Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 79 of 193
Found at i:26084093 original size:18 final size:18
Alignment explanation
Indices: 26084033--26084094 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
26084023 TATGGTTACA
26084033 TTCAGGTAGGACATTGTC
1 TTCAGGTAGGACATTGTC
** *
26084051 TTCAGATGTCACTACATAT-TA
1 TTCAG--GT-AGGACAT-TGTC
26084072 TTCAGGTAGGACATTGTC
1 TTCAGGTAGGACATTGTC
26084090 TTCAG
1 TTCAG
26084095 ATGTCACTAC
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
17 1 0.03
18 16 0.48
19 2 0.06
20 2 0.06
21 11 0.33
22 1 0.03
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (18 bp):
TTCAGGTAGGACATTGTC
Found at i:26089761 original size:23 final size:22
Alignment explanation
Indices: 26089715--26089757 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
26089705 AAAAAGGGTT
*
26089715 AAGGATTATAATAATGAAAAGA
1 AAGGATTAAAATAATGAAAAGA
26089737 AAGGAATTAAAATAAT-AAAAG
1 AAGG-ATTAAAATAATGAAAAG
26089758 GAAAAATAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.63, C:0.00, G:0.16, T:0.21
Consensus pattern (22 bp):
AAGGATTAAAATAATGAAAAGA
Found at i:26090433 original size:24 final size:24
Alignment explanation
Indices: 26090399--26090667 Score: 241
Period size: 24 Copynumber: 11.2 Consensus size: 24
26090389 CAATGTAAGA
* *
26090399 GTAAACATATATAAGCTGACGAGC
1 GTAAACGTGTATAAGCTGACGAGC
* * *
26090423 GTAAATGTATATAAGCTGTCGAGC
1 GTAAACGTGTATAAGCTGACGAGC
* ***
26090447 ATAAACGTGCGCAAGCTGACGAGC
1 GTAAACGTGTATAAGCTGACGAGC
* *
26090471 GTAAACTTGTATAAGCTGATGAGC
1 GTAAACGTGTATAAGCTGACGAGC
** * *
26090495 GTAAACGTGTGCAAGCTTATGAGC
1 GTAAACGTGTATAAGCTGACGAGC
* *
26090519 GTAAACATATATAAGCTGACGAGC
1 GTAAACGTGTATAAGCTGACGAGC
* **
26090543 ATAAACGTGTGCAAGCTGACGAGC
1 GTAAACGTGTATAAGCTGACGAGC
* *
26090567 TTAAACGTATATAAGCTGACGAGC
1 GTAAACGTGTATAAGCTGACGAGC
* * ** *
26090591 ATAAATGTGTGCAAGCTGATGAGC
1 GTAAACGTGTATAAGCTGACGAGC
* *
26090615 GTAAACGTATATAAGCTGACAAGC
1 GTAAACGTGTATAAGCTGACGAGC
* ** *
26090639 ATAAACGTGTGCAAGCTGGCGAGC
1 GTAAACGTGTATAAGCTGACGAGC
26090663 GTAAA
1 GTAAA
26090668 TGCCTATGAA
Statistics
Matches: 190, Mismatches: 55, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 190 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.22
Consensus pattern (24 bp):
GTAAACGTGTATAAGCTGACGAGC
Found at i:26090471 original size:48 final size:48
Alignment explanation
Indices: 26090411--26090667 Score: 379
Period size: 48 Copynumber: 5.4 Consensus size: 48
26090401 AAACATATAT
* * *
26090411 AAGCTGACGAGCGTAAATGTATATAAGCTGTCGAGCATAAACGTGCGC
1 AAGCTGACGAGCGTAAACGTATATAAGCTGACGAGCATAAACGTGTGC
* * * *
26090459 AAGCTGACGAGCGTAAACTTGTATAAGCTGATGAGCGTAAACGTGTGC
1 AAGCTGACGAGCGTAAACGTATATAAGCTGACGAGCATAAACGTGTGC
* * *
26090507 AAGCTTATGAGCGTAAACATATATAAGCTGACGAGCATAAACGTGTGC
1 AAGCTGACGAGCGTAAACGTATATAAGCTGACGAGCATAAACGTGTGC
* *
26090555 AAGCTGACGAGCTTAAACGTATATAAGCTGACGAGCATAAATGTGTGC
1 AAGCTGACGAGCGTAAACGTATATAAGCTGACGAGCATAAACGTGTGC
* *
26090603 AAGCTGATGAGCGTAAACGTATATAAGCTGACAAGCATAAACGTGTGC
1 AAGCTGACGAGCGTAAACGTATATAAGCTGACGAGCATAAACGTGTGC
*
26090651 AAGCTGGCGAGCGTAAA
1 AAGCTGACGAGCGTAAA
26090668 TGCCTATGAA
Statistics
Matches: 185, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 185 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.21
Consensus pattern (48 bp):
AAGCTGACGAGCGTAAACGTATATAAGCTGACGAGCATAAACGTGTGC
Found at i:26096550 original size:22 final size:23
Alignment explanation
Indices: 26096525--26096571 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
26096515 AAAAGGGGTT
*
26096525 AAGG-ATTATAATAATAAAAAGA
1 AAGGAATTAAAATAATAAAAAGA
*
26096547 AAGGAATTAAAATAATAAAAGGA
1 AAGGAATTAAAATAATAAAAAGA
26096570 AA
1 AA
26096572 AATAGGGGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.19
Consensus pattern (23 bp):
AAGGAATTAAAATAATAAAAAGA
Found at i:26097237 original size:24 final size:24
Alignment explanation
Indices: 26097210--26097484 Score: 271
Period size: 24 Copynumber: 11.5 Consensus size: 24
26097200 AAACATTGTA
*
26097210 AGCGTAAACGTATATAAGCTAACG
1 AGCGTAAACGTATATAAGCTGACG
* ** * *
26097234 AGCGTAAACGTGTGCAAGTTGACA
1 AGCGTAAACGTATATAAGCTGACG
* *
26097258 AGCATAAACGTATATAAGCTAACG
1 AGCGTAAACGTATATAAGCTGACG
* * **
26097282 ACCGTAAACGTGTGCAAGCTGACG
1 AGCGTAAACGTATATAAGCTGACG
*
26097306 AGTGTAAACGTATATAAGCTGACG
1 AGCGTAAACGTATATAAGCTGACG
* ** *
26097330 AGCGTAAACGTGTGCAAGCTGACA
1 AGCGTAAACGTATATAAGCTGACG
*
26097354 AGTGTAAACGTATATAAGCTGACG
1 AGCGTAAACGTATATAAGCTGACG
* * ** *
26097378 AGTGTAAACGTGTGCAAGCTGACA
1 AGCGTAAACGTATATAAGCTGACG
*
26097402 AGAGTAAACGTATATAAGCTGACG
1 AGCGTAAACGTATATAAGCTGACG
* * **
26097426 AGCATAAACGTGTGCAAGCTGACG
1 AGCGTAAACGTATATAAGCTGACG
* *
26097450 AGTGTAAACGTATATAAGCTGACA
1 AGCGTAAACGTATATAAGCTGACG
*
26097474 AGTGTAAACGT
1 AGCGTAAACGT
26097485 GTGCAAGCTA
Statistics
Matches: 197, Mismatches: 54, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 197 1.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.21
Consensus pattern (24 bp):
AGCGTAAACGTATATAAGCTGACG
Found at i:26097288 original size:48 final size:48
Alignment explanation
Indices: 26097213--26097493 Score: 445
Period size: 48 Copynumber: 5.9 Consensus size: 48
26097203 CATTGTAAGC
* * *
26097213 GTAAACGTATATAAGCTAACGAGCGTAAACGTGTGCAAGTTGACAAGC
1 GTAAACGTATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACAAGT
* * * *
26097261 ATAAACGTATATAAGCTAACGACCGTAAACGTGTGCAAGCTGACGAGT
1 GTAAACGTATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACAAGT
26097309 GTAAACGTATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACAAGT
1 GTAAACGTATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACAAGT
* *
26097357 GTAAACGTATATAAGCTGACGAGTGTAAACGTGTGCAAGCTGACAAGA
1 GTAAACGTATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACAAGT
* *
26097405 GTAAACGTATATAAGCTGACGAGCATAAACGTGTGCAAGCTGACGAGT
1 GTAAACGTATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACAAGT
* *
26097453 GTAAACGTATATAAGCTGACAAGTGTAAACGTGTGCAAGCT
1 GTAAACGTATATAAGCTGACGAGCGTAAACGTGTGCAAGCT
26097494 AGCGAGCATA
Statistics
Matches: 215, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 215 1.00
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (48 bp):
GTAAACGTATATAAGCTGACGAGCGTAAACGTGTGCAAGCTGACAAGT
Found at i:26098124 original size:40 final size:40
Alignment explanation
Indices: 26098080--26098169 Score: 144
Period size: 40 Copynumber: 2.2 Consensus size: 40
26098070 ATATGTTTGA
* **
26098080 GTATCGGTAGTTGTAGTTGTTGTGATAGATGGAATTTCTT
1 GTATCGGTAGTTGTAGTTATTGCAATAGATGGAATTTCTT
*
26098120 GTATCGGTTGTTGTAGTTATTGCAATAGATGGAATTTCTT
1 GTATCGGTAGTTGTAGTTATTGCAATAGATGGAATTTCTT
26098160 GTATCGGTAG
1 GTATCGGTAG
26098170 AAGTTTGTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.21, C:0.07, G:0.29, T:0.43
Consensus pattern (40 bp):
GTATCGGTAGTTGTAGTTATTGCAATAGATGGAATTTCTT
Found at i:26107262 original size:25 final size:25
Alignment explanation
Indices: 26107215--26107262 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
26107205 TTCATATAAC
*
26107215 TAATACAAATCAGCATTATTCAAAA
1 TAATACAAATCAGCATTAATCAAAA
*
26107240 TAATAACAAATTAGCA-TAATCAA
1 TAAT-ACAAATCAGCATTAATCAA
26107263 TGTATATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 10 0.50
26 10 0.50
ACGTcount: A:0.54, C:0.15, G:0.04, T:0.27
Consensus pattern (25 bp):
TAATACAAATCAGCATTAATCAAAA
Found at i:26112490 original size:20 final size:20
Alignment explanation
Indices: 26112467--26112509 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
26112457 TTATTCTTGT
* *
26112467 TTTACTATTTGTATTTTTAA
1 TTTAATATTTGTATTTTAAA
*
26112487 TTTAATTTTTGTATTTTAAA
1 TTTAATATTTGTATTTTAAA
26112507 TTT
1 TTT
26112510 TTCCCTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTAATATTTGTATTTTAAA
Found at i:26119164 original size:19 final size:20
Alignment explanation
Indices: 26119136--26119175 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
26119126 TTCTTTCATG
26119136 TTTTATGAATTATGTAATTT
1 TTTTATGAATTATGTAATTT
* *
26119156 TTTTA-GAATTTTTTAATTT
1 TTTTATGAATTATGTAATTT
26119175 T
1 T
26119176 AAGTAAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTATGAATTATGTAATTT
Found at i:26121790 original size:59 final size:56
Alignment explanation
Indices: 26121727--26121846 Score: 134
Period size: 56 Copynumber: 2.1 Consensus size: 56
26121717 ATTTAAAATT
* * * **
26121727 AGAAAAAAATATAAAATATATAGAAATATAAAAAAATTATAATTTTTTATAAAGTCGTA
1 AGAAAAAAATAAAAAATATAAAGAAATAT---AAAATTACAAAATTTTATAAAGTCGTA
** *
26121786 AGAAAATTATAAAAAATGTAAAGAAATATAAAATTACAAAATTTTATAAAGTCGTA
1 AGAAAAAAATAAAAAATATAAAGAAATATAAAATTACAAAATTTTATAAAGTCGTA
26121842 A-AAAA
1 AGAAAA
26121847 TTATCATACC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
55 4 0.08
56 25 0.47
59 24 0.45
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (56 bp):
AGAAAAAAATAAAAAATATAAAGAAATATAAAATTACAAAATTTTATAAAGTCGTA
Found at i:26122051 original size:19 final size:19
Alignment explanation
Indices: 26122016--26122113 Score: 57
Period size: 19 Copynumber: 5.4 Consensus size: 19
26122006 TAAAAGATAG
*
26122016 TTTTTATGCA-TTATATATA
1 TTTTTATG-ATTTTTATATA
*
26122035 TTTTTATGATTTTTATAAA
1 TTTTTATGATTTTTATATA
* *
26122054 ATTTTAT-ATTTTTTATAATT
1 TTTTTATGA-TTTTTAT-ATA
**
26122074 TTTTTACCATTTTT-T-T-
1 TTTTTATGATTTTTATATA
*
26122090 TTTTT-TTATTTTTA-ATA
1 TTTTTATGATTTTTATATA
26122107 TTTTTAT
1 TTTTTAT
