAAATAAAT
6145888 TCATAA
1 TCATAA
6145894 TTGCTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:6146183 original size:5 final size:5
Alignment explanation
Indices: 6146167--6146202 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
6146157 TTCTTTTGTT
6146167 ATATA TATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA -ATATA ATATA ATATA ATATA ATATA ATATA
6146203 TTAATAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:6149082 original size:30 final size:30
Alignment explanation
Indices: 6149038--6149100 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
6149028 GCTTAACAAG
6149038 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
6149068 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
6149098 CAA
1 CAA
6149101 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:6149156 original size:22 final size:22
Alignment explanation
Indices: 6149131--6149173 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6149121 TATCCAAACA
6149131 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
6149153 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
6149174 AATAGGGAGA
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:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:6151571 original size:28 final size:26
Alignment explanation
Indices: 6151518--6151571 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
6151508 AAAAAATATT
*
6151518 TTAATAATTTTAAAATTAAATTAATA
1 TTAATAATTTTAAAATTAAATCAATA
* *
6151544 TTAATTAATTTTTAATATTAACTCAATA
1 TTAA-TAA-TTTTAAAATTAAATCAATA
6151572 AAACATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 4 0.17
27 3 0.13
28 16 0.70
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (26 bp):
TTAATAATTTTAAAATTAAATCAATA
Found at i:6162392 original size:20 final size:21
Alignment explanation
Indices: 6162367--6162411 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
6162357 AGAGTATATT
6162367 AAAAAATATGAGGAAATA-CAA
1 AAAAAAT-TGAGGAAATACCAA
*
6162388 AAAAAATTGAGGGAATACCAA
1 AAAAAATTGAGGAAATACCAA
6162409 AAA
1 AAA
6162412 TCATAACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.64, C:0.07, G:0.16, T:0.13
Consensus pattern (21 bp):
AAAAAATTGAGGAAATACCAA
Found at i:6162644 original size:19 final size:19
Alignment explanation
Indices: 6162569--6163166 Score: 171
Period size: 20 Copynumber: 30.0 Consensus size: 19
6162559 ACCAAGAGTA
* **
6162569 ATGAGAAAGTACCAAAATTT
1 ATGAGGAAGTA-CAAAAAAT
* * *
6162589 ATGATGATGTATAAAAAAT
1 ATGAGGAAGTACAAAAAAT
6162608 CATGAGGAAGTACAAAAAAAT
1 -ATGAGGAAGTAC-AAAAAAT
*
6162629 ACGAGGAAGTACAAAAAATT
1 ATGAGGAAGTACAAAAAA-T
* * *
6162649 ATGAGGGAGTACCAAAACT
1 ATGAGGAAGTACAAAAAAT
* *
6162668 -T-A-GATGTATAAAAAAT
1 ATGAGGAAGTACAAAAAAT
*
6162684 CATGAGGAAATACTAAAAAAT
1 -ATGAGGAAGTAC-AAAAAAT
6162705 ATGAGGAAGTACAAAAAATT
1 ATGAGGAAGTACAAAAAA-T
* *
6162725 ACGAGGGA-TACCAAAAAAT
1 ATGAGGAAGTA-CAAAAAAT
* * *
6162744 ACGAGGATGCACAAAAAATT
1 ATGAGGAAGTACAAAAAA-T
* * **
6162764 ATGAAGATGTACAAAACTT
1 ATGAGGAAGTACAAAAAAT
*
6162783 ATGA-GATAATACAAAAAAT
1 ATGAGGA-AGTACAAAAAAT
* *
6162802 ACGAGGGAA-TACTAAAAAAA
1 ATGA-GGAAGTAC-AAAAAAT
* *
6162822 ATGA-TAAGTACAGAAAATT
1 ATGAGGAAGTACA-AAAAAT
* *
6162841 ATGAGAGAA-TATTATAAAAT
1 ATGAG-GAAGTA-CAAAAAAT
** * *
6162861 CGGAGAAAGTATAAAAAAT
1 ATGAGGAAGTACAAAAAAT
* * *
6162880 GAAGAAGGATGTACTAAAAATT
1 -ATG-AGGAAGTAC-AAAAAAT
* * **
6162902 ATAAGGATGTATCAAAACGT
1 ATGAGGAAGTA-CAAAAAAT
*
6162922 ACGAGGAAGTACAAAAAATT
1 ATGAGGAAGTACAAAAAA-T
*
6162942 ATGAGAGAA-TACAGAAAAAAG
1 ATGAG-GAAGTAC--AAAAAAT
*
6162963 AAGAAGAGAAAGTACAAAAAAAT
1 ATG-AG-G-AAGTAC-AAAAAAT
* * *
6162986 ATGATGATGTATCAAAAATT
1 ATGAGGAAGTA-CAAAAAAT
* *
6163006 ATGAAGATA-TTCAAAAAACT
1 ATGAGGA-AGTACAAAAAA-T
*
6163026 ATGAGAGAA-TATCAAAAATT
1 ATGAG-GAAGTA-CAAAAAAT
* *
6163046 ACGAGGGAAAATTA-AAAAAAT
1 ATGA-GG--AAGTACAAAAAAT
* * *
6163067 AAGAGGAAGTGCCAAAAATT
1 ATGAGGAAGT-ACAAAAAAT
* * *
6163087 ATAAAAGAA-TACCATAAAAT
1 AT-GAGGAAGTA-CAAAAAAT
*
6163107 ATGAGGAAGTATAAAAAATT
1 ATGAGGAAGTACAAAAAA-T
*
6163127 ATGAGGGAA-TACAAAATAAAA
1 ATGA-GGAAGTAC-AAA-AAAT
