Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 130 of 295
Found at i:44574266 original size:39 final size:39
Alignment explanation
Indices: 44574222--44574300 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
44574212 GCAAGGAGAT
*
44574222 AGTACACTTTAGGCATTCATCGGGTGTACCAGATAGCTC
1 AGTACACTTTAGGCATTCATCGGGTGTACAAGATAGCTC
44574261 AGTACACTTTAGGCATTCATCGGGTGTACAAGATAGCTC
1 AGTACACTTTAGGCATTCATCGGGTGTACAAGATAGCTC
44574300 A
1 A
44574301 TCGAGTACCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (39 bp):
AGTACACTTTAGGCATTCATCGGGTGTACAAGATAGCTC
Found at i:44576292 original size:39 final size:40
Alignment explanation
Indices: 44576179--44576362 Score: 250
Period size: 40 Copynumber: 4.7 Consensus size: 40
44576169 GCTACTCGTT
*
44576179 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
44576219 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
44576259 CAAATGCCTTCGGGACTTA-CCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
44576298 CAAATGCCTTC-GAATCTTAGTCCGGATATGGTCACTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
44576338 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44576363 CATCATTCAA
Statistics
Matches: 130, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.02
39 51 0.39
40 75 0.58
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:44576294 original size:79 final size:81
Alignment explanation
Indices: 44576146--44576362 Score: 252
Period size: 79 Copynumber: 2.7 Consensus size: 81
44576136 AAATCACGTA
* ** *
44576146 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTA
1 CCTTC-GAATCTTAACCCGGATATAG-TAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTA
44576207 TAGTAACTCGCACAAATG
64 TAGTAACTCGCACAAATG
* * *
44576225 CCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTA-CCCGGATT-T
1 CCTTC-GAATCTTAACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTAT
44576287 AGTAACTCGCACAAATG
65 AGTAACTCGCACAAATG
** * *
44576304 CCTTCGAATCTTAGTCCGGATATGGTCACTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGAATCTTAACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
44576363 CATCATTCAA
Statistics
Matches: 120, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
78 16 0.13
79 70 0.58
80 34 0.28
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (81 bp):
CCTTCGAATCTTAACCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATTATA
GTAACTCGCACAAATG
Found at i:44578990 original size:14 final size:14
Alignment explanation
Indices: 44578971--44578997 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44578961 TATTTGTGTC
44578971 ACAATTATACAAAA
1 ACAATTATACAAAA
44578985 ACAATTATACAAA
1 ACAATTATACAAA
44578998 CTTTGGGGTG
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:0.63, C:0.15, G:0.00, T:0.22
Consensus pattern (14 bp):
ACAATTATACAAAA
Found at i:44583794 original size:25 final size:24
Alignment explanation
Indices: 44583762--44583822 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
44583752 ACTTGAGTTT
44583762 GTCTAGTATAGT-CTATCTATAGTA
1 GTCTAGTATA-TACTATCTATAGTA
*
44583786 GTCTCAGTATATACTATCTATAGCA
1 GTCT-AGTATATACTATCTATAGTA
* *
44583811 GTTTAGTTTATA
1 GTCTAGTATATA
44583823 AATAAATAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 12 0.38
25 20 0.62
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (24 bp):
GTCTAGTATATACTATCTATAGTA
Found at i:44592570 original size:15 final size:15
Alignment explanation
Indices: 44592550--44592587 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
44592540 GCCCCGATTT
44592550 TTGGGCCTGAAAGTA
1 TTGGGCCTGAAAGTA
44592565 TTGGGCCTGAAAGTA
1 TTGGGCCTGAAAGTA
44592580 TTGGGCCT
1 TTGGGCCT
44592588 TGAGTCTGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.21, C:0.16, G:0.34, T:0.29
Consensus pattern (15 bp):
TTGGGCCTGAAAGTA
Found at i:44603460 original size:13 final size:13
Alignment explanation
Indices: 44603442--44603466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44603432 AACGTAGTAG
44603442 GACACGGTCGTGA
1 GACACGGTCGTGA
44603455 GACACGGTCGTG
1 GACACGGTCGTG
44603467 TGTACCAACA
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:0.20, C:0.24, G:0.40, T:0.16
Consensus pattern (13 bp):
GACACGGTCGTGA
Found at i:44615518 original size:49 final size:49
Alignment explanation
Indices: 44615413--44616081 Score: 1132
Period size: 49 Copynumber: 13.9 Consensus size: 49
44615403 TAGTATGGCG
44615413 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
44615460 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
44615509 TAATGGCCGATGTGATGAATGTGTAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
44615558 TAATGGCCGATGTAATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
44615605 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
44615652 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
44615701 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
44615748 TAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
44615797 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
*
44615846 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
44615895 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
44615944 TAATGGCCGATGTGATGAATGTGAAA--GTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* *
44615991 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * *
44616038 GAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
44616082 TCCCGAAGGG
Statistics
Matches: 593, Mismatches: 19, Indels: 20
0.94 0.03 0.03
Matches are distributed among these distances:
47 263 0.44
48 1 0.00
49 329 0.55
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:44615591 original size:96 final size:94
Alignment explanation
Indices: 44615413--44616081 Score: 1095
Period size: 96 Copynumber: 7.0 Consensus size: 94
44615403 TAGTATGGCG
*
44615413 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44615478 ATGTGAAAGTGTATATATATGTGATAAGGCC
66 ATGTGAAAGTG--TATATATGTGATAAGGCC
* *
44615509 TAATGGCCGATGTGATGAATGTGTAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTAAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
44615574 GAATGTGAAAGTGTATATATGTGATAAGGCC
64 GAATGTGAAAGTGTATATATGTGATAAGGCC
44615605 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44615670 ATGTGAAAGTGTATATATATGTGATAAGGCC
66 ATGTGAAAGTG--TATATATGTGATAAGGCC
44615701 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44615766 ATGTGAAAGTGTATGTATATGTGATAAGGCC
66 ATGTGAAAGTGTA--TATATGTGATAAGGCC
*
44615797 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
44615862 GAATGTGAAAGTGTATATATATGTGATAAGGCC
64 GAATGTGAAAGTG--TATATATGTGATAAGGCC
44615895 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
44615960 GAATGTGAAAGTATATATATGTGATAAGGCC
64 GAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * * *
44615991 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
44616056 ATGTGAAAGTGTATAAATGTGATAAG
66 ATGTGAAAGTGTATATATGTGATAAG
44616082 TCCCGAAGGG
Statistics
Matches: 546, Mismatches: 17, Indels: 22
0.93 0.03 0.04
Matches are distributed among these distances:
94 101 0.18
96 260 0.48
98 183 0.34
100 2 0.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (94 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:44615836 original size:27 final size:27
Alignment explanation
Indices: 44615806--44615888 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 27
44615796 CTAATGGCCG
44615806 ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
* *** ** *
44615833 ATGTGAT-AAGGCCTAA-TGGCT-GA-
1 ATGTGATGAATGTGAAAGTGTATATAT
44615856 -TGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
44615882 ATGTGAT
1 ATGTGAT
44615889 AAGGCCTAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
22 6 0.16
23 5 0.14
24 4 0.11
25 4 0.11
26 5 0.14
27 13 0.35
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.35
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTATATAT
Found at i:44627073 original size:13 final size:14
Alignment explanation
Indices: 44627055--44627087 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
44627045 AATAAAAAAC
*
44627055 AAACATATCAATA-
1 AAACATATAAATAT
44627068 AAACATATAAATAT
1 AAACATATAAATAT
44627082 AAACAT
1 AAACAT
44627088 GGTCGAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACATATAAATAT
Found at i:44628439 original size:43 final size:43
Alignment explanation
Indices: 44628383--44628597 Score: 272
Period size: 43 Copynumber: 5.0 Consensus size: 43