26122114 TAAAATTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 17
0.70 0.10 0.19
Matches are distributed among these distances:
15 6 0.10
16 6 0.10
17 6 0.10
18 3 0.05
19 29 0.47
20 11 0.18
21 1 0.02
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTTATGATTTTTATATA
Found at i:26122112 original size:63 final size:63
Alignment explanation
Indices: 26122031--26122165 Score: 168
Period size: 63 Copynumber: 2.1 Consensus size: 63
26122021 ATGCATTATA
* * * *
26122031 TATATTTTTATGATTTTTA-TAAAATTTTATATTTTTTATAA-TTTTTTTACCATTTTTTTTTTT
1 TATATTTTTATGATTTTTATTAAAATTTAATAATTTTTATAACTTTTATT--CATTTTTATTTTT
* *
26122094 TTTATTTTTAAT-ATTTTTATTAAAATTTAATAATTTTTATAACTTTTATTGATTTTTATTTTT
1 TATATTTTT-ATGATTTTTATTAAAATTTAATAATTTTTATAACTTTTATTCATTTTTATTTTT
26122157 TATATTTTT
1 TATATTTTT
26122166 GTTGTCATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
63 34 0.55
64 22 0.35
65 6 0.10
ACGTcount: A:0.27, C:0.02, G:0.01, T:0.69
Consensus pattern (63 bp):
TATATTTTTATGATTTTTATTAAAATTTAATAATTTTTATAACTTTTATTCATTTTTATTTTT
Found at i:26122141 original size:19 final size:18
Alignment explanation
Indices: 26122099--26122152 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
26122089 TTTTTTTTAT
26122099 TTTTAATATTTTTATTAAA
1 TTTTAATATTTTTA-TAAA
* *
26122118 ATTTAATAATTTTTATAAC
1 TTTTAAT-ATTTTTATAAA
*
26122137 TTTTATTGATTTTTAT
1 TTTTAAT-ATTTTTAT
26122153 TTTTTATATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 22 0.76
20 7 0.24
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTAATATTTTTATAAA
Found at i:26122897 original size:18 final size:17
Alignment explanation
Indices: 26122870--26122907 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
26122860 AAAATTAATA
26122870 TTTTTTAAAATATTTAT
1 TTTTTTAAAATATTTAT
*
26122887 TTTTCTTAAAATTTTTAT
1 TTTT-TTAAAATATTTAT
26122905 TTT
1 TTT
26122908 AAATTATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTTAAAATATTTAT
Found at i:26124735 original size:32 final size:30
Alignment explanation
Indices: 26124698--26124771 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
26124688 GTTAATAAAG
* *
26124698 ATAAAATTATACTTTAACTTCTTTTA-AAATT
1 ATAAAATTATAATTTAA--TCATTTACAAATT
*
26124729 AATAAAATTTTAATTTAATCATTTACAAATT
1 -ATAAAATTATAATTTAATCATTTACAAATT
*
26124760 ATAAAAATATAA
1 ATAAAATTATAA
26124772 ATTATTCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 16 0.44
31 5 0.14
32 15 0.42
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (30 bp):
ATAAAATTATAATTTAATCATTTACAAATT
Found at i:26126658 original size:14 final size:14
Alignment explanation
Indices: 26126639--26126686 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
26126629 TTCAAAGTTG
26126639 TTATTTTATTAATT
1 TTATTTTATTAATT
*
26126653 TTATTTTGACTAA--
1 TTATTTT-ATTAATT
*
26126666 TTATTTTCTTAATT
1 TTATTTTATTAATT
26126680 TTATTTT
1 TTATTTT
26126687 GACTAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 3 0.11
13 7 0.25
14 14 0.50
15 4 0.14
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (14 bp):
TTATTTTATTAATT
Found at i:26126669 original size:27 final size:27
Alignment explanation
Indices: 26126639--26126692 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
26126629 TTCAAAGTTG
26126639 TTATTTTATTAATTTTATTTTGACTAA
1 TTATTTTATTAATTTTATTTTGACTAA
*
26126666 TTATTTTCTTAATTTTATTTTGACTAA
1 TTATTTTATTAATTTTATTTTGACTAA
26126693 AATTATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.63
Consensus pattern (27 bp):
TTATTTTATTAATTTTATTTTGACTAA
Found at i:26131652 original size:24 final size:24
Alignment explanation
Indices: 26131625--26131670 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
26131615 CTTGATTTAA
26131625 AATTTT-TTATAAAA-ATTCAATAAT
1 AATTTTATT-TAAAATATT-AATAAT
26131649 AATTTTATTTAAAATATTAATA
1 AATTTTATTTAAAATATTAATA
26131671 GCATAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AATTTTATTTAAAATATTAATAAT
Found at i:26136665 original size:33 final size:33
Alignment explanation
Indices: 26136623--26136694 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
26136613 CCATATTGTA
*
26136623 GTAAACATGTAATTGTTTTCTATTTAATTGAAC
1 GTAAACATGTAATTGTTTTCCATTTAATTGAAC
26136656 GTAAACATGTAATTGTTTTCCATTTAATTGAAC
1 GTAAACATGTAATTGTTTTCCATTTAATTGAAC
26136689 GATAAA
1 G-TAAA
26136695 TAAATAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 33 0.89
34 4 0.11
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (33 bp):
GTAAACATGTAATTGTTTTCCATTTAATTGAAC
Found at i:26153550 original size:24 final size:24
Alignment explanation
Indices: 26153523--26153580 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
26153513 CTAAAACCCT
26153523 GAGCCATTAATCTAGATTTCTTTC
1 GAGCCATTAATCTAGATTTCTTTC
26153547 GAGCCATTAATCTAGATTTCTTTC
1 GAGCCATTAATCTAGATTTCTTTC
26153571 GAGCC-TTAAT
1 GAGCCATTAAT
26153581 ACCTTCTGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 5 0.15
24 29 0.85
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.40
Consensus pattern (24 bp):
GAGCCATTAATCTAGATTTCTTTC
Found at i:26158645 original size:40 final size:40
Alignment explanation
Indices: 26158600--26158687 Score: 117
Period size: 39 Copynumber: 2.2 Consensus size: 40
26158590 GATGGTCACG
* * *
26158600 AAGCTCCCCTT-TGAGCTTAAGGATATGTTATGTATCAGCA
1 AAGCTCCCCTTGTGAGC-TAAAGATAAGTTATGTATCAACA
26158640 AAGCT-CCCTTGTGAGCTAAAGATAAGTTATGTATCAACA
1 AAGCTCCCCTTGTGAGCTAAAGATAAGTTATGTATCAACA
*
26158679 AATCTCCCC
1 AAGCTCCCC
26158688 GATGAGCTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
39 29 0.69
40 13 0.31
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.30
Consensus pattern (40 bp):
AAGCTCCCCTTGTGAGCTAAAGATAAGTTATGTATCAACA
Found at i:26158694 original size:39 final size:39
Alignment explanation
Indices: 26158611--26158697 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 39
26158601 AGCTCCCCTT
* * * *
26158611 TGAGCTTAAGGATATGTTATGTATCAGCAAAGCTCCCTTG
1 TGAGC-TAAAGATAAGTTATGTATCAACAAAGCTCCCTCG
*
26158651 TGAGCTAAAGATAAGTTATGTATCAACAAATCTCCC-CG
1 TGAGCTAAAGATAAGTTATGTATCAACAAAGCTCCCTCG
26158689 ATGAGCTAA
1 -TGAGCTAA
26158698 GTTGACCACC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.02
39 35 0.85
40 5 0.12
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (39 bp):
TGAGCTAAAGATAAGTTATGTATCAACAAAGCTCCCTCG
Found at i:26158946 original size:14 final size:15
Alignment explanation
Indices: 26158922--26158952 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
26158912 AGTGTTTTTG
26158922 AAAGCATAAAAATAA
1 AAAGCATAAAAATAA
26158937 AAAG-ATAAAAATAA
1 AAAGCATAAAAATAA
26158951 AA
1 AA
26158953 TAAAGTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.13
Consensus pattern (15 bp):
AAAGCATAAAAATAA
Found at i:26206948 original size:15 final size:14
Alignment explanation
Indices: 26206920--26206950 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
26206910 AGCCTCTGCA
26206920 TTTCTTTTCCTTTT
1 TTTCTTTTCCTTTT
*
26206934 TTTCTTTTTCTTTT
1 TTTCTTTTCCTTTT
26206948 TTT
1 TTT
26206951 AACCTACTAC
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTCTTTTCCTTTT
Found at i:26207435 original size:22 final size:22
Alignment explanation
Indices: 26207409--26207451 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
26207399 ATAAATATTA
26207409 AAAAACTAATAAA-TTCAAAATAT
1 AAAAA-TAA-AAAGTTCAAAATAT
26207432 AAAAATAAAAAGTTCAAAAT
1 AAAAATAAAAAGTTCAAAAT
26207452 TTTTTAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 3 0.16
22 11 0.58
23 5 0.26
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.23
Consensus pattern (22 bp):
AAAAATAAAAAGTTCAAAATAT
Found at i:26208029 original size:23 final size:24
Alignment explanation
Indices: 26208003--26208053 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
26207993 GTATAACCTA
26208003 AATGAGCAT-AG-TATGAACTTGAT
1 AATGAGCATGAGTTATGAA-TTGAT
26208026 AATG-GCATGAGTTATGAATTGAT
1 AATGAGCATGAGTTATGAATTGAT
*
26208049 GATGA
1 AATGA
26208054 AATGGTATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
22 4 0.17
23 14 0.58
24 6 0.25
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.31
Consensus pattern (24 bp):
AATGAGCATGAGTTATGAATTGAT
Found at i:26209136 original size:20 final size:20
Alignment explanation
Indices: 26209111--26209164 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
26209101 TTGGCCTGGG
* *
26209111 ACTTCTACCGGTAGAACTTC
1 ACTTCTACCGATACAACTTC
26209131 ACTTCTACCGATACAACTTC
1 ACTTCTACCGATACAACTTC
*
26209151 AGTTCTACCGATAC
1 ACTTCTACCGATAC
26209165 CTTAAAGACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.30
Consensus pattern (20 bp):
ACTTCTACCGATACAACTTC
Found at i:26212375 original size:27 final size:27
Alignment explanation
Indices: 26212334--26212409 Score: 125
Period size: 27 Copynumber: 2.8 Consensus size: 27
26212324 TCAGAGTAGT
26212334 CCACGACCCTCAGGGAATTGGGACTGC
1 CCACGACCCTCAGGGAATTGGGACTGC
* *
26212361 CCACGACCCTAAGGGAATTGGGATTGC
1 CCACGACCCTCAGGGAATTGGGACTGC
*
26212388 CCACGACCCTCTGGGAATTGGG
1 CCACGACCCTCAGGGAATTGGG
26212410 GCTAACAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.22, C:0.30, G:0.30, T:0.17
Consensus pattern (27 bp):
CCACGACCCTCAGGGAATTGGGACTGC
Found at i:26214085 original size:19 final size:19
Alignment explanation
Indices: 26213985--26214173 Score: 217
Period size: 19 Copynumber: 10.2 Consensus size: 19
26213975 CGGAAGGAAT
*
26213985 AGCGATACTGGCTCGCT-TG
1 AGCGATACTGGCTCG-TAAG
26214004 AGC-ATACTGGCTCGTAAG
1 AGCGATACTGGCTCGTAAG
* **