* *
6163148 ATGAGAAAGTACCAAAAAT
1 ATGAGGAAGTACAAAAAAT
6163167 TATGGAAAAA
Statistics
Matches: 423, Mismatches: 103, Indels: 105
0.67 0.16 0.17
Matches are distributed among these distances:
16 9 0.02
17 1 0.00
18 10 0.02
19 97 0.23
20 199 0.47
21 70 0.17
22 22 0.05
23 12 0.03
24 3 0.01
ACGTcount: A:0.55, C:0.07, G:0.18, T:0.20
Consensus pattern (19 bp):
ATGAGGAAGTACAAAAAAT
Found at i:6162689 original size:76 final size:75
Alignment explanation
Indices: 6162594--6162740 Score: 249
Period size: 76 Copynumber: 1.9 Consensus size: 75
6162584 AATTTATGAT
* *
6162594 GATGTATAAAAAATCATGAGGAAGTACAAAAAAATACGAGGAAGTACAAAAAATTATGAGGGAGT
1 GATGTATAAAAAATCATGAGGAAATACAAAAAAATACGAGGAAGTACAAAAAATTACGAGGGA-T
6162659 ACCAAAACTTA
65 ACCAAAACTTA
* *
6162670 GATGTATAAAAAATCATGAGGAAATACTAAAAAATATGAGGAAGTACAAAAAATTACGAGGGATA
1 GATGTATAAAAAATCATGAGGAAATACAAAAAAATACGAGGAAGTACAAAAAATTACGAGGGATA
6162735 CCAAAA
66 CCAAAA
6162741 AATACGAGGA
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
75 8 0.12
76 59 0.88
ACGTcount: A:0.54, C:0.09, G:0.19, T:0.18
Consensus pattern (75 bp):
GATGTATAAAAAATCATGAGGAAATACAAAAAAATACGAGGAAGTACAAAAAATTACGAGGGATA
CCAAAACTTA
Found at i:6162741 original size:39 final size:38
Alignment explanation
Indices: 6162578--6162845 Score: 152
Period size: 39 Copynumber: 6.9 Consensus size: 38
6162568 AATGAGAAAG
** * * * *
6162578 TACCAAAATTTATGATGATGTATAAAAAATCATGAGGAA
1 TACCAAAAAATATGA-GAAGTACAAAAAATTATGAGGGA
* *
6162617 GTACAAAAAAATACGAGGAAGTACAAAAAATTATGAGGGA
1 -TACCAAAAAATATGA-GAAGTACAAAAAATTATGAGGGA
* * * * *
6162657 GTACC-AAAACT-T-AGATGTATAAAAAATCATGAGGAAA
1 -TACCAAAAAATATGAGAAGTACAAAAAATTATGAGG-GA
* *
6162694 TACTAAAAAATATGAGGAAGTACAAAAAATTACGAGGGA
1 TACCAAAAAATATGA-GAAGTACAAAAAATTATGAGGGA
* * * *
6162733 TACCAAAAAATACGAGGATGCACAAAAAATTATGA-AGA
1 TACCAAAAAATATGA-GAAGTACAAAAAATTATGAGGGA
** * *
6162771 TGTA-CAAAACTTATGAGATAATACAAAAAA-TACGAGGGAA
1 --TACCAAAAAATATGAGA-AGTACAAAAAATTATGAGGG-A
* * * *
6162811 TACTAAAAAAAATGATAAGTACAGAAAATTATGAG
1 TACCAAAAAATATGAGAAGTACAAAAAATTATGAG
6162846 AGAATATTAT
Statistics
Matches: 171, Mismatches: 45, Indels: 25
0.71 0.19 0.10
Matches are distributed among these distances:
36 21 0.12
37 7 0.04
38 20 0.12
39 69 0.40
40 54 0.32
ACGTcount: A:0.53, C:0.09, G:0.18, T:0.20
Consensus pattern (38 bp):
TACCAAAAAATATGAGAAGTACAAAAAATTATGAGGGA
Found at i:6163088 original size:81 final size:80
Alignment explanation
Indices: 6162998--6163183 Score: 191
Period size: 81 Copynumber: 2.3 Consensus size: 80
6162988 GATGATGTAT
* * *
6162998 CAAAAATTATGAAG-ATATTCAAAAAACTATGAGAGAA-TATCAAAAATTACGAGGGAAAATTAA
1 CAAAAATTATGAAGAATA-CCAAAAAA-TATGAG-GAAGTATAAAAAATTACGAGGGAAAA-CAA
* *
6163061 AA-AAATAA-GAGGAAGTGC
62 AATAAA-AATGAGAAAGTAC
* * * *
6163079 CAAAAATTATAAAAGAATACCATAAAATATGAGGAAGTATAAAAAATTATGAGGGAATACAAAAT
1 CAAAAATTAT-GAAGAATACCAAAAAATATGAGGAAGTATAAAAAATTACGAGGGAAAACAAAAT
6163144 AAAAATGAGAAAGTAC
65 AAAAATGAGAAAGTAC
*
6163160 CAAAAATTATGGAAAAATACCAAA
1 CAAAAATTAT-GAAGAATACCAAA
6163184 CAACAAGAAA
Statistics
Matches: 87, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
80 9 0.10
81 66 0.76
82 9 0.10
83 3 0.03
ACGTcount: A:0.58, C:0.08, G:0.15, T:0.19
Consensus pattern (80 bp):
CAAAAATTATGAAGAATACCAAAAAATATGAGGAAGTATAAAAAATTACGAGGGAAAACAAAATA
AAAATGAGAAAGTAC
Found at i:6168798 original size:13 final size:13
Alignment explanation
Indices: 6168780--6168804 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6168770 ACGTATTTAT
6168780 ATGAAAATAATAA
1 ATGAAAATAATAA
6168793 ATGAAAATAATA
1 ATGAAAATAATA
6168805 TATATACAAA
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
ATGAAAATAATAA
Found at i:6168962 original size:26 final size:25
Alignment explanation
Indices: 6168914--6168979 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
6168904 AATAAATTAG
*
6168914 AAGAAAATATTTACATGACAGATTTGGA
1 AAGAAAATA--TACATGAAAGATTT-GA
* *
6168942 AAGAAAATATACATTAAAGATTTTA
1 AAGAAAATATACATGAAAGATTTGA
*
6168967 AAGAAACTATACA
1 AAGAAAATATACA