44628373 ACATATTGTA
* *
44628383 CAATGCCAATGTCCCAAAC-ATGGTCTTACATGTAATCACATAT
1 CAATGCCAATGTCCCAGACGA-GGTCTTACACGTAATCACATAT
* *
44628426 CAATGCCACTGTCCCAGAC-AGGGTTTTACACGTAATCACATAT
1 CAATGCCAATGTCCCAGACGA-GGTCTTACACGTAATCACATAT
*
44628469 CGATGCCAATGTCCCAGACGAGGTCTTACACGTAATCACATAT
1 CAATGCCAATGTCCCAGACGAGGTCTTACACGTAATCACATAT
* * *
44628512 CAATGCCAACGTCCCAGACGAGGTCTTACACGTAGTAACATAT
1 CAATGCCAATGTCCCAGACGAGGTCTTACACGTAATCACATAT
* * * * * *
44628555 CGATCCCAACGACCTAGACGAGGTCTTACACATAATCACATAT
1 CAATGCCAATGTCCCAGACGAGGTCTTACACGTAATCACATAT
44628598 AGAAATCACA
Statistics
Matches: 152, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
43 151 0.99
44 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACGAGGTCTTACACGTAATCACATAT
Found at i:44631871 original size:18 final size:18
Alignment explanation
Indices: 44631848--44631909 Score: 81
Period size: 18 Copynumber: 3.4 Consensus size: 18
44631838 AAATCTAGAT
44631848 AATGATATTGAAATGACA
1 AATGATATTGAAATGACA
44631866 AATGATATTGAAAT-AGCA
1 AATGATATTGAAATGA-CA
** *
44631884 AATGGCATTGAAATGAAA
1 AATGATATTGAAATGACA
44631902 AATGATAT
1 AATGATAT
44631910 AGAATGTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 1 0.03
18 35 0.95
19 1 0.03
ACGTcount: A:0.50, C:0.05, G:0.18, T:0.27
Consensus pattern (18 bp):
AATGATATTGAAATGACA
Found at i:44633014 original size:50 final size:50
Alignment explanation
Indices: 44632955--44633054 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
44632945 TCATATGTGA
44632955 GTGCTTTTTAGAAAAACCTTAGCAAGTTAAAAGTCGTCCAACTTGTTATC
1 GTGCTTTTTAGAAAAACCTTAGCAAGTTAAAAGTCGTCCAACTTGTTATC
44633005 GTGCTTTTTAGAAAAACCTTAGCAAGTTAAAAGTCGTCCAACTTGTTATC
1 GTGCTTTTTAGAAAAACCTTAGCAAGTTAAAAGTCGTCCAACTTGTTATC
44633055 TTCACTTAAG
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:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (50 bp):
GTGCTTTTTAGAAAAACCTTAGCAAGTTAAAAGTCGTCCAACTTGTTATC
Found at i:44657513 original size:24 final size:24
Alignment explanation
Indices: 44657481--44657530 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
44657471 AGGCATACTC
44657481 TACCTTTCAGAACACTTCCTTCAA
1 TACCTTTCAGAACACTTCCTTCAA
44657505 TACCTTTCAGAACACTTCCTTCAA
1 TACCTTTCAGAACACTTCCTTCAA
44657529 TA
1 TA
44657531 TACATCATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.32, G:0.04, T:0.34
Consensus pattern (24 bp):
TACCTTTCAGAACACTTCCTTCAA
Found at i:44659438 original size:24 final size:24
Alignment explanation
Indices: 44659388--44659441 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
44659378 AATCGAATTT
*
44659388 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
44659412 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
44659436 GCACAC
1 GCACAC
44659442 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:44671427 original size:28 final size:28
Alignment explanation
Indices: 44671387--44671511 Score: 101
Period size: 28 Copynumber: 4.5 Consensus size: 28
44671377 TGAAAATTTT
* *
44671387 ACTAAGCGTGCGAGTTCGGTTAACGAGC
1 ACTAAGTGTGCGAGTTCGATTAACGAGC
* *
44671415 ACTAAGTGTGCGAGTTTGATTATCGAGC
1 ACTAAGTGTGCGAGTTCGATTAACGAGC
* * **** *
44671443 ACTAAGTATGCAAAGGAAAATATTA--AGC
1 ACTAAGTGTGC-GAGTTCGAT-TAACGAGC
* *
44671471 ACTAAGTGTGCGAGTTTGATTATCGAGC
1 ACTAAGTGTGCGAGTTCGATTAACGAGC
44671499 ACTAAGTGTGCGA
1 ACTAAGTGTGCGA
44671512 AGGAAAATAT
Statistics
Matches: 73, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
26 1 0.01
27 4 0.05
28 63 0.86
29 4 0.05
30 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.26
Consensus pattern (28 bp):
ACTAAGTGTGCGAGTTCGATTAACGAGC
Found at i:44671478 original size:56 final size:56
Alignment explanation
Indices: 44671412--44671536 Score: 223
Period size: 56 Copynumber: 2.2 Consensus size: 56
44671402 TCGGTTAACG
44671412 AGCACTAAGTGTGCGAGTTTGATTATCGAGCACTAAGTATGCAAAGGAAAATATTA
1 AGCACTAAGTGTGCGAGTTTGATTATCGAGCACTAAGTATGCAAAGGAAAATATTA
* *
44671468 AGCACTAAGTGTGCGAGTTTGATTATCGAGCACTAAGTGTGCGAAGGAAAATATTA
1 AGCACTAAGTGTGCGAGTTTGATTATCGAGCACTAAGTATGCAAAGGAAAATATTA
*
44671524 AGAACTAAGTGTG
1 AGCACTAAGTGTG
44671537 TGATTTCATG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 66 1.00
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (56 bp):
AGCACTAAGTGTGCGAGTTTGATTATCGAGCACTAAGTATGCAAAGGAAAATATTA
Found at i:44671530 original size:28 final size:28
Alignment explanation
Indices: 44671440--44671536 Score: 97
Period size: 28 Copynumber: 3.5 Consensus size: 28
44671430 TTGATTATCG
* *
44671440 AGCACTAAGTATGCAAAGGAAAATATTA
1 AGCACTAAGTGTGCGAAGGAAAATATTA
*** * **
44671468 AGCACTAAGTGTGCG-AGTTTGATTATCG
1 AGCACTAAGTGTGCGAAG-GAAAATATTA
44671496 AGCACTAAGTGTGCGAAGGAAAATATTA
1 AGCACTAAGTGTGCGAAGGAAAATATTA
*
44671524 AGAACTAAGTGTG
1 AGCACTAAGTGTG
44671537 TGATTTCATG
Statistics
Matches: 52, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
27 2 0.04
28 48 0.92
29 2 0.04
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGGAAAATATTA
Found at i:44675605 original size:19 final size:20
Alignment explanation
Indices: 44675581--44675623 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
44675571 TATAGAAACC
*
44675581 CAAAATTTCCAT-TATTTCA
1 CAAAATTACCATCTATTTCA
*
44675600 CAAAATTACCATCTATTTTA
1 CAAAATTACCATCTATTTCA
44675620 CAAA
1 CAAA
44675624 CTTTACAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.37
Consensus pattern (20 bp):
CAAAATTACCATCTATTTCA
Found at i:44681779 original size:17 final size:17
Alignment explanation
Indices: 44681757--44681791 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
44681747 AATGGTTAGT
44681757 TTTGTAAATTAGTAATA
1 TTTGTAAATTAGTAATA
44681774 TTTGTAAATTAGTAATA
1 TTTGTAAATTAGTAATA
44681791 T
1 T
44681792 AAGTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (17 bp):
TTTGTAAATTAGTAATA
Found at i:44682693 original size:44 final size:43
Alignment explanation
Indices: 44682632--44682749 Score: 123
Period size: 44 Copynumber: 2.7 Consensus size: 43
44682622 ATAGGGTTCG
* * * *
44682632 GATATGTGATTT-TGTGTAAGATCACGTTTGGGACATTGGCATT
1 GATATGTGATTTACGTGTAAGA-CACGTCTGGGACAGTGGCATC
* * *
44682675 GATTTGTGATTTACGTGTAAGACCCTGTCTGGGATAGTGGCATC
1 GATATGTGATTTACGTGTAAGACAC-GTCTGGGACAGTGGCATC
*
44682719 GATATGTGA-TTACATGTAAGACCACGTCTGG
1 GATATGTGATTTACGTGTAAGA-CACGTCTGG
44682750 AACGTTGGCG
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
43 30 0.48
44 32 0.52
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.35
Consensus pattern (43 bp):
GATATGTGATTTACGTGTAAGACACGTCTGGGACAGTGGCATC
Found at i:44685974 original size:34 final size:33
Alignment explanation
Indices: 44685919--44685991 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 33
44685909 ATTTGCATCT
44685919 CTGATACTATACTGAATTGGGCTAAGGCCCACA
1 CTGATACTATACTGAATTGGGCTAAGGCCCACA
*
44685952 CTGATACTGTTACTGTAA-TGGGCTAAGGCCCACA
1 CTGATACT-ATACTG-AATTGGGCTAAGGCCCACA
44685986 CTGATA
1 CTGATA
44685992 TTGCCACTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
33 8 0.22
34 27 0.73
35 2 0.05
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (33 bp):
CTGATACTATACTGAATTGGGCTAAGGCCCACA
Found at i:44686007 original size:34 final size:34
Alignment explanation
Indices: 44685936--44686015 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 34
44685926 TATACTGAAT
**
44685936 TGGGCTAAGGCCCACACTGATACTGTTACTGTAA
1 TGGGCTAAGGCCCACACTGATACTGCCACTGTAA
*
44685970 TGGGCTAAGGCCCACACTGATATTGCCACTG-ATA
1 TGGGCTAAGGCCCACACTGATACTGCCACTGTA-A
*
44686004 TGGGCTTAGGCC
1 TGGGCTAAGGCC
44686016 TAGACTGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 1 0.02
34 40 0.98
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (34 bp):
TGGGCTAAGGCCCACACTGATACTGCCACTGTAA
Found at i:44693661 original size:33 final size:34
Alignment explanation
Indices: 44693619--44693691 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
44693609 GTTTACATCT
* *
44693619 CTGATACTA-TACT-AAATTGGGCTCAGGTCCACA
1 CTGATACTATTACTGAAA-TGGGCTAAGGCCCACA
*
44693652 CTGATACTATTACTGTAATGGGCTAAGGCCCACA
1 CTGATACTATTACTGAAATGGGCTAAGGCCCACA
44693686 CTGATA
1 CTGATA
44693692 TTGCCACTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
33 9 0.26
34 24 0.69
35 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (34 bp):
CTGATACTATTACTGAAATGGGCTAAGGCCCACA
Found at i:44695980 original size:26 final size:26
Alignment explanation
Indices: 44695888--44695980 Score: 132