26214022 AGC-ATATTGGCTCGTTTG
1 AGCGATACTGGCTCGTAAG
26214040 AGC-ATACTGGCTCGTAAG
1 AGCGATACTGGCTCGTAAG
*
26214058 AGC-ATACTGGCTCATAAG
1 AGCGATACTGGCTCGTAAG
* *
26214076 AGTGATACTGGCTTGTAAG
1 AGCGATACTGGCTCGTAAG
* *
26214095 AGCAATACTGGCTTGTAAG
1 AGCGATACTGGCTCGTAAG
** *
26214114 AGAAATACCGGCTCGTAAG
1 AGCGATACTGGCTCGTAAG
*
26214133 GGCGATACTGGCTCGTAAG
1 AGCGATACTGGCTCGTAAG
26214152 AGCGATACTGGCTCGTAAG
1 AGCGATACTGGCTCGTAAG
26214171 AGC
1 AGC
26214174 AATTTACTGA
Statistics
Matches: 147, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
17 1 0.01
18 61 0.41
19 85 0.58
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.24
Consensus pattern (19 bp):
AGCGATACTGGCTCGTAAG
Found at i:26214869 original size:21 final size:21
Alignment explanation
Indices: 26214839--26214885 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
26214829 ACTCATAGTA
*
26214839 GTATCGGTAGTCTAAACACTT
1 GTATCAGTAGTCTAAACACTT
*
26214860 GTATCAGTAGTCTGAACACTT
1 GTATCAGTAGTCTAAACACTT
26214881 GTATC
1 GTATC
26214886 GGTAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (21 bp):
GTATCAGTAGTCTAAACACTT
Found at i:26215733 original size:20 final size:20
Alignment explanation
Indices: 26215708--26215757 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
26215698 TTGGCCTAGG
26215708 ACTTCTACCGGTAGAACTTC
1 ACTTCTACCGGTAGAACTTC
26215728 ACTTCTACCGGTAGAACTTC
1 ACTTCTACCGGTAGAACTTC
26215748 ACTTCTACCG
1 ACTTCTACCG
26215758 ATACAATTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (20 bp):
ACTTCTACCGGTAGAACTTC
Found at i:26215768 original size:20 final size:20
Alignment explanation
Indices: 26215708--26215783 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
26215698 TTGGCCTAGG
* *
26215708 ACTTCTACCGGTAGAACTTC
1 ACTTCTACCGATACAACTTC
* *
26215728 ACTTCTACCGGTAGAACTTC
1 ACTTCTACCGATACAACTTC
*
26215748 ACTTCTACCGATACAATTTC
1 ACTTCTACCGATACAACTTC
* *
26215768 AGTTCCACCGATACAA
1 ACTTCTACCGATACAA
26215784 GTATGCTTCT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.29, C:0.30, G:0.12, T:0.29
Consensus pattern (20 bp):
ACTTCTACCGATACAACTTC
Found at i:26218456 original size:71 final size:71
Alignment explanation
Indices: 26218340--26218491 Score: 198
Period size: 71 Copynumber: 2.1 Consensus size: 71
26218330 TTGACTTCTT
* * * *
26218340 TGTCGTGACACATAGGAGTTATGTCGTGACAACACCTATAGGATGACGCTTCACATGGAGACTGA
1 TGTCGTGACACACAGGAGCTATGTCGCGACAACACCTATAGGATGACGCTTCACATGAAGACTGA
**
26218405 TGTTTA
66 TGCCTA
* * * *
26218411 TGTCGCGACACACAGGAGCTATGTCGCGA-AAGCGCCTGTAGGATGACGCTTCACGTGAAGACTG
1 TGTCGTGACACACAGGAGCTATGTCGCGACAA-CACCTATAGGATGACGCTTCACATGAAGACTG
26218475 ATGCCTA
65 ATGCCTA
26218482 TGTCGTGACA
1 TGTCGTGACA
26218492 TAGGACCTGG
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
70 2 0.03
71 67 0.97
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (71 bp):
TGTCGTGACACACAGGAGCTATGTCGCGACAACACCTATAGGATGACGCTTCACATGAAGACTGA
TGCCTA
Found at i:26219284 original size:20 final size:20
Alignment explanation
Indices: 26219254--26219296 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
26219244 TTCAACTAAA
26219254 TTTTATTTTATTTTTA-TCT
1 TTTTATTTTATTTTTATTCT
26219273 TTTTACTTTTATTTTTATTCT
1 TTTTA-TTTTATTTTTATTCT
26219294 TTT
1 TTT
26219297 ATGCTTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.23
20 11 0.50
21 6 0.27
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTATTTTATTTTTATTCT
Found at i:26219892 original size:20 final size:20
Alignment explanation
Indices: 26219855--26219901 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
26219845 TTGGCCTTGG
** *
26219855 ACTTCTACCGGTAGAACTTC
1 ACTTCTACCGAAACAACTTC
26219875 ACTTCTACCGAAACAACTTC
1 ACTTCTACCGAAACAACTTC
*
26219895 AGTTCTA
1 ACTTCTA
26219902 TCGATACCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (20 bp):
ACTTCTACCGAAACAACTTC
Found at i:26220166 original size:20 final size:20
Alignment explanation
Indices: 26220129--26220172 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
26220119 GCCTGGGACA
* *
26220129 TCTATCGATAGAACTTCACT
1 TCTATCAATACAACTTCACT
* *
26220149 TCTATCAATACAATTTCAGT
1 TCTATCAATACAACTTCACT
26220169 TCTA
1 TCTA
26220173 CTGATACAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.39
Consensus pattern (20 bp):
TCTATCAATACAACTTCACT
Found at i:26226592 original size:49 final size:50
Alignment explanation
Indices: 26226516--26226612 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 50
26226506 CGTATATAAT
* *
26226516 TACACTTCTTCTATTCGACATTGATTAGAATAA-GGTTGTTCAACCTTAC
1 TACACTTCATCTATTCGACATTAATTAGAATAATGGTTGTTCAACCTTAC
* * *
26226565 TACACTTCATCTATTTGACATTAATTAGAATAATGTTTTTTCAACCTT
1 TACACTTCATCTATTCGACATTAATTAGAATAATGGTTGTTCAACCTT
26226613 TAAATAGATG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 30 0.71
50 12 0.29
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.42
Consensus pattern (50 bp):
TACACTTCATCTATTCGACATTAATTAGAATAATGGTTGTTCAACCTTAC
Found at i:26234374 original size:10 final size:10
Alignment explanation
Indices: 26234361--26234388 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
26234351 TGACGCTAAC
26234361 TGCTAACTGT
1 TGCTAACTGT
26234371 TGCTAACTGT
1 TGCTAACTGT
26234381 TGCTAACT
1 TGCTAACT
26234389 TCCTTAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (10 bp):
TGCTAACTGT
Found at i:26243572 original size:17 final size:17
Alignment explanation
Indices: 26243550--26243585 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
26243540 CTACAAAGAA
26243550 TAAAATTAATTAGTACT
1 TAAAATTAATTAGTACT
26243567 TAAAATTAATTAGTACT
1 TAAAATTAATTAGTACT
26243584 TA
1 TA
26243586 TTTTAGGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (17 bp):
TAAAATTAATTAGTACT
Found at i:26245305 original size:24 final size:24
Alignment explanation
Indices: 26245267--26245315 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
26245257 TCCCACTCCA
26245267 TCTCACCTCCTTATTTCTCC-TTT
1 TCTCACCTCCTTATTTCTCCATTT
26245290 TCTCACCTTCCTTATTTCTCCATTT
1 TCTCACC-TCCTTATTTCTCCATTT
26245315 T
1 T
26245316 TAGGAGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 7 0.29
24 13 0.54
25 4 0.17
ACGTcount: A:0.10, C:0.37, G:0.00, T:0.53
Consensus pattern (24 bp):
TCTCACCTCCTTATTTCTCCATTT
Found at i:26245416 original size:30 final size:30
Alignment explanation
Indices: 26245382--26245443 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
26245372 TGGTTTTTGA
*
26245382 GTAAGATTTCTTTTTATTTTTTACTTTATG
1 GTAAGATTTCTTTTTATTTTCTACTTTATG
26245412 GTAAGATTTCTTTTTATTTTCTACTTTATG
1 GTAAGATTTCTTTTTATTTTCTACTTTATG
26245442 GT
1 GT
26245444 GACTTGATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.19, C:0.08, G:0.11, T:0.61
Consensus pattern (30 bp):
GTAAGATTTCTTTTTATTTTCTACTTTATG
Found at i:26246681 original size:50 final size:50
Alignment explanation
Indices: 26246608--26246818 Score: 167
Period size: 50 Copynumber: 4.2 Consensus size: 50
26246598 TTTAGTTCTA
* *
26246608 ATGAGTCCAGATAGAA-TATCGCTCATACGAGTTAGACAGAATTACGCTCTT
1 ATGAG-CCAGATAGAATTA-CGCTCTTACGAGCTAGACAGAATTACGCTCTT
* * *
26246659 ATGAGCCAGATAGAATTACGCTCTTGCGAGCTAGACAAAATTATGCTCTT
1 ATGAGCCAGATAGAATTACGCTCTTACGAGCTAGACAGAATTACGCTCTT
* * * * * * *
26246709 ATGAGCCAAACA-AATTATGCTCTTATGAGCCAGACAGAATTTCGCTTTT
1 ATGAGCCAGATAGAATTACGCTCTTACGAGCTAGACAGAATTACGCTCTT
* * * * ** * * **
26246758 ACGAGCCAAACAAAATTTTGCTCTTACGTG-TCATACAGAATTTTGCTCTT
1 ATGAGCCAGATAGAATTACGCTCTTACGAGCT-AGACAGAATTACGCTCTT
*
26246808 ATGAGTCAGAT
1 ATGAGCCAGAT
26246819 TCAGAATATC
Statistics
Matches: 130, Mismatches: 27, Indels: 7
0.79 0.16 0.04
Matches are distributed among these distances:
49 40 0.31
50 83 0.64
51 7 0.05
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (50 bp):
ATGAGCCAGATAGAATTACGCTCTTACGAGCTAGACAGAATTACGCTCTT
Found at i:26246736 original size:74 final size:75
Alignment explanation
Indices: 26246643--26246818 Score: 219
Period size: 74 Copynumber: 2.4 Consensus size: 75
26246633 TACGAGTTAG
* * * *
26246643 ACAGAATTACGCTCTTATGAGCCAGATAGAATTACGCTCTTGCGAGCTAGACAAAATTATGCTCT
1 ACAGAATTATGCTCTTATGAGCCAGATAGAATTACGCTCTTACGAGCCAAACAAAATTATGCTCT
*
26246708 TATGAGCCAA
66 TACGAGCCAA
* * * *
26246718 ACA-AATTATGCTCTTATGAGCCAGACAGAATTTCGCTTTTACGAGCCAAACAAAATTTTGCTCT
1 ACAGAATTATGCTCTTATGAGCCAGATAGAATTACGCTCTTACGAGCCAAACAAAATTATGCTCT
* * *
26246782 TACGTGTCAT
66 TACGAGCCAA
* *
26246792 ACAGAATTTTGCTCTTATGAGTCAGAT
1 ACAGAATTATGCTCTTATGAGCCAGAT
26246819 TCAGAATATC
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
74 62 0.73
75 23 0.27
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (75 bp):
ACAGAATTATGCTCTTATGAGCCAGATAGAATTACGCTCTTACGAGCCAAACAAAATTATGCTCT
TACGAGCCAA
Found at i:26246764 original size:25 final size:25
Alignment explanation
Indices: 26246614--26246817 Score: 144
Period size: 25 Copynumber: 8.2 Consensus size: 25
26246604 TCTAATGAGT
* * *
26246614 CCAGATAGAATATCGCTCATACGAG
1 CCAGACAGAATTTCGCTCTTACGAG
** * *
26246639 TTAGACAGAATTACGCTCTTATGAG
1 CCAGACAGAATTTCGCTCTTACGAG
* * *
26246664 CCAGATAGAATTACGCTCTTGCGAG
1 CCAGACAGAATTTCGCTCTTACGAG
* * *
26246689 CTAGACAAAATTAT-GCTCTTATGAG
1 CCAGACAGAATT-TCGCTCTTACGAG
* *
26246714 CCAAACA-AATTAT-GCTCTTATGAG
1 CCAGACAGAATT-TCGCTCTTACGAG
*
26246738 CCAGACAGAATTTCGCTTTTACGAG
1 CCAGACAGAATTTCGCTCTTACGAG
* * * *
26246763 CCAAACAAAATTTTGCTCTTACGTG
1 CCAGACAGAATTTCGCTCTTACGAG
* * * *
26246788 TCATACAGAATTTTGCTCTTATGAG
1 CCAGACAGAATTTCGCTCTTACGAG