6168980 AATAAAATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 13 0.38
26 12 0.35
28 9 0.26
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.27
Consensus pattern (25 bp):
AAGAAAATATACATGAAAGATTTGA
Found at i:6169146 original size:15 final size:16
Alignment explanation
Indices: 6169114--6169165 Score: 65
Period size: 15 Copynumber: 3.4 Consensus size: 16
6169104 TCAAAAGAAA
6169114 ATACATAAAATA-ATAT
1 ATACA-AAAATATATAT
6169130 ATA-AAAAATATATAT
1 ATACAAAAATATATAT
*
6169145 ATACAAAAACATA-AT
1 ATACAAAAATATATAT
6169160 ATACAA
1 ATACAA
6169166 CAATTCAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
14 6 0.18
15 16 0.48
16 11 0.33
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (16 bp):
ATACAAAAATATATAT
Found at i:6169152 original size:17 final size:16
Alignment explanation
Indices: 6169114--6169162 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
6169104 TCAAAAGAAA
*
6169114 ATACATAAAATAATAT
1 ATACAAAAAATAATAT
6169130 AT--AAAAAATATATAT
1 ATACAAAAAATA-ATAT
6169145 ATACAAAAACATAATAT
1 ATACAAAAA-ATAATAT
6169162 A
1 A
6169163 CAACAATTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 7 0.25
15 6 0.21
16 2 0.07
17 10 0.36
18 3 0.11
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
ATACAAAAAATAATAT
Found at i:6170909 original size:67 final size:67
Alignment explanation
Indices: 6170801--6171001 Score: 339
Period size: 67 Copynumber: 3.0 Consensus size: 67
6170791 CCTATATCTT
* * *
6170801 CAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGTTCCATATTCGATA
1 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGTCGATA
6170866 CA
66 CA
* * * *
6170868 CAACCTGTTCTCTTGCTATCTCAGAGAGATAAGACTGGTGGCTAAAATCTGCTCCATAGCCGATA
1 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGTCGATA
6170933 CA
66 CA
6170935 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGTCGATA
1 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGTCGATA
6171000 CA
66 CA
6171002 TGGAGATAAG
Statistics
Matches: 123, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 123 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (67 bp):
CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGTCGATA
CA
Found at i:6171153 original size:176 final size:176
Alignment explanation
Indices: 6170935--6171678 Score: 1058
Period size: 176 Copynumber: 4.2 Consensus size: 176
6170925 AGCCGATACA
* *
6170935 CAACCTGCTCTCTTGCT-ACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGTCGAT
1 CAACCTGCTCTC-TG-TAACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGAT
*
6170999 ACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTA
64 ACATGGAGATAAGACTCGCCATCTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGAA
* * * * * *
6171064 ATTTTCAGTATGCTTCCTGTAACTTCAGGAAGATAAGACTTGTATCTT
129 ATCTTCAGTCTGCTTCCTGCAACTTCAGAAAGATAAGACCTGTATATT
**
6171112 CAACCTGCTCTCTGTAACTTCAGAGAGATAAAACTGGTGGCTAAAATCTGCTCCATAGCCGATAC
1 CAACCTGCTCTCTGTAACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATAC
* * *
6171177 ATGGAGATAAGACTCGTCATCTTCGATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAAT
66 ATGGAGATAAGACTCGCCATCTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGAAAT
* * * * *
6171242 TTTCAGTCCGCTTCCTGCAACTTCAGGAAGATAAGACTTGCATATT
131 CTTCAGTCTGCTTCCTGCAACTTCAGAAAGATAAGACCTGTATATT
* * * * * *
6171288 GAGCCTGCTTTACTGCAACTTCAGAGAGATAAGGCTGGTGGCCAAAATCTGCTCCATAGCCGATT
1 CAACCTGCTCT-CTGTAACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATA
** * * * *
6171353 CATGGAGATAAGACTCATCATTTTTGATCTGCTTCATAACCGATACATGGAGATAAGATCTGAAA
65 CATGGAGATAAGACTCGCCATCTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGAAA
* *
6171418 TCTTCGGTCTGCTTCCTGCAACTTCAGAAAGATAAGACCTGTATCTT
130 TCTTCAGTCTGCTTCCTGCAACTTCAGAAAGATAAGACCTGTATATT
* * * *
6171465 CGACCTGCTCTCTGTAACTTCAGAGAGATAAGGCTAGTGGCTAAAATTTGCTCCATAGCCGATAT
1 CAACCTGCTCTCTGTAACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATAC
* ** *
6171530 ATGGAGATAAGACTCGCCATTTTTTATCTTCTCCATAGCCGATACATGGAGATAAGATCTGAAAT
66 ATGGAGATAAGACTCGCCATCTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGAAAT
* *