Period size: 26 Copynumber: 3.6 Consensus size: 26
44695878 TTCAATAGTG
*
44695888 CTCACACGAGCTTTGAAATGGGCCTA
1 CTCACACGAGCTGTGAAATGGGCCTA
** *
44695914 CTCACACGAAATGTGAAATGGGCCTG
1 CTCACACGAGCTGTGAAATGGGCCTA
*
44695940 CTCACACGAGTTGTGAAATGGGCCTA
1 CTCACACGAGCTGTGAAATGGGCCTA
*
44695966 CTTACACGAGCTGTG
1 CTCACACGAGCTGTG
44695981 GGTCAAAATG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 58 1.00
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.23
Consensus pattern (26 bp):
CTCACACGAGCTGTGAAATGGGCCTA
Found at i:44696118 original size:16 final size:16
Alignment explanation
Indices: 44696097--44696130 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
44696087 ACAATCTCTA
44696097 ATGACATCTCATTTGT
1 ATGACATCTCATTTGT
44696113 ATGACATCTCATTTGT
1 ATGACATCTCATTTGT
44696129 AT
1 AT
44696131 CCTAAGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.44
Consensus pattern (16 bp):
ATGACATCTCATTTGT
Found at i:44696533 original size:45 final size:46
Alignment explanation
Indices: 44696472--44696571 Score: 152
Period size: 45 Copynumber: 2.2 Consensus size: 46
44696462 CCTATTTTAA
*
44696472 CTTTTTC-ACAACTTAG-TCGTTAAGCCCATAACTTGATAATTCACT
1 CTTTTTCTACAACTTAGTTC-TTAAGCCCATAACTTGATAATTCACC
*
44696517 TTTTTTCTA-AACTTAGTTCTTAAGCCCATAACTTGATAATTCACC
1 CTTTTTCTACAACTTAGTTCTTAAGCCCATAACTTGATAATTCACC
44696562 CTTTTTCTAC
1 CTTTTTCTAC
44696572 CTAAAATATA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
45 46 0.94
46 3 0.06
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.42
Consensus pattern (46 bp):
CTTTTTCTACAACTTAGTTCTTAAGCCCATAACTTGATAATTCACC
Found at i:44704192 original size:26 final size:26
Alignment explanation
Indices: 44704163--44704225 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
44704153 TATCTTCCTA
***
44704163 TTTGAGTTGGTCAAAGGTTTCTTGAG
1 TTTGAGTTGGTCAAAGGGCCCTTGAG
*
44704189 TTTGAGATGGTCAAAGGGCCCTTGAG
1 TTTGAGTTGGTCAAAGGGCCCTTGAG
44704215 TTTGAGTTGGT
1 TTTGAGTTGGT
44704226 TTGAGAACCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.19, C:0.10, G:0.33, T:0.38
Consensus pattern (26 bp):
TTTGAGTTGGTCAAAGGGCCCTTGAG
Found at i:44705743 original size:87 final size:86
Alignment explanation
Indices: 44705586--44705747 Score: 227
Period size: 87 Copynumber: 1.9 Consensus size: 86
44705576 ATGTATAATG
* *
44705586 TTGAGTTATCACTCTTAACAAATTCATATCATAGGATTTGGGTGGTCTTATTGAGACGGACTTGA
1 TTGAGTTATCACTCTTAACAAATTCATATCATAGGATTTGGGTGGTCATAGTGAGACGGACTTGA
44705651 CGAATTCACCGACATGTGACA
66 CGAATTCACCGACATGTGACA
* ** * *
44705672 TTGAGTTTATTACTCTTAATGAGTTCATATCCTA-GAGTTTGGGTGGTCATAGTGAGACGGACTT
1 TTGAG-TTATCACTCTTAACAAATTCATATCATAGGA-TTTGGGTGGTCATAGTGAGACGGACTT
*
44705736 GATGAATTCACC
64 GACGAATTCACC
44705748 AAATTTAAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
86 7 0.11
87 59 0.89
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (86 bp):
TTGAGTTATCACTCTTAACAAATTCATATCATAGGATTTGGGTGGTCATAGTGAGACGGACTTGA
CGAATTCACCGACATGTGACA
Found at i:44710858 original size:30 final size:30
Alignment explanation
Indices: 44710779--44710845 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
44710769 CCTGATATCT
* * *
44710779 AGTCTTCCCAAGCTTCTGAACGAGATATTG
1 AGTCTTCCTAAGATCCTGAACGAGATATTG
44710809 AGTCTTCCTAAGATCCTGAACGAGATATTG
1 AGTCTTCCTAAGATCCTGAACGAGATATTG
*
44710839 GGTCTTC
1 AGTCTTC
44710846 TCATGTTCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (30 bp):
AGTCTTCCTAAGATCCTGAACGAGATATTG
Found at i:44712657 original size:79 final size:81
Alignment explanation
Indices: 44712548--44712730 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
44712538 TACTCGTTCA
* *
44712548 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
44712611 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
44712628 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
44712691 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
44712707 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
44712731 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:44712730 original size:40 final size:40
Alignment explanation
Indices: 44712527--44712730 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
44712517 CGGAATTTAA
** *
44712527 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
44712567 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
44712607 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
44712646 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
44712686 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
44712726 CCGGA
1 CCGGA
44712731 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:44720866 original size:39 final size:40
Alignment explanation
Indices: 44720741--44720925 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
44720731 GCTACTCGTT
*
44720741 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
44720781 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
44720821 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
44720860 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
44720901 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44720926 CATCATTCGA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 75 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:44733247 original size:18 final size:18
Alignment explanation
Indices: 44733224--44733259 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
44733214 TGTACACTCA
44733224 CACTTATCA-TCTTCATAT
1 CACTTATCACT-TTCATAT
44733242 CACTTATCACTTTCATAT
1 CACTTATCACTTTCATAT
44733260 AATTCACTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (18 bp):
CACTTATCACTTTCATAT
Found at i:44737473 original size:14 final size:14
Alignment explanation
Indices: 44737434--44737474 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
44737424 CTACAATTTT
44737434 CGATTC-ACTAACCCC
1 CGATTCTACTAA--CC
44737449 CGATT-TACTAACC
1 CGATTCTACTAACC
44737462 CGATTCTACTAAC
1 CGATTCTACTAAC
44737475 TTGATTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.29
14 7 0.29
15 10 0.42
ACGTcount: A:0.29, C:0.37, G:0.07, T:0.27
Consensus pattern (14 bp):
CGATTCTACTAACC
Found at i:44739681 original size:17 final size:17
Alignment explanation
Indices: 44739656--44739694 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
44739646 CTTGTAACAT
* *
44739656 TATTTAATATTTTTTAA
1 TATTAAATATTATTTAA
44739673 TATTAAATATTATTTAA
1 TATTAAATATTATTTAA
44739690 TATTA
1 TATTA
44739695 TTTAACATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTAAATATTATTTAA
Found at i:44739686 original size:10 final size:10
Alignment explanation
Indices: 44739654--44739707 Score: 69
Period size: 10 Copynumber: 5.7 Consensus size: 10
44739644 TTCTTGTAAC
44739654 ATTATTTAAT
1 ATTATTTAAT
*
44739664 ATTTTTTAAT
1 ATTATTTAAT
44739674 ATTA---AAT
1 ATTATTTAAT
44739681 ATTATTTAAT
1 ATTATTTAAT
*
44739691 ATTATTTAAC
1 ATTATTTAAT
44739701 ATTATTT
1 ATTATTT
44739708 TATAGTGGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
7 7 0.18
10 31 0.82
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTATTTAAT
Found at i:44741211 original size:46 final size:46
Alignment explanation
Indices: 44741061--44741300 Score: 220
Period size: 46 Copynumber: 5.1 Consensus size: 46
44741051 CACTGCTGTT
* * * *
44741061 ATGTGAGCCAGTGTAAGGCATGTTTGGGACATGCATCGGCCAT--ATT
1 ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGA-G
* * * *
44741107 ATGAAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAG
1 ATGTAAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAG
*
44741155 ATG-AGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG
1 ATGTA-AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG
*
44741201 ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACG-G
1 ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG
* * * *
44741245 ATGTGTGAGAGCCAGTGTAAGACCATATCTGGGATATGGCATCGGCATCGAT
1 A--TGT-A-AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAG
44741297 ATGT
1 ATGT
44741301 GTAAGATTTC
Statistics
Matches: 162, Mismatches: 18, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
44 2 0.01
45 3 0.02
46 65 0.40
47 31 0.19
48 35 0.22
49 13 0.08
50 10 0.06
51 2 0.01
52 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (46 bp):
ATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG
Found at i:44741259 original size:94 final size:94
Alignment explanation
Indices: 44741065--44741300 Score: 282
Period size: 94 Copynumber: 2.5 Consensus size: 94