*
26246813 TCAGA
1 CCAGA
26246818 TTCAGAATAT
Statistics
Matches: 142, Mismatches: 34, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
24 24 0.17
25 118 0.83
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (25 bp):
CCAGACAGAATTTCGCTCTTACGAG
Found at i:26262824 original size:14 final size:15
Alignment explanation
Indices: 26262800--26262845 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
26262790 TAAGGGTATT
26262800 GAAGCAGAAGG-AAAA
1 GAAG-AGAAGGAAAAA
26262815 GAAGAGAAGGAAAAA
1 GAAGAGAAGGAAAAA
* *
26262830 GAAGAAAAAGAAAAA
1 GAAGAGAAGGAAAAA
26262845 G
1 G
26262846 TTTTTTCGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 6 0.21
15 22 0.79
ACGTcount: A:0.67, C:0.02, G:0.30, T:0.00
Consensus pattern (15 bp):
GAAGAGAAGGAAAAA
Found at i:26263894 original size:16 final size:18
Alignment explanation
Indices: 26263869--26263909 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
26263859 TCAGTTACTT
26263869 ATAAAAAAAG-AAAG-TG
1 ATAAAAAAAGAAAAGTTG
*
26263885 ATAAAGAAAGAAAAGTTG
1 ATAAAAAAAGAAAAGTTG
26263903 ATAAAAA
1 ATAAAAA
26263910 GAATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 9 0.43
17 4 0.19
18 8 0.38
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (18 bp):
ATAAAAAAAGAAAAGTTG
Found at i:26263912 original size:16 final size:16
Alignment explanation
Indices: 26263872--26263909 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
26263862 GTTACTTATA
26263872 AAAAAAG-AAAGTGAT
1 AAAAAAGAAAAGTGAT
26263887 AAAGAAAGAAAAGTTGAT
1 AAA-AAAGAAAAG-TGAT
26263905 AAAAA
1 AAAAA
26263910 GAATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 3 0.15
16 4 0.20
17 6 0.30
18 7 0.35
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.13
Consensus pattern (16 bp):
AAAAAAGAAAAGTGAT
Found at i:26264269 original size:30 final size:30
Alignment explanation
Indices: 26264233--26264300 Score: 127
Period size: 30 Copynumber: 2.2 Consensus size: 30
26264223 AAATTAGTGT
26264233 ATAATTTGTTCCTTTTGTATCATATTTAGC
1 ATAATTTGTTCCTTTTGTATCATATTTAGC
26264263 ATAATTTGTTCCTTTTGTATCATATTTAGC
1 ATAATTTGTTCCTTTTGTATCATATTTAGC
26264293 ATACATTT
1 ATA-ATTT
26264301 TTAGCATTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 33 0.89
31 4 0.11
ACGTcount: A:0.25, C:0.13, G:0.09, T:0.53
Consensus pattern (30 bp):
ATAATTTGTTCCTTTTGTATCATATTTAGC
Found at i:26271646 original size:21 final size:21
Alignment explanation
Indices: 26271620--26271673 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
26271610 CAGTGTAAAT
26271620 TTCTACCGATACAAGT-ATAAC
1 TTCTACCGATACAAGTCAT-AC
* *
26271641 TTCTACCGAAACAAGTCATGC
1 TTCTACCGATACAAGTCATAC
26271662 TTCTACCGATAC
1 TTCTACCGATAC
26271674 TAAAAACTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 27 0.93
22 2 0.07
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (21 bp):
TTCTACCGATACAAGTCATAC
Found at i:26272371 original size:108 final size:106
Alignment explanation
Indices: 26272160--26272471 Score: 407
Period size: 103 Copynumber: 3.0 Consensus size: 106
26272150 AACAAAGAAC
* **
26272160 ATTTATCGATTTTAAATAGGATATTCAATTATTTAGGTTCAAGGAAAAATTATACCCAATACGTT
1 ATTTATCGATTTTAAATAGGATATTCAATTATTTAGGTTCAAAGAAAAACCATACCCAATACGTT
* * *
26272225 AGGGCACAATTTTTCGAGTTCCCTAAAATAACAGAACATTGAG
66 AGGGCACAATTTCTCGAATTCCCTAAAATAAAAGAACATT--G
* * *
26272268 TATTTATCGATTTTGAATAGAATATTCAATTATTTAGGCTCAAAG-AAAACCATACCCAATACGT
1 -ATTTATCGATTTTAAATAGGATATTCAATTATTTAGGTTCAAAGAAAAACCATACCCAATACGT
* *
26272332 TAGGGCACAATTTCTCGAATTCTCAAAAATAAAAGAACATTG
65 TAGGGCACAATTTCTCGAATTCCCTAAAATAAAAGAACATTG
** * * * *
26272374 -CCT-T-GGTTTTAAATAGGATACTCGATTATTTAGGTTCAAAGAAAAACCGTACCCAATACGTT
1 ATTTATCGATTTTAAATAGGATATTCAATTATTTAGGTTCAAAGAAAAACCATACCCAATACGTT
*
26272436 AGGGCACAATTTCTCAAATTCCCTAAAATAAAAGAA
66 AGGGCACAATTTCTCGAATTCCCTAAAATAAAAGAA
26272472 TATTACATTT
Statistics
Matches: 179, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
102 31 0.17
103 53 0.30
104 1 0.01
106 1 0.01
108 53 0.30
109 40 0.22
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (106 bp):
ATTTATCGATTTTAAATAGGATATTCAATTATTTAGGTTCAAAGAAAAACCATACCCAATACGTT
AGGGCACAATTTCTCGAATTCCCTAAAATAAAAGAACATTG
Found at i:26276198 original size:21 final size:21
Alignment explanation
Indices: 26276172--26276229 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
26276162 GATACTTGAA
26276172 ATACTTCTACCGATACAAGT-
1 ATACTTCTACCGATACAAGTC
* *
26276192 ATAACTTCTACCAAAACAAGTC
1 AT-ACTTCTACCGATACAAGTC
* *
26276214 ATGCTTCTAGCGATAC
1 ATACTTCTACCGATAC
26276230 TAAAAACTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 2 0.07
21 26 0.87
22 2 0.07
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.28
Consensus pattern (21 bp):
ATACTTCTACCGATACAAGTC
Found at i:26276963 original size:25 final size:26
Alignment explanation
Indices: 26276901--26277045 Score: 149
Period size: 25 Copynumber: 5.8 Consensus size: 26
26276891 AAAGTCTTCC
* *
26276901 AGAATT-TAGCTCTAACGAGCCCAGAT
1 AGAATTATCGCTCTTACGAG-CCAGAT
* *
26276927 AGAA-TATCGCTCATACGAGCTAGAT
1 AGAATTATCGCTCTTACGAGCCAGAT
** *
26276952 AGAATTAT-GCTCTTGTGAGCCAAAT
1 AGAATTATCGCTCTTACGAGCCAGAT
* *
26276977 AGAGTTA-CGCTCTTATGAGCCAGAT
1 AGAATTATCGCTCTTACGAGCCAGAT
*
26277002 AGAATT-TCGCTCTTACGAGCCTGAT
1 AGAATTATCGCTCTTACGAGCCAGAT
26277027 AGAATT-TCGCTCTTACGAG
1 AGAATTATCGCTCTTACGAG
26277046 TCATACAGAA
Statistics
Matches: 100, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
25 83 0.83
26 17 0.17
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (26 bp):
AGAATTATCGCTCTTACGAGCCAGAT
Found at i:26277002 original size:50 final size:49
Alignment explanation
Indices: 26276901--26277070 Score: 144
Period size: 50 Copynumber: 3.4 Consensus size: 49
26276891 AAAGTCTTCC
* * * * *
26276901 AGAATTTAGCTCTAACGAGCCCAGATAGAA-TATCGCTCATACGAGCTAGAT
1 AGAATTT-GCTCTTATGAG-CCAAATAGAATTA-CGCTCTTACGAGCCAGAT
* * *
26276952 AGAATTATGCTCTTGTGAGCCAAATAGAGTTACGCTCTTATGAGCCAGAT
1 AGAATT-TGCTCTTATGAGCCAAATAGAATTACGCTCTTACGAGCCAGAT
* ** * * * *
26277002 AGAATTTCGCTCTTACGAGCCTGATAGAATTTCGCTCTTACGAGTCATAC
1 AGAATTT-GCTCTTATGAGCCAAATAGAATTACGCTCTTACGAGCCAGAT
26277052 AGAATTTTGCTCTTATGAG
1 AGAA-TTTGCTCTTATGAG
26277071 TTAGATTTAG
Statistics
Matches: 96, Mismatches: 19, Indels: 9
0.77 0.15 0.07
Matches are distributed among these distances:
49 1 0.01
50 75 0.78
51 19 0.20
52 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (49 bp):
AGAATTTGCTCTTATGAGCCAAATAGAATTACGCTCTTACGAGCCAGAT
Found at i:26277055 original size:25 final size:25
Alignment explanation
Indices: 26276901--26277071 Score: 105
Period size: 25 Copynumber: 6.8 Consensus size: 25
26276891 AAAGTCTTCC
* * * *
26276901 AGAATTTAGCTCTAACGAGCCCAGAT
1 AGAATTTCGCTCTTACGAG-TCATAT
* * *
26276927 AGAATATCGCTCATACGAG-CTAGAT
1 AGAATTTCGCTCTTACGAGTC-ATAT
** * *
26276952 AGAATTAT-GCTCTTGTGAGCCAAAT
1 AGAATT-TCGCTCTTACGAGTCATAT
* * * * *
26276977 AGAGTTACGCTCTTATGAGCCAGAT
1 AGAATTTCGCTCTTACGAGTCATAT
*
26277002 AGAATTTCGCTCTTACGAG-CCTGAT
1 AGAATTTCGCTCTTACGAGTCAT-AT
*
26277027 AGAATTTCGCTCTTACGAGTCATAC
1 AGAATTTCGCTCTTACGAGTCATAT
* *
26277052 AGAATTTTGCTCTTATGAGT
1 AGAATTTCGCTCTTACGAGT
26277072 TAGATTTAGA
Statistics
Matches: 117, Mismatches: 22, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
24 2 0.02
25 96 0.82
26 19 0.16
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (25 bp):
AGAATTTCGCTCTTACGAGTCATAT
Found at i:26277064 original size:75 final size:76
Alignment explanation
Indices: 26276900--26277070 Score: 188
Period size: 75 Copynumber: 2.3 Consensus size: 76
26276890 TAAAGTCTTC
* *
26276900 CAGAATTTAGCTCTAACGAGCCCAGATAGAATATCGCTCATACGAGCTAGATAGAATTATGCTCT
1 CAGAATTTAGCTCTTATGAGCCCAGATAGAATATCGCTCATACGAGCTAGATAGAATTATGCTCT
**
26276965 TGTGAGCCAAA
66 TACGAGCCAAA
* * * *
26276976 TAG-AGTTACGCTCTTATGAG-CCAGATAGAATTTCGCTCTTACGAGCCT-GATAGAATT-TCGC
1 CAGAATTTA-GCTCTTATGAGCCCAGATAGAATATCGCTCATACGAG-CTAGATAGAATTAT-GC
* *
26277037 TCTTACGAGTCATA
63 TCTTACGAGCCAAA
*
26277051 CAGAATTTTGCTCTTATGAG
1 CAGAATTTAGCTCTTATGAG
26277071 TTAGATTTAG
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
74 1 0.01
75 61 0.78
76 16 0.21
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (76 bp):
CAGAATTTAGCTCTTATGAGCCCAGATAGAATATCGCTCATACGAGCTAGATAGAATTATGCTCT
TACGAGCCAAA
Found at i:26282358 original size:2 final size:2
Alignment explanation
Indices: 26282351--26282407 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
26282341 ATCATCATAA
26282351 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
26282393 AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC A
26282408 TATATATATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:26286927 original size:23 final size:23
Alignment explanation
Indices: 26286884--26286927 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
26286874 AAAATTAAAT
* *
26286884 TGTAATTTTTATAATAATAAAAA
1 TGTAATTTTTAAAAGAATAAAAA
*
26286907 TGTAATTTTTAAAAGATTAAA
1 TGTAATTTTTAAAAGAATAAA
26286928 TCGAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (23 bp):
TGTAATTTTTAAAAGAATAAAAA
Found at i:26287282 original size:13 final size:13
Alignment explanation
Indices: 26287264--26287288 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26287254 TTAATACTTT
26287264 ATTAATTTGAAAA
1 ATTAATTTGAAAA
26287277 ATTAATTTGAAA
1 ATTAATTTGAAA
26287289 TTAAATTGTT
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
ATTAATTTGAAAA