6171595 CTTCGGTCTGCTTCCTGCAATTTCAGAAAGATAAGACCTGTATATT
131 CTTCAGTCTGCTTCCTGCAACTTCAGAAAGATAAGACCTGTATATT
*
6171641 CAACCTGCTCTCTGCAACTTCAGAGAGATAAGGCTGGT
1 CAACCTGCTCTCTGTAACTTCAGAGAGATAAGGCTGGT
6171679 ATCTTCACCG
Statistics
Matches: 511, Mismatches: 54, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
175 1 0.00
176 345 0.68
177 165 0.32
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (176 bp):
CAACCTGCTCTCTGTAACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATAC
ATGGAGATAAGACTCGCCATCTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGAAAT
CTTCAGTCTGCTTCCTGCAACTTCAGAAAGATAAGACCTGTATATT
Found at i:6171185 original size:44 final size:45
Alignment explanation
Indices: 6171136--6171231 Score: 113
Period size: 45 Copynumber: 2.2 Consensus size: 45
6171126 TAACTTCAGA
* *
6171136 GAGATAAAACTGGT-GGCTAAAATCTGCTCCATAGCCGATACATG
1 GAGATAAAACTCGTCAGCTAAAATCTGCTCCATAGCCGATACATG
* * *** *
6171180 GAGATAAGACTCGTCATCTTCGATCTGCTCCATAGTCGATACATG
1 GAGATAAAACTCGTCAGCTAAAATCTGCTCCATAGCCGATACATG
6171225 GAGATAA
1 GAGATAA
6171232 GATCTGTAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 12 0.28
45 31 0.72
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (45 bp):
GAGATAAAACTCGTCAGCTAAAATCTGCTCCATAGCCGATACATG
Found at i:6171384 original size:353 final size:352
Alignment explanation
Indices: 6170935--6171678 Score: 1101
Period size: 353 Copynumber: 2.1 Consensus size: 352
6170925 AGCCGATACA
* * * *
6170935 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGTCGATA
1 CAACCTGCTCTC-TGCAACTTCAGAGAGATAAGGCTGGTGGCCAAAATCTGCTCCATAGCCGATA
* * *
6171000 CATGGAGATAAGACTCGCCATCTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAA
65 CATGGAGATAAGACTCACCATCTTCGATCTGCTCCATAACCGATACATGGAGATAAGATCTGAAA
* * * *
6171065 TTTTCAGTATGCTTCCTGTAACTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGTAAC
130 TCTTCAGTATGCTTCCTGCAACTTCAGAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGTAAC
* *
6171130 TTCAGAGAGATAAAACTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGTC
195 TTCAGAGAGATAAAACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCC
* * *
6171195 ATCTTCGATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTCAGTCCGCTTCCTGC
260 ATCTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGAAATCTTCAGTCCGCTTCCTGC
* *
6171260 AACTTCAGGAAGATAAGACTTGCATATT
325 AACTTCAGAAAGATAAGACCTGCATATT
* * * *
6171288 GAGCCTGCTTTACTGCAACTTCAGAGAGATAAGGCTGGTGGCCAAAATCTGCTCCATAGCCGATT
1 CAACCTGCTCT-CTGCAACTTCAGAGAGATAAGGCTGGTGGCCAAAATCTGCTCCATAGCCGATA
* * * *
6171353 CATGGAGATAAGACTCATCATTTTTGATCTGCTTCATAACCGATACATGGAGATAAGATCTGAAA
65 CATGGAGATAAGACTCACCATCTTCGATCTGCTCCATAACCGATACATGGAGATAAGATCTGAAA
* * *
6171418 TCTTCGGTCTGCTTCCTGCAACTTCAGAAAGATAAGACCTGTATCTTCGACCTGCTCTCTGTAAC
130 TCTTCAGTATGCTTCCTGCAACTTCAGAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGTAAC
** * *
6171483 TTCAGAGAGATAAGGCTAGTGGCTAAAATTTGCTCCATAGCCGATATATGGAGATAAGACTCGCC
195 TTCAGAGAGATAAAACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCC
* ** * * *
6171548 ATTTTTTATCTTCTCCATAGCCGATACATGGAGATAAGATCTGAAATCTTCGGTCTGCTTCCTGC
260 ATCTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGAAATCTTCAGTCCGCTTCCTGC
* *
6171613 AATTTCAGAAAGATAAGACCTGTATATT
325 AACTTCAGAAAGATAAGACCTGCATATT
6171641 CAACCTGCTCTCTGCAACTTCAGAGAGATAAGGCTGGT
1 CAACCTGCTCTCTGCAACTTCAGAGAGATAAGGCTGGT
6171679 ATCTTCACCG
Statistics
Matches: 346, Mismatches: 44, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
352 27 0.08
353 318 0.92
354 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (352 bp):
CAACCTGCTCTCTGCAACTTCAGAGAGATAAGGCTGGTGGCCAAAATCTGCTCCATAGCCGATAC
ATGGAGATAAGACTCACCATCTTCGATCTGCTCCATAACCGATACATGGAGATAAGATCTGAAAT
CTTCAGTATGCTTCCTGCAACTTCAGAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGTAACT
TCAGAGAGATAAAACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA
TCTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGAAATCTTCAGTCCGCTTCCTGCA
ACTTCAGAAAGATAAGACCTGCATATT
Found at i:6171429 original size:45 final size:45
Alignment explanation