44741055 GCTGTTATGT
* * *
44741065 GAGCCAGTGTAAGGCATGTTTGGGACATGCATCGGCCAT--ATTATGAAAGCCAGTGTAAGACCA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGA-TATGTAAGCCAGTGTAAGACCA
**
44741128 TGTCTGGGACATGGCATCGACATTGAGATGA
64 TGTCTGGGACATGGCATCGACACGGAGATGA
* *
44741159 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGA-CATG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATATGTAAGCCAGTGTAAGACCATG
* *
44741223 TCTGGGACAT-GCATCGGCACGGATGTGTGA
66 TCTGGGACATGGCATCGACACGGA-G-ATGA
* * *
44741253 GAGCCAGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATATGT
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGATATGT
44741301 GTAAGATTTC
Statistics
Matches: 122, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
92 10 0.08
93 16 0.13
94 67 0.55
95 13 0.11
96 16 0.13
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (94 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATATGTAAGCCAGTGTAAGACCATG
TCTGGGACATGGCATCGACACGGAGATGA
Found at i:44752873 original size:13 final size:13
Alignment explanation
Indices: 44752855--44752880 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44752845 TATAGATGCT
44752855 ATAACAAAACTTC
1 ATAACAAAACTTC
44752868 ATAACAAAACTTC
1 ATAACAAAACTTC
44752881 TATGACTTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (13 bp):
ATAACAAAACTTC
Found at i:44755283 original size:55 final size:55
Alignment explanation
Indices: 44755160--44755300 Score: 174
Period size: 55 Copynumber: 2.6 Consensus size: 55
44755150 TGCGACATGG
* **
44755160 CCGTGGGTAAACCTGCCAAAACAACACGGGCGTGTGACACGCCCGTGCCTTGAAA
1 CCGTGGGTAAACCTGCCAAAACAACACGGGCGTGCGACACGCCCGTGCCAAGAAA
* ** * ** *
44755215 CCATGGCCAAACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCAAGCAA
1 CCGTGGGTAAACCTGCCAAAACAACACGGGCGTGCGACACGCCCGTGCCAAGAAA
* *
44755270 CCGTGGGTGAACCTACCAAAACAACACGGGC
1 CCGTGGGTAAACCTGCCAAAACAACACGGGC
44755301 ATGGACCTTC
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
55 68 1.00
ACGTcount: A:0.29, C:0.33, G:0.26, T:0.13
Consensus pattern (55 bp):
CCGTGGGTAAACCTGCCAAAACAACACGGGCGTGCGACACGCCCGTGCCAAGAAA
Found at i:44759680 original size:30 final size:30
Alignment explanation
Indices: 44759619--44759681 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
44759609 ATTAGTCATT
*
44759619 ATTGGAAATTTATGAAAAGAAAATGATTAA
1 ATTGGAAATTGATGAAAAGAAAATGATTAA
*
44759649 ATTGGAAATATGAT-AAAATAAAGATGA-TAA
1 ATTGGAAAT-TGATGAAAAGAAA-ATGATTAA
44759679 ATT
1 ATT
44759682 AATTAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 22 0.76
31 7 0.24
ACGTcount: A:0.54, C:0.00, G:0.16, T:0.30
Consensus pattern (30 bp):
ATTGGAAATTGATGAAAAGAAAATGATTAA
Found at i:44760740 original size:17 final size:18
Alignment explanation
Indices: 44760702--44760740 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
44760692 ACATTCCCGA
*
44760702 ATATGAATTGACGGATATT
1 ATATGAATTGAC-GAGATT
44760721 ATATGAATTGAC-AGATT
1 ATATGAATTGACGAGATT
44760738 ATA
1 ATA
44760741 ATTTAGTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
19 12 0.63
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (18 bp):
ATATGAATTGACGAGATT
Found at i:44762501 original size:260 final size:260
Alignment explanation
Indices: 44762040--44762564 Score: 1023
Period size: 260 Copynumber: 2.0 Consensus size: 260
44762030 AGTTCTGACT
44762040 TGTTTCTAATGTGTATTTTGGGGCTAAATGGCTCATATAAGAGACATTATGATTGATTTCTGATA
1 TGTTTCTAATGTGTATTTTGGGGCTAAATGGCTCATATAAGAGACATTATGATTGATTTCTGATA
44762105 TGAATATTAAATGATATGAAATATCTGTATTTGATATGTAAATTCTAGTAATGCTATGGGTTAAG
66 TGAATATTAAATGATATGAAATATCTGTATTTGATATGTAAATTCTAGTAATGCTATGGGTTAAG
44762170 GGTGTTACATTTATTGGTATCAAAGATATAGTTTAGTCGATTCCCGGAAAAACGTAGCATGTACA
131 GGTGTTACATTTATTGGTATCAAAGATATAGTTTAGTCGATTCCCGGAAAAACGTAGCATGTACA
*
44762235 AGTTTAGCTATACATGCCATTATATAACTTGTGATAGTGTGATATCTCCTAACCATATTAAAACA
196 AGTTTAGCTATACATGCCATTATATAACTTGCGATAGTGTGATATCTCCTAACCATATTAAAACA
44762300 TGTTTCTAATGTGTATTTTGGGGCTAAATGGCTCATATAAGAGACATTATGATTGATTTCTGATA
1 TGTTTCTAATGTGTATTTTGGGGCTAAATGGCTCATATAAGAGACATTATGATTGATTTCTGATA
44762365 TGAATATTAAATGATATGAAATATCTGTATTTGATATGTAAATTCTAGTAATGCTATGGGTTAAG
66 TGAATATTAAATGATATGAAATATCTGTATTTGATATGTAAATTCTAGTAATGCTATGGGTTAAG
*
44762430 GGTGTTACATTTATTGGTATCAAAGATATAGTTTAGTCGATTCCCGGACAAACGTAGCATGTACA
131 GGTGTTACATTTATTGGTATCAAAGATATAGTTTAGTCGATTCCCGGAAAAACGTAGCATGTACA
*
44762495 AGTTTAGCTATACATGCTATTATATAACTTGCGATAGTGTGATATCTCCTAACCATATTAAAACA
196 AGTTTAGCTATACATGCCATTATATAACTTGCGATAGTGTGATATCTCCTAACCATATTAAAACA
44762560 TGTTT
1 TGTTT
44762565 TTCATATAGT
Statistics
Matches: 262, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
260 262 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (260 bp):
TGTTTCTAATGTGTATTTTGGGGCTAAATGGCTCATATAAGAGACATTATGATTGATTTCTGATA
TGAATATTAAATGATATGAAATATCTGTATTTGATATGTAAATTCTAGTAATGCTATGGGTTAAG
GGTGTTACATTTATTGGTATCAAAGATATAGTTTAGTCGATTCCCGGAAAAACGTAGCATGTACA
AGTTTAGCTATACATGCCATTATATAACTTGCGATAGTGTGATATCTCCTAACCATATTAAAACA
Found at i:44768351 original size:73 final size:73
Alignment explanation
Indices: 44768232--44768369 Score: 231
Period size: 73 Copynumber: 1.9 Consensus size: 73
44768222 TGTGGCCAGA
* * *
44768232 CCGTGTGGAATACCCCAAGCCATGTAACTTTCGAAATTGAGACACATGGCCATGTCCCATCCCGT
1 CCGTGTGGAATACCCCAAGCCATGTAACTTTCGAAATTAAGACACATGACCATGTCCCAGCCCGT
44768297 ATCCTTGC
66 ATCCTTGC
* *
44768305 CCGTGTGGAATACCCCAAGCCATGTGACTTTCGAAATTAAGACACATGACCGTGTCCCAGCCCGT
1 CCGTGTGGAATACCCCAAGCCATGTAACTTTCGAAATTAAGACACATGACCATGTCCCAGCCCGT
44768370 GTAACTCACT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 60 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.23
Consensus pattern (73 bp):
CCGTGTGGAATACCCCAAGCCATGTAACTTTCGAAATTAAGACACATGACCATGTCCCAGCCCGT
ATCCTTGC
Found at i:44770017 original size:15 final size:15
Alignment explanation
Indices: 44769987--44770017 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44769977 TGCTTACCAT
*
44769987 ATGCAATAATTCAAA
1 ATGCAATAATTAAAA
44770002 ATGCAATAATTAAAA
1 ATGCAATAATTAAAA
44770017 A
1 A
44770018 CTTAGTTCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.10, G:0.06, T:0.26
Consensus pattern (15 bp):
ATGCAATAATTAAAA
Found at i:44770633 original size:13 final size:12
Alignment explanation
Indices: 44770609--44770638 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
44770599 CCGTCCAACA
44770609 CTTTTCTTCTTT
1 CTTTTCTTCTTT
44770621 CTTTTCTTTCTTT
1 CTTTTC-TTCTTT
44770634 CTTTT
1 CTTTT
44770639 ATTTTGCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
CTTTTCTTCTTT
Found at i:44777295 original size:68 final size:66
Alignment explanation
Indices: 44777223--44777369 Score: 163
Period size: 64 Copynumber: 2.2 Consensus size: 66
44777213 CATCATGTGT
* * * *
44777223 ACAAGAGAGCTACAAGACATTATTATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TA-TATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
44777286 TGTAG
62 TGTAG
** * *
44777291 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
44777356 AG
65 AG
44777358 ACAAGAGAGCTA
1 ACAAGAGAGCTA
44777370 TGAGATAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 25 0.37
65 2 0.03
66 4 0.06
67 24 0.35
68 13 0.19
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:44777327 original size:64 final size:64
Alignment explanation
Indices: 44777172--44777430 Score: 202
Period size: 68 Copynumber: 3.9 Consensus size: 64
44777162 TTGATGATAC
* ** * ** * *
44777172 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTGGGTGCACATCATGT-GTACAAGAGAGCTAC
1 AGATA-TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGCTAC
44777236 AAG
64 --G
* *
44777239 ACATTATTATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTAC
1 AGA-TA-TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTAC
44777304 G
64 G
* * * * * *
44777305 GGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTA
1 AGATATATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTA
*
44777370 TG
63 CG
* * * *
44777372 AGATAAAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 AGATATATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
44777431 CGAACTATAT
Statistics
Matches: 155, Mismatches: 30, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 26 0.17
65 2 0.01
66 23 0.15
67 34 0.22
68 49 0.32
69 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACG
Found at i:44780409 original size:49 final size:49
Alignment explanation