Found at i:26287476 original size:19 final size:19
Alignment explanation
Indices: 26287452--26287500 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
26287442 TATTTAAAAA
26287452 TAAAAAATAAAAAATTTAT
1 TAAAAAATAAAAAATTTAT
* *
26287471 TAAAAAAT-TAGAATTTAT
1 TAAAAAATAAAAAATTTAT
*
26287489 AAAAATAATAAA
1 TAAAA-AATAAA
26287501 GAATACAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 12 0.50
19 11 0.46
20 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
TAAAAAATAAAAAATTTAT
Found at i:26292784 original size:7 final size:7
Alignment explanation
Indices: 26292772--26292796 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
26292762 CATGCTTCCA
26292772 AACATGT
1 AACATGT
26292779 AACATGT
1 AACATGT
26292786 AACATGT
1 AACATGT
26292793 AACA
1 AACA
26292797 CATTCCCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (7 bp):
AACATGT
Found at i:26295541 original size:21 final size:21
Alignment explanation
Indices: 26295511--26295561 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
26295501 GGAGTTTTTA
* *
26295511 GTATCAGTAGAAG-CATGACTT
1 GTATCGGTAGAAGTC-TCACTT
*
26295532 GTATCGGTAGATGTCTCACTT
1 GTATCGGTAGAAGTCTCACTT
26295553 GTATCGGTA
1 GTATCGGTA
26295562 AAACTATCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (21 bp):
GTATCGGTAGAAGTCTCACTT
Found at i:26301323 original size:21 final size:20
Alignment explanation
Indices: 26301299--26301373 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 20
26301289 TGACTCAACC
**
26301299 CATTGACCATTGATTGTTGA
1 CATTGACCATTGACCGTTGA
26301319 TCATTGA-C-TTGACCGTTGA
1 -CATTGACCATTGACCGTTGA
*
26301338 CCATTGATCATTGACCGTTGA
1 -CATTGACCATTGACCGTTGA
26301359 CAGTTGACCATTGAC
1 CA-TTGACCATTGAC
26301374 ATTTTGGGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.32
20 4 0.09
21 28 0.60
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (20 bp):
CATTGACCATTGACCGTTGA
Found at i:26301337 original size:26 final size:26
Alignment explanation
Indices: 26301301--26301376 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 26
26301291 ACTCAACCCA
***
26301301 TTGACCATTGATTGTTGATCATTGAC
1 TTGACCATTGACCATTGATCATTGAC
*
26301327 TTGACCGTTGACCATTGATCATTGACC
1 TTGACCATTGACCATTGATCATTGA-C
26301354 GTTGA-CAGTTGACCATTGA-CATT
1 -TTGACCA-TTGACCATTGATCATT
26301377 TTGGGTTGAC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
26 21 0.50
27 6 0.14
28 15 0.36
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (26 bp):
TTGACCATTGACCATTGATCATTGAC
Found at i:26301393 original size:7 final size:7
Alignment explanation
Indices: 26301298--26301373 Score: 59
Period size: 7 Copynumber: 11.1 Consensus size: 7
26301288 TTGACTCAAC
26301298 CCATTGA
1 CCATTGA
26301305 CCATTGA
1 CCATTGA
***
26301312 TTGTTGA
1 CCATTGA
*
26301319 TCATTGA
1 CCATTGA
26301326 -C-TTGA
1 CCATTGA
*
26301331 CCGTTGA
1 CCATTGA
26301338 CCATTGA
1 CCATTGA
*
26301345 TCATTGA
1 CCATTGA
*
26301352 CCGTTGA
1 CCATTGA
26301359 -CAGTTGA
1 CCA-TTGA
26301366 CCATTGA
1 CCATTGA
26301373 C
1 C
26301374 ATTTTGGGTT
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
5 4 0.07
6 3 0.05
7 46 0.84
8 2 0.04
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (7 bp):
CCATTGA
Found at i:26307960 original size:19 final size:19
Alignment explanation
Indices: 26307938--26308000 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
26307928 CCGTTAATTG
*
26307938 TTGACTTGATCATTGACCA
1 TTGACTTGATCGTTGACCA
* *
26307957 TTGACAGTTGATCGTTGATCG
1 TTGAC--TTGATCGTTGACCA
*
26307978 TTGACTTTATCGTTGACCA
1 TTGACTTGATCGTTGACCA
26307997 TTGA
1 TTGA
26308001 TCATTGACTG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 20 0.56
21 16 0.44
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (19 bp):
TTGACTTGATCGTTGACCA
Found at i:26307961 original size:40 final size:40
Alignment explanation
Indices: 26307917--26308022 Score: 117
Period size: 40 Copynumber: 2.6 Consensus size: 40
26307907 CATTAACCCG
* *
26307917 TTGACTATTGACCGTTAATTGTTGACTTGATCATTGACCA
1 TTGACTATTGACCGTTGATAGTTGACTTGATCATTGACCA
* * * *
26307957 TTGAC-AGTTGATCGTTGATCGTTGACTTTATCGTTGACCA
1 TTGACTA-TTGACCGTTGATAGTTGACTTGATCATTGACCA
*
26307997 TTGA-TCATTGACTGTTGATAGTTGAC
1 TTGACT-ATTGACCGTTGATAGTTGAC
26308023 CGTTGACTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
39 1 0.02
40 53 0.96
41 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.41
Consensus pattern (40 bp):
TTGACTATTGACCGTTGATAGTTGACTTGATCATTGACCA
Found at i:26307999 original size:47 final size:48
Alignment explanation
Indices: 26307943--26308049 Score: 144
Period size: 47 Copynumber: 2.2 Consensus size: 48
26307933 AATTGTTGAC
* * *
26307943 TTGATCATTGACCATTGACAGTTGATCGTTGATCGTTGACTTTAT-CG
1 TTGACCATTGACCATTGACAGTTGATAGTTGACCGTTGACTTTATGCG
* * * *
26307990 TTGACCATTGATCATTGACTGTTGATAGTTGACCGTTGACTTTTTGGG
1 TTGACCATTGACCATTGACAGTTGATAGTTGACCGTTGACTTTATGCG
26308038 TTGACCATTGAC
1 TTGACCATTGAC
26308050 TTTTTCTGAG
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 39 0.76
48 12 0.24
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (48 bp):
TTGACCATTGACCATTGACAGTTGATAGTTGACCGTTGACTTTATGCG
Found at i:26308014 original size:14 final size:14
Alignment explanation
Indices: 26307914--26308028 Score: 64
Period size: 14 Copynumber: 8.5 Consensus size: 14
26307904 GACCATTAAC
26307914 CCGTTGA-CTATTGA
1 CCGTTGATC-ATTGA
* **
26307928 CCGTTAATTGTTGA
1 CCGTTGATCATTGA
26307942 -C-TTGATCATTGA
1 CCGTTGATCATTGA
*
26307954 CCATTGA-CAGTTGA
1 CCGTTGATCA-TTGA
* *
26307968 TCGTTGATCGTTGA
1 CCGTTGATCATTGA
* *
26307982 -C-TTTATCGTTGA
1 CCGTTGATCATTGA
*
26307994 CCATTGATCATTGA
1 CCGTTGATCATTGA
*
26308008 CTGTTGAT-AGTTGA
1 CCGTTGATCA-TTGA
26308022 CCGTTGA
1 CCGTTGA
26308029 CTTTTTGGGT
Statistics
Matches: 78, Mismatches: 15, Indels: 16
0.72 0.14 0.15
Matches are distributed among these distances:
12 18 0.23
13 7 0.09
14 52 0.67
15 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (14 bp):
CCGTTGATCATTGA
Found at i:26308042 original size:20 final size:20
Alignment explanation
Indices: 26308017--26308054 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
26308007 ACTGTTGATA
*
26308017 GTTGACCGTTGACTTTTTGG
1 GTTGACCATTGACTTTTTGG
26308037 GTTGACCATTGACTTTTT
1 GTTGACCATTGACTTTTT
26308055 CTGAGAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.16, G:0.24, T:0.47
Consensus pattern (20 bp):
GTTGACCATTGACTTTTTGG
Found at i:26308611 original size:19 final size:20
Alignment explanation
Indices: 26308573--26308611 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
26308563 TGATCGCATG
* *
26308573 ATGATTTTGCTTGCATACTT
1 ATGAGTTTGCTTGAATACTT
26308593 ATGAGTTTG-TTGAATACTT
1 ATGAGTTTGCTTGAATACTT
26308612 GCATACTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.23, C:0.10, G:0.18, T:0.49
Consensus pattern (20 bp):
ATGAGTTTGCTTGAATACTT
Found at i:26311766 original size:15 final size:15
Alignment explanation
Indices: 26311746--26311780 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
26311736 TGCCTCGATA
26311746 TCTTTTCCTTCTTCT
1 TCTTTTCCTTCTTCT
*
26311761 TCTTTTTCTTCTTCT
1 TCTTTTCCTTCTTCT
26311776 TCTTT
1 TCTTT
26311781 CACTTGTGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTTTTCCTTCTTCT
Found at i:26319328 original size:50 final size:50
Alignment explanation
Indices: 26319269--26319368 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
26319259 AGAAGGACTT
26319269 AATGAACAAATTAGCCTAAAGTATTATGGTGGGTGGATTGGCATGAGTTA
1 AATGAACAAATTAGCCTAAAGTATTATGGTGGGTGGATTGGCATGAGTTA
26319319 AATGAACAAATTAGCCTAAAGTATTATGGTGGGTGGATTGGCATGAGTTA
1 AATGAACAAATTAGCCTAAAGTATTATGGTGGGTGGATTGGCATGAGTTA
26319369 TATTATTTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (50 bp):
AATGAACAAATTAGCCTAAAGTATTATGGTGGGTGGATTGGCATGAGTTA
Found at i:26321250 original size:21 final size:21
Alignment explanation
Indices: 26321220--26321271 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
26321210 GAGTTTTTAA
*
26321220 TATCGATAGAAGCATGACTTG
1 TATCGGTAGAAGCATGACTTG
26321241 TATCGGTAGAAGCATGACTTG
1 TATCGGTAGAAGCATGACTTG
*
26321262 TATTGGTAGA
1 TATCGGTAGA
26321272 GGTCGCACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (21 bp):
TATCGGTAGAAGCATGACTTG
Found at i:26321835 original size:21 final size:21
Alignment explanation
Indices: 26321805--26321861 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
26321795 TACCAAAGAA
*
26321805 AAAGCATAAATACTTTTTAG-
1 AAAGTATAAATACTTTTTAGT
26321825 AAATGTATAAATAC-TTTTAGT
1 AAA-GTATAAATACTTTTTAGT
*
26321846 GAAGTATAAATACTTT
1 AAAGTATAAATACTTT
26321862 GAAAAAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.39
Consensus pattern (21 bp):
AAAGTATAAATACTTTTTAGT
Found at i:26323603 original size:24 final size:24
Alignment explanation
Indices: 26323576--26323628 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
26323566 TGAGGGTAGG
*
26323576 ATCTGTGTCTGCATCTATATCTGA
1 ATCTGTGTCTACATCTATATCTGA
* * *
26323600 ATCTGTGTCTACATTTGTATTTGA
1 ATCTGTGTCTACATCTATATCTGA
26323624 ATCTG
1 ATCTG
26323629 AATATGTATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.45
Consensus pattern (24 bp):
ATCTGTGTCTACATCTATATCTGA
Found at i:26325638 original size:17 final size:17
Alignment explanation
Indices: 26325613--26325655 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
26325603 ATTTATTTAA
*
26325613 TTAACTAAATTAATTTC
1 TTAATTAAATTAATTTC
*
26325630 TTAATTAAATTATTTTC
1 TTAATTAAATTAATTTC
26325647 TTAACTTAA
1 TTAA-TTAA