Indices: 6171334--6171432 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 45
6171324 GGTGGCCAAA
* * * * * *
6171334 ATCTGCTCCATAGCCGATTCATGGAGATAAGACTCATCATTTTTG
1 ATCTGCTTCATAACCGATACATGGAGATAAGACTCATAATCTTCG
*
6171379 ATCTGCTTCATAACCGATACATGGAGATAAGATCTGA-AATCTTCG
1 ATCTGCTTCATAACCGATACATGGAGATAAGA-CTCATAATCTTCG
*
6171424 GTCTGCTTC
1 ATCTGCTTC
6171433 CTGCAACTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
45 42 0.93
46 3 0.07
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (45 bp):
ATCTGCTTCATAACCGATACATGGAGATAAGACTCATAATCTTCG
Found at i:6171473 original size:43 final size:44
Alignment explanation
Indices: 6171403--6171496 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 44
6171393 CGATACATGG
* **
6171403 AGATAAGATCTGAAATCTTCGGTCTGCT-TCCTGCAACTTCAGAA
1 AGATAAGACCTGAAATCTTCGACCTGCTCT-CTGCAACTTCAGAA
* * *
6171447 AGATAAGACCTG-TATCTTCGACCTGCTCTCTGTAACTTCAGAG
1 AGATAAGACCTGAAATCTTCGACCTGCTCTCTGCAACTTCAGAA
6171490 AGATAAG
1 AGATAAG
6171497 GCTAGTGGCT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
43 31 0.72
44 12 0.28
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (44 bp):
AGATAAGACCTGAAATCTTCGACCTGCTCTCTGCAACTTCAGAA
Found at i:6171844 original size:64 final size:65
Alignment explanation
Indices: 6171743--6171871 Score: 206
Period size: 64 Copynumber: 2.0 Consensus size: 65
6171733 TCATATATCT
6171743 ATGCTTATGCCAAATAATTAGGATGCTATGACCGAAATG-AATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGACCGAAATGAAATCAAATGCTCCTAACTAGATGTG
* * ** *
6171807 ATGCTTATGTCAAATAATTAGGGTGCTATGATTGAAATGAAATCAAATGCTCTTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGACCGAAATGAAATCAAATGCTCCTAACTAGATGTG
6171872 CTATTGTATG
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
64 35 0.59
65 24 0.41
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (65 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGACCGAAATGAAATCAAATGCTCCTAACTAGATGTG
Found at i:6181157 original size:23 final size:23
Alignment explanation
Indices: 6181123--6181170 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
6181113 TCAATTCGAC
* *
6181123 AAAATTTCTAAACTAAACTTTATA
1 AAAATTTCTAAAATAAA-TTCATA
6181147 AAAATTT-TAAAATAAATTCATA
1 AAAATTTCTAAAATAAATTCATA
6181169 AA
1 AA
6181171 TATTAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 8 0.36
24 7 0.32
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATTTCTAAAATAAATTCATA
Found at i:6183134 original size:14 final size:14
Alignment explanation
Indices: 6183098--6183141 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
6183088 TTCTATTTCC
*
6183098 TTAAATAAATATTAT
1 TTAAATAAAT-TAAT
*
6183113 TT-ATTAAATTAAT
1 TTAAATAAATTAAT
6183126 TTAAATAAATTAAT
1 TTAAATAAATTAAT
6183140 TT
1 TT
6183142 TTTAATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 5 0.20
14 18 0.72
15 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAAATAAATTAAT
Found at i:6183157 original size:16 final size:17
Alignment explanation
Indices: 6183125--6183160 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
6183115 ATTAAATTAA
6183125 TTTAAATAAATTAATTT
1 TTTAAATAAATTAATTT
*
6183142 TTTAATTAAA-TAATTT
1 TTTAAATAAATTAATTT
6183158 TTT
1 TTT
6183161 CAACCCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTAAATAAATTAATTT
Found at i:6185474 original size:26 final size:27
Alignment explanation
Indices: 6185436--6185498 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
6185426 TTAAACCAAA
*
6185436 TTTTTCAAAAACACTTCTCAAAAGTAC
1 TTTTTCAAAAACACTTCTCAAAAATAC
* *
6185463 TTTTTC-ACAACACTTTTCAAAAATAC
1 TTTTTCAAAAACACTTCTCAAAAATAC
6185489 -TTTTCAAAAA
1 TTTTTCAAAAA
6185499 TATTCCCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 5 0.16
26 20 0.65
27 6 0.19
ACGTcount: A:0.41, C:0.21, G:0.02, T:0.37
Consensus pattern (27 bp):
TTTTTCAAAAACACTTCTCAAAAATAC
Found at i:6185499 original size:13 final size:13
Alignment explanation
Indices: 6185437--6185500 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
6185427 TAAACCAAAT
*
6185437 TTTTCAAAAACAC
1 TTTTCAAAAATAC
* *
6185450 TTCTCAAAAGTAC