Indices: 44780304--44780529 Score: 171
Period size: 49 Copynumber: 4.7 Consensus size: 49
44780294 GACAAGAGCT
* * * * *
44780304 AGTGTAAGACATGTCTGGGACAT-GCATC-ATCCTCGAGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTCAATAGATGA-AAGCC
* * *
44780352 GGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAGATGAAAGCC
* * **
44780401 AGTGTAAGACCTGCCTGGGACATGGCATC-AGCCTCAATGGATGAAAGTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTCAATAGATGAAAGCC
* * ** *
44780450 AGTGTAAGACCTGTCTGGGACTTGGCATCGACTTTC-AT-G-TGCTAGCA
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAGATGAAAGCC
* *
44780497 AGTGTAAGACCATGTTTGGGACATGGCGTCGAC
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGAC
44780530 ATTTTATCCC
Statistics
Matches: 146, Mismatches: 23, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
47 15 0.10
48 42 0.29
49 83 0.57
50 6 0.04
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
Found at i:44780469 original size:98 final size:97
Alignment explanation
Indices: 44780255--44780481 Score: 250
Period size: 98 Copynumber: 2.4 Consensus size: 97
44780245 TGATATGTTT
* * * ** ** *
44780255 GCTAGTGTAAGACATGTCTGGGACAT-GCATTGGCATTG--AGACAAGAGCTAGTGTAAGACATG
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGACATG
* *
44780317 TCTGGGACATGCATCATCCTCGAGATATACAA
66 CCTGGGACATGCATCAGCCTCGAGATATACAA
* *
44780349 GCTGGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGACCTG
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGACATG
44780414 CCTGGGACATGGCATCAGCCTC-A-ATGGATGA-AA
66 CCTGGGACAT-GCATCAGCCTCGAGAT--AT-ACAA
* *
44780447 GTTAGTGTAAGACCTGTCTGGGACTTGGCATCGAC
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGAC
44780482 TTTCATGTGC
Statistics
Matches: 111, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
94 24 0.22
95 8 0.07
96 2 0.02
97 30 0.27
98 46 0.41
99 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (97 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGACATG
CCTGGGACATGCATCAGCCTCGAGATATACAA
Found at i:44788118 original size:46 final size:44
Alignment explanation
Indices: 44788066--44788188 Score: 131
Period size: 46 Copynumber: 2.7 Consensus size: 44
44788056 TAATATGTGT
* *
44788066 GCTAGTGTAAGACATGTCTGAGACATGCATTGGCCACATT-ATGAGA
1 GCTAGTGTAAGACATGTCTGAGACATGCATCGG---CATTGACGAGA
* * *
44788112 GCTAGTGTAAGATATGTCTGTGACATGCACCGGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGAGACATGCATCGGCATT--GACGAGA
* *
44788158 GCTAGTGTAAGACATGTCGGGGACATGCATC
1 GCTAGTGTAAGACATGTCTGAGACATGCATC
44788189 AGCCTCGAGA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
43 4 0.06
46 61 0.94
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGAGACATGCATCGGCATTGACGAGA
Found at i:44788390 original size:49 final size:49
Alignment explanation
Indices: 44788213--44788390 Score: 161
Period size: 49 Copynumber: 3.7 Consensus size: 49
44788203 CAAGCTAGTA
* * **
44788213 TAAGACCTCTCTGGGACATGGCATC-AGC-T--TGT-TGATTGTCAGTG
1 TAAGACCTGTCTGGGACATGGCATCGACCTTGATGTATGAAAGTCAGTG
* * * * *
44788257 TAAGACCTTTCTGGGACATGGCATCGACCCTGATAG-ATGAGAGCCAGAG
1 TAAGACCTGTCTGGGACATGGCATCGACCTTGAT-GTATGAAAGTCAGTG
* * * * *
44788306 TAAGACCTGTCTAGGACACGGCATTGGCCTCGATGTATGAAAGTCAGTG
1 TAAGACCTGTCTGGGACATGGCATCGACCTTGATGTATGAAAGTCAGTG
* *
44788355 TATGACCTGTCTGGGACATGGCATCGACTTTGATGT
1 TAAGACCTGTCTGGGACATGGCATCGACCTTGATGT
44788391 GCTAGCCAGT
Statistics
Matches: 104, Mismatches: 23, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
44 24 0.23
45 2 0.02
46 1 0.01
48 2 0.02
49 75 0.72
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (49 bp):
TAAGACCTGTCTGGGACATGGCATCGACCTTGATGTATGAAAGTCAGTG
Found at i:44792858 original size:307 final size:307
Alignment explanation
Indices: 44792244--44792858 Score: 873
Period size: 307 Copynumber: 2.0 Consensus size: 307
44792234 CTGAATACCC
* * *
44792244 CATCATTTACTAATCTCTTAATTCTTTCAATGGAGATGTGTCATAATCTCCTATGCCATAAAATA
1 CATCATTTACTAATCTCTTAATCCTTTCAATGGAGATGTGTCATAATCTCCAATACCATAAAATA
* * * *
44792309 AATGAATCTTCATTTATAACACAACGTTTAGTACCAGTTTGAACGTGCATAACATTATGACTAGC
66 AAGGAACCTTCATTTATAACACAACATTTAGCACCAGTTTGAACGTGCATAACATTATGACTAGC
* * * *
44792374 ATTATTTTTCAAATTAAGAGAATAAAGACCATTAAAAAGAACACAATTTCCTACAAGTTCAAATT
131 ATTATTTTTAAAATTAAGAGAATAAAGACCATCAAAAAGAACACAATTTCCAAAAAGTTCAAATT
* *
44792439 TATAAAATTAACTAAAACTAGTGTTTAAAAAGCTAAAACAATACCCAAATGGTGCAAGTCTTAAA
196 TATAAAATAAACTAAAACTAGTGTTTAAAAAGCTAAAACAATACCCAAATGGTACAAGTCTTAAA
*
44792504 ATAGAAACCAAATTTCTAGAAAAACTAAGAATATAAAAAAGTCTTTT
261 ATAAAAACCAAATTTCTAGAAAAACTAAGAATATAAAAAAGTCTTTT
* * *
44792551 CATCATTTACTAATCTCTTAATCCTTTCAATTGAGTTGTGTCCTAATCTCCAATACCATAAAATA
1 CATCATTTACTAATCTCTTAATCCTTTCAATGGAGATGTGTCATAATCTCCAATACCATAAAATA
* * * * *
44792616 GAGGAACCTTCATTTATAACATAACATTTAGCATCAGTTTGAACGTGTATAACATTATGAGT-GA
66 AAGGAACCTTCATTTATAACACAACATTTAGCACCAGTTTGAACGTGCATAACATTATGACTAG-
*** *
44792680 CATTATTTTTAAAATTTAAGAGAATAAAGACCATCAGAAAA-AACATTGTTTCCAAAAAGTTCAG
130 CATTATTTTTAAAA-TTAAGAGAATAAAGACCATCA-AAAAGAACACAATTTCCAAAAAGTTCAA
*
44792744 ATTTATAAAATAAACTGAAACTAGTGTTTGAAAAA-CTAAAACAATACCCAAATGGTACAAGTCT
193 ATTTATAAAATAAACTAAAACTAGTGTTT-AAAAAGCTAAAACAATACCCAAATGGTACAAGTCT
* *
44792808 TGAAATAAAAACTAAATTTCTA-ACAAAACT-AGAAATATAAAAAA-TCTTTT
257 TAAAATAAAAACCAAATTTCTAGA-AAAACTAAG-AATATAAAAAAGTCTTTT
44792858 C
1 C
44792859 TAAAATTGAA
Statistics
Matches: 273, Mismatches: 29, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
306 1 0.00
307 135 0.49
308 128 0.47
309 9 0.03
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.31
Consensus pattern (307 bp):
CATCATTTACTAATCTCTTAATCCTTTCAATGGAGATGTGTCATAATCTCCAATACCATAAAATA
AAGGAACCTTCATTTATAACACAACATTTAGCACCAGTTTGAACGTGCATAACATTATGACTAGC
ATTATTTTTAAAATTAAGAGAATAAAGACCATCAAAAAGAACACAATTTCCAAAAAGTTCAAATT
TATAAAATAAACTAAAACTAGTGTTTAAAAAGCTAAAACAATACCCAAATGGTACAAGTCTTAAA
ATAAAAACCAAATTTCTAGAAAAACTAAGAATATAAAAAAGTCTTTT
Found at i:44794586 original size:13 final size:13
Alignment explanation
Indices: 44794568--44794593 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44794558 AGTGCTTTTC
44794568 AAAATTTTTAGCT
1 AAAATTTTTAGCT
44794581 AAAATTTTTAGCT
1 AAAATTTTTAGCT
44794594 TTTCCTCTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
AAAATTTTTAGCT
Found at i:44795114 original size:26 final size:26
Alignment explanation
Indices: 44795045--44795116 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 26
44795035 TTTAAACCAA
* *
44795045 ACTTTTCAAAAGCACTTCTCCACAAC
1 ACTTCTCAAAAGCACTTTTCCACAAC
*
44795071 ACTTCTCAAAAGAACTTTTCCACAAC
1 ACTTCTCAAAAGCACTTTTCCACAAC
* * *
44795097 ATTTCTTAAAATCACTTTTC
1 ACTTCTCAAAAGCACTTTTC
44795117 AAAAGCATTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.33
Consensus pattern (26 bp):
ACTTCTCAAAAGCACTTTTCCACAAC
Found at i:44795846 original size:28 final size:28
Alignment explanation
Indices: 44795814--44795876 Score: 126
Period size: 28 Copynumber: 2.2 Consensus size: 28
44795804 GCGCGCTATA
44795814 GTGATTCATACATTTGGTTCACCGTTAG
1 GTGATTCATACATTTGGTTCACCGTTAG
44795842 GTGATTCATACATTTGGTTCACCGTTAG
1 GTGATTCATACATTTGGTTCACCGTTAG
44795870 GTGATTC
1 GTGATTC
44795877 TGCAGCTTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (28 bp):
GTGATTCATACATTTGGTTCACCGTTAG
Found at i:44799724 original size:24 final size:24
Alignment explanation
Indices: 44799697--44799747 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
44799687 TCGATTTGAA
44799697 GTATCCAACTAATCAATTACTTTT
1 GTATCCAACTAATCAATTACTTTT
*
44799721 GTATCCAACTAATCAATTGCTTTT
1 GTATCCAACTAATCAATTACTTTT
44799745 GTA
1 GTA
44799748 GATAGTCGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (24 bp):
GTATCCAACTAATCAATTACTTTT
Found at i:44803166 original size:17 final size:17
Alignment explanation
Indices: 44803146--44803178 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44803136 ATTAAGAATG
44803146 TTATTAAAATATATTTT
1 TTATTAAAATATATTTT
*
44803163 TTATTAAATTATATTT
1 TTATTAAAATATATTT
44803179 AATAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATTAAAATATATTTT
Found at i:44803182 original size:55 final size:57
Alignment explanation
Indices: 44803123--44803256 Score: 150
Period size: 58 Copynumber: 2.4 Consensus size: 57
44803113 TTAATTCATA
* *
44803123 TAATAATAATTATATTAAGAATGTTATTAAA-ATATA-T-TTTTTATTAAATTATATT
1 TAATAATAATTATATTAA-AATATGATTAAACATATATTATTTTTATTAAATTATATT
* * * * *