26325656 TTCTAATTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAATTAAATTAATTTC
Found at i:26336035 original size:14 final size:14
Alignment explanation
Indices: 26336018--26336044 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26336008 AGTCTGTTTA
26336018 ATTTTCTTTTATTG
1 ATTTTCTTTTATTG
26336032 ATTTTCTTTTATT
1 ATTTTCTTTTATT
26336045 TCTTTAGAAG
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:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (14 bp):
ATTTTCTTTTATTG
Found at i:26345005 original size:23 final size:22
Alignment explanation
Indices: 26344974--26345017 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
26344964 AAAGAAATAA
*
26344974 AATTAACCCAATTTAATTAATT
1 AATTAACCCAAATTAATTAATT
*
26344996 AATTCAACCCAAATTATTTAAT
1 AATT-AACCCAAATTAATTAAT
26345018 GAAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTAACCCAAATTAATTAATT
Found at i:26353868 original size:15 final size:15
Alignment explanation
Indices: 26353828--26353873 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
26353818 TCAGTCACTT
*
26353828 GAAAAAGAA-AAATGA
1 GAAAAAGAAGAAA-AA
26353843 GAAAAAGGAAGAAAAA
1 GAAAAA-GAAGAAAAA
26353859 GAAAAAGAAGAAAAA
1 GAAAAAGAAGAAAAA
26353874 AAATTTATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 15 0.54
16 10 0.36
17 3 0.11
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
GAAAAAGAAGAAAAA
Found at i:26361504 original size:39 final size:36
Alignment explanation
Indices: 26361443--26361528 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 36
26361433 TAACAGGCAA
* *
26361443 GACCTTTGGGTCAATAGGGAGTAAAATATAAGCATCAT
1 GACCTTTGGGTCAACAAGGAGT-AAA-ATAAGCATCAT
* *
26361481 GATCTTTAGGGTCAACAAGGAGTAAAATGAGCATCAT
1 GACCTTT-GGGTCAACAAGGAGTAAAATAAGCATCAT
26361518 GACCTTTGGGT
1 GACCTTTGGGT
26361529 TAATAGGAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
36 4 0.10
37 16 0.38
38 9 0.21
39 13 0.31
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.27
Consensus pattern (36 bp):
GACCTTTGGGTCAACAAGGAGTAAAATAAGCATCAT
Found at i:26365894 original size:216 final size:216
Alignment explanation
Indices: 26365520--26365939 Score: 822
Period size: 216 Copynumber: 1.9 Consensus size: 216
26365510 AATTGAGTAG
26365520 TCGTCTTCTTCGAAATCAGGTAGGTCAAAGTACTCATTGATGGTGCTTGACTTTAACGGTACCTT
1 TCGTCTTCTTCGAAATCAGGTAGGTCAAAGTACTCATTGATGGTGCTTGACTTTAACGGTACCTT
26365585 GATTCCTCGGACGAGAACTTTTGTAAGTTCACTTGAGGTCAAATTTGCGTAAAACTCTCAAACGA
66 GATTCCTCGGACGAGAACTTTTGTAAGTTCACTTGAGGTCAAATTTGCGTAAAACTCTCAAACGA
*
26365650 ATTCCTCATCTACACTTGGTCGCTTTTCACAAAACACTCCCCAATTTAGAGTTTCAGCAACTTGT
131 ATTCCTCATCTACACTTGGTCGCTTTTCACAAAACACTCCCCAATTTAGAGCTTCAGCAACTTGT
26365715 CGAATGCTTTTCACAAAACAC
196 CGAATGCTTTTCACAAAACAC
26365736 TCGTCTTCTTCGAAATCAGGTAGGTCAAAGTACTCATTGATGGTGCTTGACTTTAACGGTACCTT
1 TCGTCTTCTTCGAAATCAGGTAGGTCAAAGTACTCATTGATGGTGCTTGACTTTAACGGTACCTT
*
26365801 GATTCCTCGGACGAGAACTTTTGTAAGTTCACTTGAGGTCAAATTTGCGTAAAACTCTCGAACGA
66 GATTCCTCGGACGAGAACTTTTGTAAGTTCACTTGAGGTCAAATTTGCGTAAAACTCTCAAACGA
26365866 ATTCCTCATCTACACTTGGTCGCTTTTCACAAAACACTCCCCAATTTAGAGCTTCAGCAACTTGT
131 ATTCCTCATCTACACTTGGTCGCTTTTCACAAAACACTCCCCAATTTAGAGCTTCAGCAACTTGT
26365931 CGAATGCTT
196 CGAATGCTT
26365940 GCCATGAAGT
Statistics
Matches: 202, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
216 202 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (216 bp):
TCGTCTTCTTCGAAATCAGGTAGGTCAAAGTACTCATTGATGGTGCTTGACTTTAACGGTACCTT
GATTCCTCGGACGAGAACTTTTGTAAGTTCACTTGAGGTCAAATTTGCGTAAAACTCTCAAACGA
ATTCCTCATCTACACTTGGTCGCTTTTCACAAAACACTCCCCAATTTAGAGCTTCAGCAACTTGT
CGAATGCTTTTCACAAAACAC
Found at i:26366178 original size:16 final size:16
Alignment explanation
Indices: 26366159--26366219 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 16
26366149 TTAATTAGTC
26366159 TAAAATATTAATAATT
1 TAAAATATTAATAATT
* *
26366175 TAAAATAAATTAAAAAGT
1 TAAAAT--ATTAATAATT
26366193 TAATAA-ATTAAATAATT
1 TAA-AATATT-AATAATT
*
26366210 TAAAAAATTA
1 TAAAATATTA
26366220 GAAAAAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
16 12 0.33
17 11 0.31
18 11 0.31
19 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
TAAAATATTAATAATT
Found at i:26366216 original size:26 final size:26
Alignment explanation
Indices: 26366166--26366215 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
26366156 GTCTAAAATA
*
26366166 TTAATAATTTAAAATAAATTAAAAAG
1 TTAATAAATTAAAATAAATTAAAAAG
*
26366192 TTAATAAATT-AAATAATTTAAAAA
1 TTAATAAATTAAAATAAATTAAAAA
26366216 ATTAGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (26 bp):
TTAATAAATTAAAATAAATTAAAAAG
Found at i:26381258 original size:15 final size:15
Alignment explanation
Indices: 26381238--26381269 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
26381228 TTTCTAGAAG
26381238 TCTAGCTAACTTCTT
1 TCTAGCTAACTTCTT
26381253 TCTAGCTAACTTCTT
1 TCTAGCTAACTTCTT
26381268 TC
1 TC
26381270 CTCGCTCCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.28, G:0.06, T:0.47
Consensus pattern (15 bp):
TCTAGCTAACTTCTT
Found at i:26385235 original size:29 final size:28
Alignment explanation
Indices: 26385203--26385543 Score: 109
Period size: 29 Copynumber: 11.6 Consensus size: 28
26385193 TCTCGGGGCA
*
26385203 AAAATGTAATTTTGGAAAAATTTGGGGTT
1 AAAATGTAATTTTAG-AAAATTTGGGGTT
** * *
26385232 AAAAATGGGATTTTAGAAGATTCGAGGG-T
1 -AAAATGTAATTTTAGAAAATTTG-GGGTT
* * * *
26385261 AAAGTGGTAATTTTTGTGAAA-TTGGGATT
1 AAAAT-GTAATTTTAG-AAAATTTGGGGTT
* * * *
26385290 AAAATGGAATTTTAGAAAGTTCGGGGGT
1 AAAATGTAATTTTAGAAAATTTGGGGTT
* *
26385318 AAAATGGTAATTTTTGGTAAAATTCGGGGTT
1 AAAAT-GTAA-TTTTAG-AAAATTTGGGGTT
*** *
26385349 AAAAATAG-AATTTTAGAGGGTTCGAGGG-T
1 -AAAAT-GTAATTTTAGAAAATTTG-GGGTT
* * *
26385378 AAAATGGTAATTTTTGGTGAAA-TTAGGGTT
1 AAAAT-GTAA-TTTTAG-AAAATTTGGGGTT
* *
26385408 AAAAATGGAATTTT-GAAAAGTTTGGGGGT
1 -AAAATGTAATTTTAGAAAA-TTTGGGGTT
* * ** *
26385437 AAAATGGTAATTTTTGGTAGTTTTGGGGTC
1 AAAAT-GTAA-TTTTAGAAAATTTGGGGTT
* ** *
26385467 AAAATATAATGTTTAGAAGTTTTGGGGTC
1 AAAATGTAAT-TTTAGAAAATTTGGGGTT
* * * *
26385496 AAAATGTAATTTCAGAGGAGTTTGAGGGTC
1 AAAATGTAATTTTAGA-AAATTTG-GGGTT
26385526 AAAATGTAATTTTTAGAA
1 AAAATGTAA-TTTTAGAA
26385544 TTTTTGTGGG
Statistics
Matches: 229, Mismatches: 58, Indels: 48
0.68 0.17 0.14
Matches are distributed among these distances:
27 5 0.02
28 42 0.18
29 80 0.35
30 70 0.31
31 26 0.11
32 6 0.03
ACGTcount: A:0.35, C:0.02, G:0.28, T:0.35
Consensus pattern (28 bp):
AAAATGTAATTTTAGAAAATTTGGGGTT
Found at i:26385272 original size:59 final size:59
Alignment explanation
Indices: 26385203--26385455 Score: 293
Period size: 59 Copynumber: 4.3 Consensus size: 59
26385193 TCTCGGGGCA
* *
26385203 AAAAT-GTAATTTTGGAAAAATTTGGGGTTAAAAATGGGATTTTAGAAGA-TTCGAGGGT
1 AAAATGGTAATTTTGGTAAAA-TTGGGGTTAAAAATGGAATTTTAGAAGAGTTCGAGGGT
* * * * *
26385261 AAAGTGGTAATTTTTGTGAAATTGGGATT-AAAATGGAATTTTAGAA-AGTTCGGGGGT
1 AAAATGGTAATTTTGGTAAAATTGGGGTTAAAAATGGAATTTTAGAAGAGTTCGAGGGT
* *
26385318 AAAATGGTAATTTTTGGTAAAATTCGGGGTTAAAAATAGAATTTTAG-AGGGTTCGAGGGT
1 AAAATGGTAA-TTTTGGTAAAATT-GGGGTTAAAAATGGAATTTTAGAAGAGTTCGAGGGT
* * * * *
26385378 AAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTT-GAAAAGTTTGGGGGT
1 AAAATGGTAA-TTTTGGTAAAATTGGGGTTAAAAATGGAATTTTAGAAGAGTTCGAGGGT
26385437 AAAATGGTAATTTTTGGTA
1 AAAATGGTAA-TTTTGGTA
26385456 GTTTTGGGGT
Statistics
Matches: 166, Mismatches: 22, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
56 1 0.01
57 33 0.20
58 23 0.14
59 63 0.38
60 46 0.28
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.35
Consensus pattern (59 bp):
AAAATGGTAATTTTGGTAAAATTGGGGTTAAAAATGGAATTTTAGAAGAGTTCGAGGGT
Found at i:26385462 original size:30 final size:29
Alignment explanation
Indices: 26385409--26385568 Score: 148
Period size: 29 Copynumber: 5.5 Consensus size: 29
26385399 ATTAGGGTTA
* * * *
26385409 AAAATGGAATTTTGAAAAGTTTGGGGGT-
1 AAAATGTAATTTTTAGAAGTTTTGGGGTC
* *
26385437 AAAATGGTAATTTTTGGTAGTTTTGGGGTC
1 AAAAT-GTAATTTTTAGAAGTTTTGGGGTC
* *
26385467 AAAATATAATGTTTAGAAGTTTTGGGGTC
1 AAAATGTAATTTTTAGAAGTTTTGGGGTC
*
26385496 AAAATGTAA-TTTCAGAGGAG-TTTGAGGGTC
1 AAAATGTAATTTTTAGA--AGTTTTG-GGGTC
*
26385526 AAAATGTAATTTTTAGAATTTTTGTGGG-C
1 AAAATGTAATTTTTAGAAGTTTTG-GGGTC
*
26385555 AAAATATAATTTTT
1 AAAATGTAATTTTT
26385569 GAATAGTTTA
Statistics
Matches: 108, Mismatches: 17, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
28 10 0.09
29 64 0.59
30 28 0.26
31 6 0.06
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.39
Consensus pattern (29 bp):
AAAATGTAATTTTTAGAAGTTTTGGGGTC
Found at i:26385491 original size:59 final size:59
Alignment explanation
Indices: 26385203--26385507 Score: 259
Period size: 59 Copynumber: 5.2 Consensus size: 59
26385193 TCTCGGGGCA
* * * * * *
26385203 AAAAT-GTAA-TTTTGGAAAAATTTGGGGTTAAAAATGGGATTTTAGAAGATTCGAGGGT
1 AAAATGGTAATTTTTGGTAAAATTTGGGG-TAAAAATAGAATTTTAGAAGTTTTGGGGGT
* * * * * *
26385261 AAAGTGGTAATTTTT-GTGAAA-TTGGGATTAAAATGGAATTTTAGAAAG-TTCGGGGGT
1 AAAATGGTAATTTTTGGTAAAATTTGGGGTAAAAATAGAATTTTAG-AAGTTTTGGGGGT
* * * * *
26385318 AAAATGGTAATTTTTGGTAAAATTCGGGGTTAAAAATAGAATTTTAGAGGGTTCGAGGGT
1 AAAATGGTAATTTTTGGTAAAATTTGGGG-TAAAAATAGAATTTTAGAAGTTTTGGGGGT
* * * * *
26385378 AAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGAAAAG-TTTGGGGGT
1 AAAATGGTAATTTTTGGTAAAATTTGGGGTAAAAATAGAATTTT-AGAAGTTTTGGGGGT
** * *
26385437 AAAATGGTAATTTTTGGT-AGTTTTGGGGTCAAAATATAATGTTTAGAAGTTTT-GGGGT