1 TTTTCAAAAATAC
* *
6185463 TTTTTC-ACAACAC
1 -TTTTCAAAAATAC
6185476 TTTTCAAAAATAC
1 TTTTCAAAAATAC
6185489 TTTTCAAAAATA
1 TTTTCAAAAATA
6185501 TTCCCAAACT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
12 5 0.12
13 31 0.77
14 4 0.10
ACGTcount: A:0.42, C:0.20, G:0.02, T:0.36
Consensus pattern (13 bp):
TTTTCAAAAATAC
Found at i:6190089 original size:19 final size:18
Alignment explanation
Indices: 6190035--6190123 Score: 79
Period size: 19 Copynumber: 4.7 Consensus size: 18
6190025 TATGCGCTAG
6190035 GATGCACTTTGTGTGCCA
1 GATGCACTTTGTGTGCCA
* **
6190053 GATACGCGCTCCGTGTGCCAA
1 GAT--GCACTTTGTGTGCC-A
6190074 GATGCACTTTGTGTGCCA
1 GATGCACTTTGTGTGCCA
**
6190092 GCATGCACTTCCTGTGCCAA
1 G-ATGCACTTTGTGTGCC-A
*
6190112 GATGCATTTTGT
1 GATGCACTTTGT
6190124 ACGCCAGTAT
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
18 5 0.09
19 33 0.60
20 13 0.24
21 4 0.07
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.30
Consensus pattern (18 bp):
GATGCACTTTGTGTGCCA
Found at i:6190117 original size:38 final size:38
Alignment explanation
Indices: 6190035--6190123 Score: 119
Period size: 38 Copynumber: 2.3 Consensus size: 38
6190025 TATGCGCTAG
*
6190035 GATGCACTTTGTGTGCCAGATACGCGCTCCGTGTGCCAA
1 GATGCACTTTGTGTGCCAGATA-GCACTCCGTGTGCCAA
6190074 GATGCACTTTGTGTGCCAGCAT-GCACTTCC-TGTGCCAA
1 GATGCACTTTGTGTGCCAG-ATAGCAC-TCCGTGTGCCAA
*
6190112 GATGCATTTTGT
1 GATGCACTTTGT
6190124 ACGCCAGTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
38 22 0.48
39 22 0.48
40 2 0.04
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.30
Consensus pattern (38 bp):
GATGCACTTTGTGTGCCAGATAGCACTCCGTGTGCCAA
Found at i:6190550 original size:27 final size:27
Alignment explanation
Indices: 6190512--6190566 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
6190502 TTATAAAGAA
6190512 TTTGATTCATGGTTAATATTGAATTGG
1 TTTGATTCATGGTTAATATTGAATTGG
6190539 TTTGATTCATGGTTAATATTGAATTGG
1 TTTGATTCATGGTTAATATTGAATTGG
6190566 T
1 T
6190567 ATGTAAGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.04, G:0.22, T:0.49
Consensus pattern (27 bp):
TTTGATTCATGGTTAATATTGAATTGG
Found at i:6192289 original size:62 final size:61
Alignment explanation
Indices: 6192174--6192289 Score: 133
Period size: 62 Copynumber: 1.9 Consensus size: 61
6192164 TTGACTATCA
* * * * * * * *
6192174 TGGTAAACCATCGTTGTTGTGCATTTGAGGTGGTAAGTTATCGTTGTCAGGCAATTCGGGG
1 TGGTAAACCATCATTGTCGGGCATCTGAAGTGGTAACTCATCATTGTCAGGCAATTCGGGG
* *
6192235 TGGTAAACCATCATTGTCGGGCAATCTGAAGTGGTAACTCATCATTTTCGGGCAA
1 TGGTAAACCATCATTGTCGGGC-ATCTGAAGTGGTAACTCATCATTGTCAGGCAA
6192290 CCCAAGATGA
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
61 19 0.43
62 25 0.57
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.32
Consensus pattern (61 bp):
TGGTAAACCATCATTGTCGGGCATCTGAAGTGGTAACTCATCATTGTCAGGCAATTCGGGG
Found at i:6194242 original size:32 final size:32
Alignment explanation
Indices: 6194199--6194265 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
6194189 AGATCATGCC
*
6194199 TCCACTTGCTAATCCCCCATAGAAGGATTAGT
1 TCCACTCGCTAATCCCCCATAGAAGGATTAGT
6194231 TCCACTCGCTAATCCCCCATAGAAGGATTAGT
1 TCCACTCGCTAATCCCCCATAGAAGGATTAGT
6194263 TCC
1 TCC
6194266 TCATGGCTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (32 bp):
TCCACTCGCTAATCCCCCATAGAAGGATTAGT
Found at i:6208396 original size:25 final size:25
Alignment explanation
Indices: 6208366--6208415 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
6208356 TATCTAAATC
6208366 ATCGAGCAAAAAAGAGTAAAAATAA
1 ATCGAGCAAAAAAGAGTAAAAATAA
*
6208391 ATCGAGCAAAAGAGAGTAAAAATAA
1 ATCGAGCAAAAAAGAGTAAAAATAA
6208416 GTAATCTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.62, C:0.08, G:0.18, T:0.12
Consensus pattern (25 bp):
ATCGAGCAAAAAAGAGTAAAAATAA
Found at i:6208499 original size:21 final size:19
Alignment explanation
Indices: 6208475--6208513 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
6208465 CATACACATA
6208475 CACATATCATATTATATATAT
1 CACATAT-ATA-TATATATAT
6208496 CACATATATATATATATA
1 CACATATATATATATATA