44803178 TAATAAAAATTATGTTAAAATATGGTTAAACTATTTATTATTTTTATTAAATTATTTT
1 TAATAATAATTATATTAAAATATGATTAAAC-ATATATTATTTTTATTAAATTATATT
44803236 TAATAATAATCT-TATTAAAAT
1 TAATAATAAT-TATATTAAAAT
44803257 TTAATAATAA
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
54 9 0.14
55 16 0.25
56 4 0.06
57 1 0.02
58 34 0.52
59 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (57 bp):
TAATAATAATTATATTAAAATATGATTAAACATATATTATTTTTATTAAATTATATT
Found at i:44803632 original size:13 final size:13
Alignment explanation
Indices: 44803611--44803644 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
44803601 CGACTTAATT
* *
44803611 ATAATTATTATAA
1 ATAAATATTAGAA
44803624 ATAAATATTAGAA
1 ATAAATATTAGAA
44803637 ATAAATAT
1 ATAAATAT
44803645 CAAAATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
ATAAATATTAGAA
Found at i:44804207 original size:17 final size:17
Alignment explanation
Indices: 44804185--44804217 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
44804175 TTTTAGTATA
44804185 TATTT-ATAATTATTTAT
1 TATTTAATAA-TATTTAT
44804202 TATTTAATAATATTTA
1 TATTTAATAATATTTA
44804218 AACAAACTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTTAATAATATTTAT
Found at i:44805315 original size:15 final size:15
Alignment explanation
Indices: 44805297--44805325 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44805287 TTGTGTGTTC
44805297 TTTATTTTATTTTCT
1 TTTATTTTATTTTCT
44805312 TTTATTTTATTTTC
1 TTTATTTTATTTTC
44805326 ACAAATTGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTATTTTATTTTCT
Found at i:44810634 original size:15 final size:15
Alignment explanation
Indices: 44810595--44810642 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
44810585 ATTTTTTTAT
44810595 TTAAAAAATTAATATA
1 TTAAAAAATT-ATATA
*
44810611 TT--AACATTATATA
1 TTAAAAAATTATATA
*
44810624 TTAAAAAATTATAAA
1 TTAAAAAATTATATA
44810639 TTAA
1 TTAA
44810643 TTATTCTACT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 7 0.26
14 5 0.19
15 13 0.48
16 2 0.07
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
TTAAAAAATTATATA
Found at i:44817171 original size:48 final size:48
Alignment explanation
Indices: 44817100--44817222 Score: 149
Period size: 48 Copynumber: 2.6 Consensus size: 48
44817090 ATTGCCAATC
* ** * *
44817100 CCATGTCCCAGACATGGTATTACACTAGCT-TACATGTTGAGGCTGACG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCT-CATAATGAGGCAGAAG
* *
44817148 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCAGAAG
1 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGAGGCAGAAG
* *
44817196 CCATGTTCCAAACATGGTCTTACACTA
1 CCATGTCCCAGACATGGTCTTACACTA
44817223 TCACACATAT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
48 63 0.98
49 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGAGGCAGAAG
Found at i:44818923 original size:36 final size:36
Alignment explanation
Indices: 44818871--44818942 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
44818861 TCGAAAAAAG
* * *
44818871 ATAAGGGTGATTAAGAGAGGAGCGTCAAATGTTAAC
1 ATAAAGGTGATTAAGAGAAGAACGTCAAATGTTAAC
44818907 ATAAAGGTGATTAAGAGAAGAACGTCAAATGTTAAC
1 ATAAAGGTGATTAAGAGAAGAACGTCAAATGTTAAC
44818943 CTTTAGAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.43, C:0.08, G:0.26, T:0.22
Consensus pattern (36 bp):
ATAAAGGTGATTAAGAGAAGAACGTCAAATGTTAAC
Found at i:44822013 original size:65 final size:65
Alignment explanation
Indices: 44821906--44822053 Score: 197
Period size: 65 Copynumber: 2.3 Consensus size: 65
44821896 TGCGGACTAT
** * **
44821906 CACAGCTCTTTGTGAGCGTCCTACTATATGATCAGTTATGATCCTGCATATATTGTAGACACAAA
1 CACAGCTCTTTGTGAGCACCCCACTATATGATCAGTTATGATCCTGCATATATTACAGACACAAA
* * * *
44821971 CACAGCTATTTGTGAGCACCCCATTATATGATCGGTTGTGATCCTGCATATATTACAGACACAAA
1 CACAGCTCTTTGTGAGCACCCCACTATATGATCAGTTATGATCCTGCATATATTACAGACACAAA
* *
44822036 AACAGCTCTTTCTGAGCA
1 CACAGCTCTTTGTGAGCA
44822054 TCCTGATATG
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 71 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (65 bp):
CACAGCTCTTTGTGAGCACCCCACTATATGATCAGTTATGATCCTGCATATATTACAGACACAAA
Found at i:44823642 original size:13 final size:13
Alignment explanation
Indices: 44823620--44823649 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
44823610 CTGTAGTTAG
44823620 GTTTCGAATGCAT
1 GTTTCGAATGCAT
*
44823633 GTTTCTAATGCAT
1 GTTTCGAATGCAT
44823646 GTTT
1 GTTT
44823650 TGGACCTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.47
Consensus pattern (13 bp):
GTTTCGAATGCAT
Found at i:44828692 original size:65 final size:65
Alignment explanation
Indices: 44828623--44828751 Score: 168
Period size: 65 Copynumber: 2.0 Consensus size: 65
44828613 AGTGTCCTAC
* *
44828623 TATATGATCGGTTGTGATCCTACATATATTACAGACACAAACGCAGCTCTTTGTAAGCATCCTGT
1 TATATGATCGGTTATGATCCTACATATACTACAGACACAAACGCAGCTCTTTGTAAGCATCCTGT
* *** * * * *
44828688 TATATGATCGGTTATGATCCTTCATATACTGGGGATACAAACGTAGCTCTTTGTGAGCGTCCTG
1 TATATGATCGGTTATGATCCTACATATACTACAGACACAAACGCAGCTCTTTGTAAGCATCCTG
44828752 ATATGGCTCG
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (65 bp):
TATATGATCGGTTATGATCCTACATATACTACAGACACAAACGCAGCTCTTTGTAAGCATCCTGT
Found at i:44828813 original size:24 final size:26
Alignment explanation
Indices: 44828781--44828830 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
44828771 CCCGATATAT
44828781 GGCTATTCA-GAGCTT-CTAATTAAA
1 GGCTATTCATGAGCTTCCTAATTAAA
* *
44828805 GGCTCTTCATGAGCTTCCTGATTAAA
1 GGCTATTCATGAGCTTCCTAATTAAA
44828831 ATTTCTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
25 6 0.27
26 8 0.36
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (26 bp):
GGCTATTCATGAGCTTCCTAATTAAA
Found at i:44835368 original size:46 final size:46
Alignment explanation
Indices: 44835148--44835370 Score: 286
Period size: 46 Copynumber: 4.8 Consensus size: 46
44835138 TTTGACATGA
* * * * ** * *
44835148 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATAT
* * * * *
44835194 TGCCATGGTATCTTTCAACCAGGGTCTTATC-CTTTTTATGTCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTA-CACATTTCATATCATAT
* *
44835240 TGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATAT
44835286 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATAT
*
44835332 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
44835371 TTCAGAGGGT
Statistics
Matches: 157, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 155 0.99
47 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATAT
Found at i:44837227 original size:11 final size:11
Alignment explanation
Indices: 44837211--44837266 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
44837201 CTTTCTCTAT
44837211 ATACTAATAAA
1 ATACTAATAAA
44837222 ATACTAATAAA
1 ATACTAATAAA
* *
44837233 ATAATAAAAAA
1 ATACTAATAAA
*
44837244 ATATCTTATTAAA
1 ATA-C-TAATAAA
*
44837257 ATATTAATAA
1 ATACTAATAA
44837267 GATAATATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
11 28 0.78
13 8 0.22
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (11 bp):
ATACTAATAAA
Found at i:44844088 original size:15 final size:15
Alignment explanation
Indices: 44844070--44844099 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
44844060 TCATAAAATT
44844070 TTAAAATTAAAAAAA
1 TTAAAATTAAAAAAA
44844085 TTAAAATTAAAAAAA
1 TTAAAATTAAAAAAA
44844100 ATGACTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
TTAAAATTAAAAAAA
Found at i:44850324 original size:31 final size:31
Alignment explanation
Indices: 44850286--44850348 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
44850276 AAGTATTTAT
*
44850286 ATGCTTAGTAAGTCCGGATAATTGGAAAGTA
1 ATGCTTAGTAAGTCCGGATAACTGGAAAGTA
*
44850317 ATGCTTAGTGAGTCCGGATAACTGGAAAGTA
1 ATGCTTAGTAAGTCCGGATAACTGGAAAGTA
44850348 A
1 A
44850349 ACTTACCGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.27
Consensus pattern (31 bp):
ATGCTTAGTAAGTCCGGATAACTGGAAAGTA
Found at i:44853946 original size:10 final size:11
Alignment explanation
Indices: 44853922--44853949 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
44853912 TGATAAATTT
44853922 AAAATTTTAGA
1 AAAATTTTAGA
44853933 AAAATTTTAGA
1 AAAATTTTAGA
44853944 AAAATT
1 AAAATT
44853950 ACTAGGGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (11 bp):
AAAATTTTAGA
Found at i:44855048 original size:31 final size:31
Alignment explanation
Indices: 44855010--44855072 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
44855000 AAGTATTTAT
44855010 ATGCTTAGTAAGTCCGGATAACTGGAAAGTA
1 ATGCTTAGTAAGTCCGGATAACTGGAAAGTA