1 AAAATGGTAATTTTTGGTAAAATTTGGGGTAAAAATAGAAT-TTTAGAAGTTTTGGGGGT
26385495 CAAAAT-GTAATTT
1 -AAAATGGTAATTT
26385508 CAGAGGAGTT
Statistics
Matches: 205, Mismatches: 31, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
57 37 0.18
58 48 0.23
59 64 0.31
60 56 0.27
ACGTcount: A:0.35, C:0.02, G:0.28, T:0.36
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTAAAATTTGGGGTAAAAATAGAATTTTAGAAGTTTTGGGGGT
Found at i:26385577 original size:59 final size:59
Alignment explanation
Indices: 26385425--26385581 Score: 162
Period size: 59 Copynumber: 2.7 Consensus size: 59
26385415 GAATTTTGAA
* *
26385425 AAGTTTGGGGGT-AAAATGGTAATTTTTG-GTAGTTTTG-GGGTCAAAATATAATGTTTAG
1 AAGTTTTGGGGTCAAAAT-ATAATTTTTGAGTAG-TTTGAGGGTCAAAATATAATGTTTAG
* ** * * *
26385483 AAGTTTTGGGGTCAAAATGTAATTTCAGAGGAGTTTGAGGGTCAAAATGTAATTTTTAG
1 AAGTTTTGGGGTCAAAATATAATTTTTGAGTAGTTTGAGGGTCAAAATATAATGTTTAG
* *
26385542 AATTTTTGTGGG-CAAAATATAATTTTTGAATAGTTT-AGGG
1 AAGTTTTG-GGGTCAAAATATAATTTTTGAGTAGTTTGAGGG
26385582 ACCTATAGAG
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
58 27 0.33
59 53 0.64
60 3 0.04
ACGTcount: A:0.31, C:0.03, G:0.27, T:0.39
Consensus pattern (59 bp):
AAGTTTTGGGGTCAAAATATAATTTTTGAGTAGTTTGAGGGTCAAAATATAATGTTTAG
Found at i:26386667 original size:16 final size:16
Alignment explanation
Indices: 26386646--26386681 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
26386636 GGCGAGGCAG
26386646 TGACGGTATTCAGCGA
1 TGACGGTATTCAGCGA
*
26386662 TGACGGTATTCAGCGG
1 TGACGGTATTCAGCGA
26386678 TGAC
1 TGAC
26386682 TCCAGCGCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.25
Consensus pattern (16 bp):
TGACGGTATTCAGCGA
Found at i:26386779 original size:13 final size:14
Alignment explanation
Indices: 26386748--26386785 Score: 60
Period size: 13 Copynumber: 2.7 Consensus size: 14
26386738 TCTCCTTTTT
26386748 TTAATTATTATAATA
1 TTAATTATTAT-ATA
26386763 TTAATTATTAT-TA
1 TTAATTATTATATA
26386776 TTAATTATTA
1 TTAATTATTA
26386786 ATAAATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 12 0.52
15 11 0.48
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTAATTATTATATA
Found at i:26386782 original size:7 final size:7
Alignment explanation
Indices: 26386748--26386787 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
26386738 TCTCCTTTTT
26386748 TTAATTA
1 TTAATTA
*
26386755 TTATAATA
1 TTA-ATTA
26386763 TTAATTA
1 TTAATTA
26386770 TT-ATTA
1 TTAATTA
26386776 TTAATTA
1 TTAATTA
26386783 TTAAT
1 TTAAT
26386788 AAATATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.21
7 17 0.59
8 6 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TTAATTA
Found at i:26386782 original size:10 final size:10
Alignment explanation
Indices: 26386748--26386804 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
26386738 TCTCCTTTTT
26386748 TTAATTATTA
1 TTAATTATTA
26386758 -TAA-TATTAA
1 TTAATTATT-A
26386767 TT-ATTATTA
1 TTAATTATTA
26386776 TTAATTATTA
1 TTAATTATTA
* *
26386786 ATAAATATTA
1 TTAATTATTA
*
26386796 AT-ATTATTA
1 TTAATTATTA
26386805 AAACAATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
8 4 0.10
9 14 0.35
10 22 0.55
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TTAATTATTA
Found at i:26387694 original size:13 final size:13
Alignment explanation
Indices: 26387685--26387709 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26387675 AAATAAATTT
26387685 AATCTTTAAAATA
1 AATCTTTAAAATA
26387698 AATCTTTAAAAT
1 AATCTTTAAAAT
26387710 GGGTTTAATT
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
AATCTTTAAAATA
Found at i:26387697 original size:18 final size:17
Alignment explanation
Indices: 26387653--26387700 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
26387643 TTTAAATATG
26387653 AATTC-AAATAAATTTA
1 AATTCAAAATAAATTTA
26387669 AATTCAAAATAAATTTA
1 AATTCAAAATAAATTTA
* *
26387686 ATCTTTAAAATAAAT
1 A-ATTCAAAATAAAT
26387701 CTTTAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.18
17 12 0.43
18 11 0.39
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
AATTCAAAATAAATTTA
Found at i:26388716 original size:18 final size:19
Alignment explanation
Indices: 26388695--26388735 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
26388685 AGAAATTGTT
26388695 TATAGTA-GAA-ATATAGTA
1 TATAGTATGAATATATA-TA
26388713 TATAGTATGAATATATATA
1 TATAGTATGAATATATATA
26388732 TATA
1 TATA
26388736 AATATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.33
19 9 0.43
20 5 0.24
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (19 bp):
TATAGTATGAATATATATA
Found at i:26391079 original size:21 final size:21
Alignment explanation
Indices: 26391001--26391079 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 21
26390991 AATAGTGCAG
* * *
26391001 ACTTTTACCGATACTTGTGAT
1 ACTTCTACCGATACTAGTTAT
* *
26391022 ACTTTTACCGATACAAGTGTA-
1 ACTTCTACCGATACTAGT-TAT
* * *
26391043 ACGTCTACCAAAACTAGTTAT
1 ACTTCTACCGATACTAGTTAT
*
26391064 GCTTCTACCGATACTA
1 ACTTCTACCGATACTA
26391080 AAAACTCCAG
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
20 2 0.05
21 41 0.93
22 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (21 bp):
ACTTCTACCGATACTAGTTAT
Found at i:26391791 original size:42 final size:42
Alignment explanation
Indices: 26391745--26391921 Score: 309
Period size: 42 Copynumber: 4.2 Consensus size: 42
26391735 GAGTCATAAA
* *
26391745 TCTTCCTTTAATCATATTATCATTCTCATCCCGAGACATGAG
1 TCTTCCTTTAATCATAATCTCATTCTCATCCCGAGACATGAG
*
26391787 TCTTCCTTTAATCATAATCTCATTCTCATCCCGAGACATGAC
1 TCTTCCTTTAATCATAATCTCATTCTCATCCCGAGACATGAG
26391829 TCTTCCTTTAATCATAATCTCATTCTCATCCCGAGACATGAG
1 TCTTCCTTTAATCATAATCTCATTCTCATCCCGAGACATGAG
* *
26391871 TCTTCCTTTAACCATAATCTCATTCTCATCTCGAGACATGAG
1 TCTTCCTTTAATCATAATCTCATTCTCATCCCGAGACATGAG
26391913 TCTTCCTTT
1 TCTTCCTTT
26391922 TTATACATCA
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 129 1.00
ACGTcount: A:0.25, C:0.29, G:0.08, T:0.38
Consensus pattern (42 bp):
TCTTCCTTTAATCATAATCTCATTCTCATCCCGAGACATGAG
Found at i:26398756 original size:37 final size:37
Alignment explanation
Indices: 26398679--26398758 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 37
26398669 TAATGTCGTT
* ** * *
26398679 GCATGAGCACTTCTAGATTGTGCCTAAAACTACAGTC
1 GCATGAGCACTTCCAGATTGCACCCAAAACTACAGCC
26398716 GCATGAGCACTTCCAGATTGCACCCAAAACTATC-GCC
1 GCATGAGCACTTCCAGATTGCACCCAAAACTA-CAGCC
26398753 GCATGA
1 GCATGA
26398759 ATATTTTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (37 bp):
GCATGAGCACTTCCAGATTGCACCCAAAACTACAGCC
Found at i:26398888 original size:26 final size:26
Alignment explanation
Indices: 26398850--26398910 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
26398840 TCAATTGCAC
* *
26398850 CTAGAAATGTCGCAACATGAACATGT
1 CTAGAATTATCGCAACATGAACATGT
** *
26398876 CTAGAATTATCGCTGCATGAACGTGT
1 CTAGAATTATCGCAACATGAACATGT
*
26398902 CCAGAATTA
1 CTAGAATTA
26398911 CGCCCAAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (26 bp):
CTAGAATTATCGCAACATGAACATGT
Found at i:26399735 original size:16 final size:16
Alignment explanation
Indices: 26399714--26399744 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26399704 TTATGGATCC
26399714 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
26399730 CATTTTATCTTTATT
1 CATTTTACCTTTATT
26399745 TTCACATTAT
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:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:26418721 original size:154 final size:154
Alignment explanation
Indices: 26418441--26418751 Score: 613
Period size: 154 Copynumber: 2.0 Consensus size: 154
26418431 CAGCCTGACA
26418441 ATTAATGGCTGTAGGCGCATCATTTCCCCATACGTTTTCACTCATTACAACTAGGTTATAAAACC
1 ATTAATGGCTGTAGGCGCATCATTTCCCCATACGTTTTCACTCATTACAACTAGGTTATAAAACC
26418506 CTCACTGTAGTTTTCTTTTTCTTCATAATCGCCATTGTTACTGAGAATCAACCTTCTCTGTCAAT
66 CTCACTGTAGTTTTCTTTTTCTTCATAATCGCCATTGTTACTGAGAATCAACCTTCTCTGTCAAT
26418571 TTTCTTTTCTCAGTTCAAAGTAAT
131 TTTCTTTTCTCAGTTCAAAGTAAT
*
26418595 ATTAATGGTTGTAGGCGCATCATTTCCCCATACGTTTTCACTCATTACAACTAGGTTATAAAACC
1 ATTAATGGCTGTAGGCGCATCATTTCCCCATACGTTTTCACTCATTACAACTAGGTTATAAAACC
26418660 CTCACTGTAGTTTTCTTTTTCTTCATAATCGCCATTGTTACTGAGAATCAACCTTCTCTGTCAAT
66 CTCACTGTAGTTTTCTTTTTCTTCATAATCGCCATTGTTACTGAGAATCAACCTTCTCTGTCAAT
26418725 TTTCTTTTCTCAGTTCAAAGTAAT
131 TTTCTTTTCTCAGTTCAAAGTAAT
26418749 ATT
1 ATT
26418752 TTTCTTTTTC
Statistics
Matches: 156, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
154 156 1.00
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (154 bp):
ATTAATGGCTGTAGGCGCATCATTTCCCCATACGTTTTCACTCATTACAACTAGGTTATAAAACC
CTCACTGTAGTTTTCTTTTTCTTCATAATCGCCATTGTTACTGAGAATCAACCTTCTCTGTCAAT
TTTCTTTTCTCAGTTCAAAGTAAT
Found at i:26440599 original size:24 final size:23
Alignment explanation
Indices: 26440550--26440599 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
26440540 TAAAGTAGGT
* *
26440550 TATATATTATTTTTCTAATATTA
1 TATATATGATTTTTCTAATATCA
26440573 TATATTATGATTTTTACTAAT-TCA
1 TATA-TATGATTTTT-CTAATATCA
26440597 TAT
1 TAT
26440600 TTTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
24 14 0.61
25 5 0.22
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (23 bp):
TATATATGATTTTTCTAATATCA
Found at i:26440677 original size:57 final size:58
Alignment explanation
Indices: 26440600--26440742 Score: 184
Period size: 57 Copynumber: 2.5 Consensus size: 58
26440590 TAATTCATAT
* * *
26440600 TTTAATAATAATTATATTAAAA-ATTTATTAAATTATATATTA-TTTTATTAAATTGTA
1 TTTAATAATAAATATATTAAAATA-TAATTAAATTATATACTATTTTTATTAAATTGTA