6208514 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 3 0.17
21 7 0.39
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (19 bp):
CACATATATATATATATAT
Found at i:6211843 original size:19 final size:19
Alignment explanation
Indices: 6211819--6211856 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6211809 AGAACAAGAA
6211819 GAAGGAAATAAGGTTTCTG
1 GAAGGAAATAAGGTTTCTG
6211838 GAAGGAAATAAGGTTTCTG
1 GAAGGAAATAAGGTTTCTG
6211857 AAGTTGCAAA
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:0.37, C:0.05, G:0.32, T:0.26
Consensus pattern (19 bp):
GAAGGAAATAAGGTTTCTG
Found at i:6216865 original size:2 final size:2
Alignment explanation
Indices: 6216858--6216889 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6216848 ATGATAAGAC
6216858 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
6216890 TATATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:6217555 original size:25 final size:25
Alignment explanation
Indices: 6217508--6217590 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
6217498 ATTTGCTTAT
* * * *
6217508 ACGAGCTATGAAACAATATGCTCTC
1 ACGAGCTGTGAATCGATAAGCTCTC
6217533 ACGAGCTGTGAATCGATAAGCTCAT-
1 ACGAGCTGTGAATCGATAAGCTC-TC
* * *
6217558 ACGAGCTGAGAATCGGTAAACTCTC
1 ACGAGCTGTGAATCGATAAGCTCTC
6217583 ACGAGCTG
1 ACGAGCTG
6217591 AAAATTGGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
24 1 0.02
25 47 0.96
26 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.22
Consensus pattern (25 bp):
ACGAGCTGTGAATCGATAAGCTCTC
Found at i:6229762 original size:2 final size:2
Alignment explanation
Indices: 6229755--6229780 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6229745 TGAAGCTTCA
6229755 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6229781 GCTACTTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6231036 original size:20 final size:20
Alignment explanation
Indices: 6231011--6231053 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
6231001 ATCAGTATTC
6231011 TTATCCTGAATTTTAGGATT
1 TTATCCTGAATTTTAGGATT
*
6231031 TTATCCTGAATTTTAGTATT
1 TTATCCTGAATTTTAGGATT
6231051 TTA
1 TTA
6231054 ATTTGGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (20 bp):
TTATCCTGAATTTTAGGATT
Found at i:6231696 original size:2 final size:2
Alignment explanation
Indices: 6231689--6231717 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6231679 TTGTTGGGTT
6231689 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 T
6231718 TCATATTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6235482 original size:39 final size:39
Alignment explanation
Indices: 6235432--6235512 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
6235422 AATTATCTTA
6235432 AATCATTTGCTTCCTAAACATCACATTTTGCAATGAATC
1 AATCATTTGCTTCCTAAACATCACATTTTGCAATGAATC
6235471 AATCATTTGCTTCCTAAACATCACATTTTGCAATGAATC
1 AATCATTTGCTTCCTAAACATCACATTTTGCAATGAATC
6235510 AAT
1 AAT
6235513 TAGATGGATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (39 bp):
AATCATTTGCTTCCTAAACATCACATTTTGCAATGAATC
Found at i:6240010 original size:17 final size:17
Alignment explanation
Indices: 6239985--6240018 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6239975 CAGATGGAGT
*
6239985 ACATTGATACCATCATC
1 ACATCGATACCATCATC
*
6240002 ACATCGATACCCTCATC
1 ACATCGATACCATCATC
6240019 TTCATCATCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.35, G:0.06, T:0.26
Consensus pattern (17 bp):
ACATCGATACCATCATC
Found at i:6249625 original size:13 final size:13
Alignment explanation
Indices: 6249607--6249649 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
6249597 AGATTTTTTT
6249607 CTAAATATTATCA
1 CTAAATATTATCA
*
6249620 CTAAATA--AT-T
1 CTAAATATTATCA
6249630 CTAAATATTATCA
1 CTAAATATTATCA
6249643 CTAAATA
1 CTAAATA
6249650 ATTTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:6249658 original size:23 final size:23
Alignment explanation
Indices: 6249605--6249656 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
6249595 TTAGATTTTT
6249605 TTCTAAATATTATCACTAAATAA
1 TTCTAAATATTATCACTAAATAA
6249628 TTCTAAATATTATCACTAAATAA
1 TTCTAAATATTATCACTAAATAA