*
44855041 ATGCTTAGTGAGTCCGGATAACTGGAAAGTA
1 ATGCTTAGTAAGTCCGGATAACTGGAAAGTA
44855072 A
1 A
44855073 ACTTACCGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (31 bp):
ATGCTTAGTAAGTCCGGATAACTGGAAAGTA
Found at i:44858666 original size:10 final size:11
Alignment explanation
Indices: 44858642--44858669 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
44858632 TGATAAATTT
44858642 AAAATTTTAGA
1 AAAATTTTAGA
44858653 AAAATTTTAGA
1 AAAATTTTAGA
44858664 AAAATT
1 AAAATT
44858670 ACTAGGGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (11 bp):
AAAATTTTAGA
Found at i:44859768 original size:31 final size:31
Alignment explanation
Indices: 44859730--44859792 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
44859720 AAGTATTTAT
44859730 ATGCTTAGTAAGTCCGGATAACTGGAAAGTA
1 ATGCTTAGTAAGTCCGGATAACTGGAAAGTA
*
44859761 ATGCTTAGTGAGTCCGGATAACTGGAAAGTA
1 ATGCTTAGTAAGTCCGGATAACTGGAAAGTA
44859792 A
1 A
44859793 ACTTACCGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (31 bp):
ATGCTTAGTAAGTCCGGATAACTGGAAAGTA
Found at i:44862731 original size:23 final size:23
Alignment explanation
Indices: 44862701--44862747 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
44862691 ATAAAGACAA
*
44862701 TGGTTGTCTTATGTAATTGATGT
1 TGGTTGTCTAATGTAATTGATGT
44862724 TGGTTGTCTAATGTAATTGATGT
1 TGGTTGTCTAATGTAATTGATGT
44862747 T
1 T
44862748 TTTTCATCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.19, C:0.04, G:0.26, T:0.51
Consensus pattern (23 bp):
TGGTTGTCTAATGTAATTGATGT
Found at i:44868191 original size:21 final size:22
Alignment explanation
Indices: 44868165--44868211 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
44868155 CTCTGCTCAA
*
44868165 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
44868186 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
44868208 ACTC
1 ACTC
44868212 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:44872283 original size:31 final size:31
Alignment explanation
Indices: 44872248--44872324 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
44872238 TTTAAAATAT
* *
44872248 TTGTTATTTTTAATCACTTC-TATTAAATAAG
1 TTGTTAATTTTAATCAC-TCGCATTAAATAAG
*
44872279 TTGTTAATTTTAATCACTCGCATTAGATAAG
1 TTGTTAATTTTAATCACTCGCATTAAATAAG
*
44872310 TTGTCAA-TTTAATCA
1 TTGTTAATTTTAATCA
44872325 TTTTACCTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
30 10 0.24
31 31 0.76
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (31 bp):
TTGTTAATTTTAATCACTCGCATTAAATAAG
Found at i:44881603 original size:37 final size:37
Alignment explanation
Indices: 44881553--44881631 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
44881543 TTATTACGAA
* * *
44881553 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
44881590 GTCTTACCCGGACAAAATCCCCACACGTAGTCATTGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
44881627 GTCTT
1 GTCTT
44881632 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:44881837 original size:47 final size:47
Alignment explanation
Indices: 44881750--44882148 Score: 564
Period size: 47 Copynumber: 8.4 Consensus size: 47
44881740 CCTTTCGGGA
* * * * * * * *
44881750 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44881797 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44881844 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44881891 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
44881938 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
44881985 CTCATCACACATATACACTTTCACATTCGTCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44882032 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44882083 CTTATTACATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44882130 CTCATCACATATATACACT
1 CTTATCACATATATACACT
44882149 CTCTTGGCTG
Statistics
Matches: 319, Mismatches: 29, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
47 273 0.86
49 6 0.02
51 40 0.13
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44885151 original size:13 final size:15
Alignment explanation
Indices: 44885118--44885154 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
44885108 GGCTAAGGAC
44885118 TAAATTAAAAAGTGA
1 TAAATTAAAAAGTGA
*
44885133 TAAATTAAAGA-TGA
1 TAAATTAAAAAGTGA
44885147 T-AATTAAA
1 TAAATTAAA
44885155 TTAAATAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.33
14 4 0.19
15 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (15 bp):
TAAATTAAAAAGTGA
Found at i:44888206 original size:74 final size:75
Alignment explanation
Indices: 44888077--44888215 Score: 217
Period size: 74 Copynumber: 1.9 Consensus size: 75
44888067 TGGGCACACA
* *
44888077 ATCGTCGGTTAATCCAACTAGCACTAGGTGCAAATATTGTTGGTTTATCCAACTAGACCTGGGCT
1 ATCGTCGGTTAATCCAACTAACACTAGGTGCAAACATTGTTGGTTTATCCAACTAGACCTGGGCT
44888142 TACAACTATT
66 TACAACTATT
* * * *
44888152 ATCGTTGGTTAATCCGACTAACACTGGGTGC-AACATTGTTGGTTTATCCAACTAGAGCTGGGCT
1 ATCGTCGGTTAATCCAACTAACACTAGGTGCAAACATTGTTGGTTTATCCAACTAGACCTGGGCT
44888216 CACATTTGAT
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
74 31 0.53
75 27 0.47
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (75 bp):
ATCGTCGGTTAATCCAACTAACACTAGGTGCAAACATTGTTGGTTTATCCAACTAGACCTGGGCT
TACAACTATT
Found at i:44888245 original size:74 final size:75
Alignment explanation
Indices: 44888093--44888245 Score: 175
Period size: 74 Copynumber: 2.1 Consensus size: 75
44888083 GGTTAATCCA
* * * * *
44888093 ACTAGCACTAGGTGCAAATATTGTTGGTTTATCCAACTAGACCTGGGCTTACAACTATTATCGTT
1 ACTAACACTAGGTGCAAACATTGTTGGTTTATCCAACTAGACCTGGGCTCACAACTATTATCATC
* *
44888158 GGTTAATCCG
66 GATTAAACCG
* * **
44888168 ACTAACACTGGGTGC-AACATTGTTGGTTTATCCAACTAGAGCTGGGCTCACATTTGA-TATCAT
1 ACTAACACTAGGTGCAAACATTGTTGGTTTATCCAACTAGACCTGGGCTCACAACT-ATTATCAT
*
44888231 CGATTAAACTG
65 CGATTAAACCG
44888242 ACTA
1 ACTA
44888246 GTGCTGGGCG
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
74 51 0.78
75 14 0.22
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (75 bp):
ACTAACACTAGGTGCAAACATTGTTGGTTTATCCAACTAGACCTGGGCTCACAACTATTATCATC
GATTAAACCG
Found at i:44892082 original size:29 final size:29
Alignment explanation
Indices: 44892040--44892097 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
44892030 ATGGCCATAC
44892040 GCCACATATCTAGCCAATAATCTTTTCAT
1 GCCACATATCTAGCCAATAATCTTTTCAT
44892069 GCCACATATCTAGCCAATAATCTTTTCAT
1 GCCACATATCTAGCCAATAATCTTTTCAT
44892098 ACCCCATTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (29 bp):
GCCACATATCTAGCCAATAATCTTTTCAT
Found at i:44898654 original size:396 final size:396
Alignment explanation
Indices: 44897866--44899027 Score: 1618
Period size: 396 Copynumber: 2.9 Consensus size: 396
44897856 AATCCTGCTC
* ** * ** * * *
44897866 CATGAGGTCATCATGCCCTTATAGATCATCATGATCCATCTACTGTTGTTGTTGTTGTTTCCTTG
1 CATGGGGTCATCATGCCCCAACAGATCATCATGATCCATCTGTTGTTGTTGTTGCTGCTT-CATG
* * * * * * *
44897931 TGAGGTCATCATGCCTCAATTAATGATCTTGCTGTTGCA-TGATGTTATCATGCCCCAACTGATC
65 -G-GGTCATCATGCCCCAACTAGTGATCATGTTGTTGCATTG-GGTTATCATGCCCTAACTGATC
* * *
44897995 ATCCTCTATATCCAAGAGTTGATCTAAGTTCTCTACAAAAATTTAAATAACTTAAATCTAATAAG
127 ATCCTCCATATCCAAGAGCTGATCTAAGTTCTCTACAGAAATTTAAATAACTTAAATCTAATAAG
* * *
44898060 TAATATTAGATAATTAATTTGGTTTGGAAAATATCTAACGAACATTATCAAAATGAGA-AAGCAA
192 TAATATTAGATAGTGAATTTGGTTTGGAAAATATCTAACAAACATTATCAAAATGAGAGAA-CAA
*
44898124 GTTGTAATGAGAGTCCTCATGTCTCTCATTTAGACACAATCCCCATGTTAAGGTTATGTAAAGAA
256 GTTGTAATGAGAGTCCCCATGTCTCTCATTTAGACACAATCCCCATGTTAAGGTTATGTAAAGAA
44898189 GAAAAATCAACTTACCTATTTCCCCATCATGCTCTTGTGTTGGAGCTACTATCTCTTTCATCAAC
321 GAAAAATCAACTTACCTATTTCCCCATCATGCTCTTGTGTTGGAGCTACTATCTCTTTCATCAAC
44898254 TGCTCCTACTT
386 TGCTCCTACTT
* * * *
44898265 CATGGGGTCATCATGCCCCAACGGATCATCATTATCCATCTGTTGTTGTTGTCGCTGGTTCATGG
1 CATGGGGTCATCATGCCCCAACAGATCATCATGATCCATCTGTTGTTGTTGTTGCTGCTTCATGG
* * *
44898330 GGTCATCATGCCCCAACTGGTGATCCTGTTGTTGCATTGGGTTATCATTCCCTAACTGATCATCC
66 GGTCATCATGCCCCAACTAGTGATCATGTTGTTGCATTGGGTTATCATGCCCTAACTGATCATCC
* * *
44898395 TCCATATCCAAGAGCTAATTTAAGTTCTCTACAGAAATTTAAATAACTTAAATCTAATAAGTTAT
131 TCCATATCCAAGAGCTGATCTAAGTTCTCTACAGAAATTTAAATAACTTAAATCTAATAAGTAAT
*
44898460 ATTAGATAGTGAATTTGGTTTGGAAAATATCTAACAAACATTATCAAAATAAGAGAACAAGTTGT
196 ATTAGATAGTGAATTTGGTTTGGAAAATATCTAACAAACATTATCAAAATGAGAGAACAAGTTGT
* * *
44898525 AATGGGAGTCCCCATGTCTCTCATTTAGACACAATCCCCATGTTTAGGTTATGTAAAGATGAAAA
261 AATGAGAGTCCCCATGTCTCTCATTTAGACACAATCCCCATGTTAAGGTTATGTAAAGAAGAAAA