* *
26440657 TTTAATAATAAATATGTTAAAATATAATTAAATTATTTACTATTTTTATTAAATTGTA
1 TTTAATAATAAATATATTAAAATATAATTAAATTATATACTATTTTTATTAAATTGTA
* *
26440715 TTTAATAAT-AATCTTATTAAAATTTAAT
1 TTTAATAATAAAT-ATATTAAAATATAAT
26440743 AACAATAATC
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
57 38 0.51
58 37 0.49
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (58 bp):
TTTAATAATAAATATATTAAAATATAATTAAATTATATACTATTTTTATTAAATTGTA
Found at i:26440928 original size:15 final size:16
Alignment explanation
Indices: 26440908--26440937 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
26440898 GATTATAATC
26440908 CTATTCCA-TACAGCT
1 CTATTCCATTACAGCT
26440923 CTATTCCATTACAGC
1 CTATTCCATTACAGC
26440938 GAACCAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.27, C:0.33, G:0.07, T:0.33
Consensus pattern (16 bp):
CTATTCCATTACAGCT
Found at i:26447839 original size:6 final size:6
Alignment explanation
Indices: 26447828--26447895 Score: 56
Period size: 6 Copynumber: 12.0 Consensus size: 6
26447818 ACCCAAACAG
* * *
26447828 AATTTA AATTTA AAATT- ATTTTA AGTTTA AATTT- -ATTGTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATT-TA AATTTA
*
26447874 AGTTTA AATTT- -ATTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA
26447896 CTAATGTCTA
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
4 7 0.14
5 4 0.08
6 35 0.71
7 3 0.06
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (6 bp):
AATTTA
Found at i:26447856 original size:17 final size:17
Alignment explanation
Indices: 26447830--26447874 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
26447820 CCAAACAGAA
26447830 TTTAAATTTAAAATTAT
1 TTTAAATTTAAAATTAT
* *
26447847 TTTAAGTTTAAATTTAT
1 TTTAAATTTAAAATTAT
*
26447864 TGTAAATTTAA
1 TTTAAATTTAA
26447875 GTTTAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (17 bp):
TTTAAATTTAAAATTAT
Found at i:26447857 original size:23 final size:23
Alignment explanation
Indices: 26447830--26447885 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
26447820 CCAAACAGAA
* *
26447830 TTTAAATTTAAAATTATTTTAAG
1 TTTAAATTTAAAATAAATTTAAG
***
26447853 TTTAAATTTATTGTAAATTTAAG
1 TTTAAATTTAAAATAAATTTAAG
26447876 TTTAAATTTA
1 TTTAAATTTA
26447886 TTTAAATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (23 bp):
TTTAAATTTAAAATAAATTTAAG
Found at i:26447879 original size:17 final size:17
Alignment explanation
Indices: 26447832--26447879 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
26447822 AAACAGAATT
* *
26447832 TAAATTTAAAATTATTT
1 TAAATTTAAATTTATTG
*
26447849 TAAGTTTAAATTTATTG
1 TAAATTTAAATTTATTG
*
26447866 TAAATTTAAGTTTA
1 TAAATTTAAATTTA
26447880 AATTTATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (17 bp):
TAAATTTAAATTTATTG
Found at i:26447886 original size:23 final size:22
Alignment explanation
Indices: 26447847--26447895 Score: 89
Period size: 23 Copynumber: 2.2 Consensus size: 22
26447837 TTAAAATTAT
26447847 TTTAAGTTTAAATTTATTGTAAA
1 TTTAAGTTTAAATTTATT-TAAA
26447870 TTTAAGTTTAAATTTATTTAAA
1 TTTAAGTTTAAATTTATTTAAA
26447892 TTTA
1 TTTA
26447896 CTAATGTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (22 bp):
TTTAAGTTTAAATTTATTTAAA
Found at i:26447891 original size:10 final size:10
Alignment explanation
Indices: 26447853--26447895 Score: 59
Period size: 10 Copynumber: 4.0 Consensus size: 10
26447843 TTATTTTAAG
26447853 TTTAAATTTA
1 TTTAAATTTA
26447863 TTGTAAATTTAA
1 TT-TAAATTT-A
26447875 GTTTAAATTTA
1 -TTTAAATTTA
26447886 TTTAAATTTA
1 TTTAAATTTA
26447896 CTAATGTCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 12 0.40
11 8 0.27
12 8 0.27
13 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (10 bp):
TTTAAATTTA
Found at i:26447994 original size:41 final size:41
Alignment explanation
Indices: 26447932--26448025 Score: 145
Period size: 41 Copynumber: 2.3 Consensus size: 41
26447922 CCCAATTACA
* *
26447932 AACAGGCCCAAATGGTCCAAACTCTAAACCTAAACCCAGTT
1 AACAAGCCCAAATGGTCCAAACTCTAAACCTAAACCCAATT
26447973 AACAAGCCCAAATGG-CTCAAACTCTAAACCTAAACCCAATT
1 AACAAGCCCAAATGGTC-CAAACTCTAAACCTAAACCCAATT
*
26448014 AATAAGCCCAAA
1 AACAAGCCCAAA
26448026 CCAAAATAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
40 1 0.02
41 48 0.98
ACGTcount: A:0.44, C:0.31, G:0.10, T:0.16
Consensus pattern (41 bp):
AACAAGCCCAAATGGTCCAAACTCTAAACCTAAACCCAATT
Found at i:26449645 original size:30 final size:30
Alignment explanation
Indices: 26449611--26449669 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
26449601 CTCGGAAGGA
26449611 CCCTAAACTATCCAAAAATCATATTTTGAC
1 CCCTAAACTATCCAAAAATCATATTTTGAC
* ***
26449641 CCCTAAACTTTTTTAAAATCATATTTTGA
1 CCCTAAACTATCCAAAAATCATATTTTGA
26449670 ATCTCGAACT
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:0.37, C:0.22, G:0.03, T:0.37
Consensus pattern (30 bp):
CCCTAAACTATCCAAAAATCATATTTTGAC
Found at i:26449764 original size:26 final size:25
Alignment explanation
Indices: 26449724--26449772 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
26449714 CTTTTTTGCC
26449724 CTTAAACTTCCAAAAATCACATTGA
1 CTTAAACTTCCAAAAATCACATTGA
* *
26449749 CTTAGAACTTCTAAAAATTACATT
1 CTTA-AACTTCCAAAAATCACATT
26449773 TTTTCCCTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (25 bp):
CTTAAACTTCCAAAAATCACATTGA
Found at i:26449893 original size:85 final size:86
Alignment explanation
Indices: 26449702--26450013 Score: 330
Period size: 85 Copynumber: 3.6 Consensus size: 86
26449692 CATTTTACCT
* * * * * * * *
26449702 TTCCAAAATTTACTTTTTTGCCCTTAAACTTC-CAAAAATCACA-TTGA--CTTAGAACTTCTAA
1 TTCCAAAAATTACATTTTTACCCCTAAACTTCTCAAAAATTACATTTTACCCCTA-AACTTCCAA
* * *
26449763 AAATTACATTTTTTCCCTCGAAC
65 AAATCACATTTTTACCCT-AAAC
*
26449786 TTCTCATAAATTACATTTTTACCCCTAAACTTCTCAAAAATTACATTTTACCCCTAAACTTCCAA
1 TTC-CAAAAATTACATTTTTACCCCTAAACTTCTCAAAAATTACATTTTACCCCTAAACTTCCAA
26449851 AAATCACA-TTTTACCCTAAAC
65 AAATCACATTTTTACCCTAAAC
* * * *
26449872 TTCCAAAAATCACATTTTTACCCCCAAACTTCTCAAAAATTCCATTTTCCCCCTAAACTTCCAAA
1 TTCCAAAAATTACATTTTTACCCCTAAACTTCTCAAAAATTACATTTTACCCCTAAACTTCCAAA
*
26449937 AATCACATTTTTACCCCTCGAAC
66 AATCACATTTTTA-CCCT-AAAC
** * *
26449960 TTCTTAAAATTATATTTTTACCCTCT-AACTTCTTAAAAATTACATTTTTACCCC
1 TTCCAAAAATTACATTTTTACCC-CTAAACTTCTCAAAAATTACA-TTTTACCCC
26450014 CGAATTCTCT
Statistics
Matches: 192, Mismatches: 26, Indels: 15
0.82 0.11 0.06
Matches are distributed among these distances:
84 3 0.02
85 88 0.46
86 21 0.11
87 15 0.08
88 53 0.28
89 12 0.06
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.37
Consensus pattern (86 bp):
TTCCAAAAATTACATTTTTACCCCTAAACTTCTCAAAAATTACATTTTACCCCTAAACTTCCAAA
AATCACATTTTTACCCTAAAC
Found at i:26449937 original size:58 final size:59
Alignment explanation
Indices: 26449754--26450022 Score: 293
Period size: 58 Copynumber: 4.6 Consensus size: 59
26449744 ATTGACTTAG
* * * * *
26449754 AACTTCTAAAAATTACATTTTTTCCCTCGAACTTCTCATAAATTACATTTTTACCCCTA
1 AACTTCCAAAAATTACATTTTTACCCCCGAACTTCTCAAAAATTACATTTTTCCCCCTA
** * *
26449813 AACTTCTCAAAAATTACA-TTTTACCCCTAAACTTC-CAAAAATCACA-TTTT-ACCCTA
1 AACTTC-CAAAAATTACATTTTTACCCCCGAACTTCTCAAAAATTACATTTTTCCCCCTA
* * *
26449869 AACTTCCAAAAATCACATTTTTACCCCCAAACTTCTCAAAAATTCCA-TTTTCCCCCTA
1 AACTTCCAAAAATTACATTTTTACCCCCGAACTTCTCAAAAATTACATTTTTCCCCCTA
* * * *
26449927 AACTTCCAAAAATCACATTTTTACCCCTCGAACTTCT-TAAAATTATATTTTTACCCTCT-
1 AACTTCCAAAAATTACATTTTTACCCC-CGAACTTCTCAAAAATTACATTTTT-CCCCCTA
*
26449986 AACTTCTTAAAAATTACATTTTTACCCCCGAA-TTCTC
1 AACTTC-CAAAAATTACATTTTTACCCCCGAACTTCTC
26450023 TAATACTTTA
Statistics
Matches: 181, Mismatches: 20, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
55 10 0.06
56 27 0.15
57 17 0.09
58 52 0.29
59 41 0.23
60 34 0.19
ACGTcount: A:0.34, C:0.29, G:0.01, T:0.36
Consensus pattern (59 bp):
AACTTCCAAAAATTACATTTTTACCCCCGAACTTCTCAAAAATTACATTTTTCCCCCTA
Found at i:26450021 original size:29 final size:30
Alignment explanation
Indices: 26449754--26450022 Score: 281
Period size: 30 Copynumber: 9.3 Consensus size: 30
26449744 ATTGACTTAG
* * *
26449754 AACTTCT-AAAAATTACATTTTTTCCCTCG
1 AACTTCTCAAAAATTACATTTTTACCCCCA
* *
26449783 AACTTCTCATAAATTACATTTTTACCCCTA
1 AACTTCTCAAAAATTACATTTTTACCCCCA
*
26449813 AACTTCTCAAAAATTACA-TTTTACCCCTA
1 AACTTCTCAAAAATTACATTTTTACCCCCA
* *
26449842 AACTTC-CAAAAATCACA-TTTTA-CCCTA
1 AACTTCTCAAAAATTACATTTTTACCCCCA
*
26449869 AACTTC-CAAAAATCACATTTTTACCCCCA
1 AACTTCTCAAAAATTACATTTTTACCCCCA
*
26449898 AACTTCTCAAAAATTCCA-TTTT-CCCCCTA
1 AACTTCTCAAAAATTACATTTTTACCCCC-A
* *
26449927 AACTTC-CAAAAATCACATTTTTACCCCTCG
1 AACTTCTCAAAAATTACATTTTTACCCC-CA
* * * *
26449957 AACTTCT-TAAAATTATATTTTTACCCTCT
1 AACTTCTCAAAAATTACATTTTTACCCCCA
* *
26449986 AACTTCTTAAAAATTACATTTTTACCCCCG
1 AACTTCTCAAAAATTACATTTTTACCCCCA
26450016 AA-TTCTC
1 AACTTCTC
26450023 TAATACTTTA
Statistics
Matches: 207, Mismatches: 23, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
27 22 0.11
28 34 0.16
29 61 0.29
30 89 0.43
31 1 0.00
ACGTcount: A:0.34, C:0.29, G:0.01, T:0.36
Consensus pattern (30 bp):
AACTTCTCAAAAATTACATTTTTACCCCCA
Found at i:26454277 original size:17 final size:18
Alignment explanation
Indices: 26454257--26454294 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
26454247 CAACTTTTTC
26454257 TTTAT-TTTCTATTTTA-G
1 TTTATCTTT-TATTTTATG
26454274 TTTATCTTTTATTTTATG
1 TTTATCTTTTATTTTATG
26454292 TTT
1 TTT
26454295 TCAAAACAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTATCTTTTATTTTATG
Done.