6249651 TT-TAAA
1 TTCTAAA
6249657 ATTTAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (23 bp):
TTCTAAATATTATCACTAAATAA
Found at i:6250106 original size:14 final size:14
Alignment explanation
Indices: 6250089--6250119 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6250079 TAAGGCATAG
6250089 ATATCAAAGCTAGT
1 ATATCAAAGCTAGT
*
6250103 ATATCAAAGTTAGT
1 ATATCAAAGCTAGT
6250117 ATA
1 ATA
6250120 GTACTAAAGG
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:0.10, G:0.13, T:0.32
Consensus pattern (14 bp):
ATATCAAAGCTAGT
Found at i:6258417 original size:27 final size:28
Alignment explanation
Indices: 6258374--6258428 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
6258364 GAATGTTTCC
* *
6258374 ATTGATGAATATGTATG-ATTTTTGATG
1 ATTGATGAAGATGTATGAATATTTGATG
6258401 ATTGATGATAGAT-TATGAATATTTGATG
1 ATTGATGA-AGATGTATGAATATTTGATG
6258429 TTAGTTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.45
Consensus pattern (28 bp):
ATTGATGAAGATGTATGAATATTTGATG
Found at i:6258996 original size:40 final size:40
Alignment explanation
Indices: 6258925--6259025 Score: 105
Period size: 40 Copynumber: 2.5 Consensus size: 40
6258915 ACATATCGGT
*
6258925 TAAATGTGGCACTTAGTGTGCAGTTCAATATAGCTTCAGC
1 TAAATATGGCACTTAGTGTGCAGTTCAATATAGCTTCAGC
* * ** *
6258965 TAAATTTGGCACTTAGTGTG-TGATTTGATATAGCTTCGGC
1 TAAATATGGCACTTAGTGTGCAG-TTCAATATAGCTTCAGC
* * *
6259005 TATATATAGTACTTAGTGTGC
1 TAAATATGGCACTTAGTGTGC
6259026 GAGACATTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
39 1 0.02
40 49 0.98
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.38
Consensus pattern (40 bp):
TAAATATGGCACTTAGTGTGCAGTTCAATATAGCTTCAGC
Found at i:6259055 original size:28 final size:28
Alignment explanation
Indices: 6259015--6259116 Score: 186
Period size: 28 Copynumber: 3.6 Consensus size: 28
6259005 TATATATAGT
*
6259015 ACTTAGTGTGCGAGACATTAATTATGGC
1 ACTTAGTGTGCGAGACATTGATTATGGC
6259043 ACTTAGTGTGCGAGACATTGATTATGGC
1 ACTTAGTGTGCGAGACATTGATTATGGC
*
6259071 ACTTAGTGTGCGAGACATTGATTGTGGC
1 ACTTAGTGTGCGAGACATTGATTATGGC
6259099 ACTTAGTGTGCGAGACAT
1 ACTTAGTGTGCGAGACAT
6259117 CGAGTATGCG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 72 1.00
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.31
Consensus pattern (28 bp):
ACTTAGTGTGCGAGACATTGATTATGGC
Found at i:6261160 original size:18 final size:19
Alignment explanation
Indices: 6261137--6261173 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
6261127 TCAAATACAT
*
6261137 TTAAAACATAAAA-AAATA
1 TTAAAACAAAAAACAAATA
6261155 TTAAAACAAAAAACAAATA
1 TTAAAACAAAAAACAAATA
6261174 AAAAATAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.19
Consensus pattern (19 bp):
TTAAAACAAAAAACAAATA
Found at i:6261286 original size:17 final size:17
Alignment explanation
Indices: 6261266--6261303 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
6261256 GAAACAAATT
6261266 AAAATTAAATTAAGAAC
1 AAAATTAAATTAAGAAC
* *
6261283 AAAATTATATTAATAAC
1 AAAATTAAATTAAGAAC
6261300 AAAA
1 AAAA
6261304 GTTTTACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (17 bp):
AAAATTAAATTAAGAAC
Found at i:6263381 original size:18 final size:18
Alignment explanation
Indices: 6263358--6263393 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6263348 AAATGGTATG
6263358 CTCGTGGCTCAAGAAAGC
1 CTCGTGGCTCAAGAAAGC
6263376 CTCGTGGCTCAAGAAAGC
1 CTCGTGGCTCAAGAAAGC
6263394 ATTTTTGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.17
Consensus pattern (18 bp):
CTCGTGGCTCAAGAAAGC
Found at i:6274031 original size:51 final size:51
Alignment explanation
Indices: 6273955--6274057 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
6273945 AGAAGATGAA
6273955 TTAGCTGAATATAGAACAAAAAATAAATAAGCTCACATCAATATTCATAAG
1 TTAGCTGAATATAGAACAAAAAATAAATAAGCTCACATCAATATTCATAAG
*
6274006 TTAGCTGAATATAGAACAAAAAATAAATAAGTTCACATCAATATTCATAAG
1 TTAGCTGAATATAGAACAAAAAATAAATAAGCTCACATCAATATTCATAAG
6274057 T
1 T
6274058 AAACAATAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (51 bp):
TTAGCTGAATATAGAACAAAAAATAAATAAGCTCACATCAATATTCATAAG
Done.