* *
44898590 ATCAACTTACCTATTTACCCATCATGCTCTTGTGTTGGAGCTACTATCT-TTTCCATCGACTGCT
326 ATCAACTTACCTATTTCCCCATCATGCTCTTGTGTTGGAGCTACTATCTCTTT-CATCAACTGCT
* **
44898654 CTTGTTT
390 CCTACTT
* * * * *
44898661 CATGGGGTCATTATGCCCCAACAAATCATCATGATCCATATGTTGTTGTTATTGTTACTGCTTTA
1 CATGGGGTCATCATGCCCCAACAGATCATCATGATCCATCTGTTGTTG---TTGTTGCTGCTTCA
* *
44898726 TGGGGTCATCATGCCCCAACTAGTGATCATGTTGTTGCATTGGATTATCATGCCCTAATTGATCA
63 TGGGGTCATCATGCCCCAACTAGTGATCATGTTGTTGCATTGGGTTATCATGCCCTAACTGATCA
*
44898791 TGCTCCATATCCCAA-AGCTGATCTAAGTTCTCTACAGAAATTTAAATAACTTAAATCTAATAAG
128 TCCTCCATAT-CCAAGAGCTGATCTAAGTTCTCTACAGAAATTTAAATAACTTAAATCTAATAAG
* * * * *
44898855 TAATATTAGATAGTGAATTTGGTTCGAAAAATATCTAATAAACATTACCAAAAGGAGAGAGA-AA
192 TAATATTAGATAGTGAATTTGGTTTGGAAAATATCTAACAAACATTATCAAAATGAGAGA-ACAA
* * * * **
44898919 GTTATAATGAGAGTCGCCATGTCTTTCATTTAGACATAA-CCCTCATGTTAAATTTATGTAAAGA
256 GTTGTAATGAGAGTCCCCATGTCTCTCATTTAGACACAATCCC-CATGTTAAGGTTATGTAAAGA
44898983 AGAAAAATCAACTTACCTATTTCCCCATCATGCTCTTGTG-TGGAG
320 AGAAAAATCAACTTACCTATTTCCCCATCATGCTCTTGTGTTGGAG
44899028 TTGCTAGATC
Statistics
Matches: 680, Mismatches: 74, Indels: 19
0.88 0.10 0.02
Matches are distributed among these distances:
395 3 0.00
396 336 0.49
397 5 0.01
398 11 0.02
399 320 0.47
400 5 0.01
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (396 bp):
CATGGGGTCATCATGCCCCAACAGATCATCATGATCCATCTGTTGTTGTTGTTGCTGCTTCATGG
GGTCATCATGCCCCAACTAGTGATCATGTTGTTGCATTGGGTTATCATGCCCTAACTGATCATCC
TCCATATCCAAGAGCTGATCTAAGTTCTCTACAGAAATTTAAATAACTTAAATCTAATAAGTAAT
ATTAGATAGTGAATTTGGTTTGGAAAATATCTAACAAACATTATCAAAATGAGAGAACAAGTTGT
AATGAGAGTCCCCATGTCTCTCATTTAGACACAATCCCCATGTTAAGGTTATGTAAAGAAGAAAA
ATCAACTTACCTATTTCCCCATCATGCTCTTGTGTTGGAGCTACTATCTCTTTCATCAACTGCTC
CTACTT
Found at i:44905956 original size:14 final size:13
Alignment explanation
Indices: 44905927--44905961 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
44905917 CTCTATTATG
*
44905927 TTTAATTTTATGA
1 TTTAATTTTATAA
44905940 TTTAATATTTATAA
1 TTTAAT-TTTATAA
44905954 TTTAATTT
1 TTTAATTT
44905962 GATATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (13 bp):
TTTAATTTTATAA
Found at i:44909143 original size:25 final size:26
Alignment explanation
Indices: 44909083--44909131 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
44909073 ATTTGTTTTA
*
44909083 ATATTTG-TTT-TTATGTTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
44909107 ATATTTGATTTATTATATTTTTAAA
1 ATATTTGATTTATTATATTTTTAAA
44909132 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTTAAAT
Found at i:44909559 original size:43 final size:43
Alignment explanation
Indices: 44909498--44909584 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
44909488 GACACGACAG
44909498 AAATTTTTTTATAAAATTCCTTATTCGGTAGAGAAAAAAACTA
1 AAATTTTTTTATAAAATTCCTTATTCGGTAGAGAAAAAAACTA
44909541 AAATTTTTTTATAAAATTCCTTATTCGGTAGAGAAAAAAACTA
1 AAATTTTTTTATAAAATTCCTTATTCGGTAGAGAAAAAAACTA
44909584 A
1 A
44909585 GGGAATTGAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (43 bp):
AAATTTTTTTATAAAATTCCTTATTCGGTAGAGAAAAAAACTA
Found at i:44919082 original size:29 final size:29
Alignment explanation
Indices: 44919019--44919086 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
44919009 TAATCAACCG
44919019 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
44919048 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
44919077 CGCACACTTA
1 CGCACACTTA
44919087 CCTTTTCTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:44919198 original size:174 final size:174
Alignment explanation
Indices: 44918908--44919235 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
44918898 AACTCAAGGT
* *
44918908 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
44918973 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
44919038 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
44919082 ACTTACCTTTTCTGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
44919147 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
44919212 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
44919236 TGTACAATTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:44919227 original size:29 final size:30
Alignment explanation
Indices: 44919188--44919266 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
44919178 CTTAATAATC
44919188 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
44919218 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
44919247 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
44919267 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:44921941 original size:40 final size:40
Alignment explanation
Indices: 44921886--44921995 Score: 121
Period size: 40 Copynumber: 2.8 Consensus size: 40
44921876 CGTTTGGATA
* * **
44921886 AAAAATGCCGCTATAGATTGAGCATTAGCGGCACTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCAACACTTTTTG
* * * **
44921926 AAAAACGCCACTATAGATCAAGCATTAACAATGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCAACACTTTTTG
* *
44921966 GAAAACACCGCTATAGATCGAGCATTAGCA
1 AAAAACGCCGCTATAGATCGAGCATTAGCA
44921996 TTAGCGGCGC
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCGAGCATTAGCAACACTTTTTG
Found at i:44922017 original size:46 final size:46
Alignment explanation
Indices: 44921906--44922024 Score: 133
Period size: 40 Copynumber: 2.7 Consensus size: 46
44921896 CTATAGATTG
* * *
44921906 AGCATTAGCGGCACTTTTTGAAAAACGCCACTATAGATCAAGCATT
1 AGCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCAAGCATT
* * * *
44921952 AACA--A----TGCTTTTTGGAAAACACCGCTATAGATCGAGCATT
1 AGCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCAAGCATT
44921992 AGCATTAGCGGCGCTTTTTGAAAAACACCGCTA
1 AGCATTAGCGGCGCTTTTTGAAAAACACCGCTA
44922025 ATGGTTGACC
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
40 32 0.56
42 1 0.02
44 1 0.02
46 23 0.40
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (46 bp):
AGCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCAAGCATT
Found at i:44922236 original size:79 final size:80
Alignment explanation
Indices: 44922103--44922269 Score: 259
Period size: 79 Copynumber: 2.1 Consensus size: 80
44922093 AGCTTTAGTG
44922103 GCATTAGCGGCACTTTTTAAAAAAACGCCGTTATAGATCGAGCATTAGCGGCACTTTTCTAAAAA
1 GCATTAGCGGCACTTTTTAAAAAAACG-CGTTATAGATCGAGCATTAGCGGCACTTTTCTAAAAA
*
44922168 CGCAGCTATAGATCGA
65 CGCAGCTATAGATCAA
*
44922184 GCATTAGCGGCACTTTTCTAAAAACACAG-G-T-TAGATCGAGCATTAGCGGCACTTTTCTAAAA
1 GCATTAGCGGCACTTTT-TAAAAAAAC-GCGTTATAGATCGAGCATTAGCGGCACTTTTCTAAAA
*
44922246 ACGCCGCTATAGATCAA
64 ACGCAGCTATAGATCAA
44922263 GCATTAG
1 GCATTAG
44922270 AGGCGTTTTT
Statistics
Matches: 81, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
79 53 0.65
80 1 0.01
81 18 0.22
82 8 0.10
83 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (80 bp):
GCATTAGCGGCACTTTTTAAAAAAACGCGTTATAGATCGAGCATTAGCGGCACTTTTCTAAAAAC
GCAGCTATAGATCAA
Found at i:44922288 original size:40 final size:40
Alignment explanation
Indices: 44922103--44922269 Score: 248
Period size: 40 Copynumber: 4.2 Consensus size: 40
44922093 AGCTTTAGTG
* *
44922103 GCATTAGCGGCACTTTT-TAAAAAAACGCCGTTATAGATCGA
1 GCATTAGCGGCACTTTTCT--AAAAACGCAGCTATAGATCGA
44922144 GCATTAGCGGCACTTTTCTAAAAACGCAGCTATAGATCGA
1 GCATTAGCGGCACTTTTCTAAAAACGCAGCTATAGATCGA
* *
44922184 GCATTAGCGGCACTTTTCTAAAAACACAGGT-TAGATCGA
1 GCATTAGCGGCACTTTTCTAAAAACGCAGCTATAGATCGA
* *
44922223 GCATTAGCGGCACTTTTCTAAAAACGCCGCTATAGATCAA
1 GCATTAGCGGCACTTTTCTAAAAACGCAGCTATAGATCGA
44922263 GCATTAG
1 GCATTAG
44922270 AGGCGTTTTT
Statistics
Matches: 116, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 36 0.31
40 62 0.53
41 17 0.15
42 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (40 bp):
GCATTAGCGGCACTTTTCTAAAAACGCAGCTATAGATCGA
Found at i:44922395 original size:40 final size:40
Alignment explanation
Indices: 44922351--44922442 Score: 130
Period size: 40 Copynumber: 2.3 Consensus size: 40
44922341 TTAGTGGCAT
*
44922351 TTTTTGAAAAACGTCGCTATAGATCAAGCATTAGCGGTGC
1 TTTTTGAAAAACGTCGCTATAGATCAACCATTAGCGGTGC
* * * *
44922391 TTTTTGAAAAACGTCTCTATAGCTCGACCGTTAGCGGTGC
1 TTTTTGAAAAACGTCGCTATAGATCAACCATTAGCGGTGC
44922431 TTTTTGGAAAAA
1 TTTTT-GAAAAA
44922443 TCGCAAAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 40 0.87
41 6 0.13
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (40 bp):
TTTTTGAAAAACGTCGCTATAGATCAACCATTAGCGGTGC
Found at i:44923293 original size:7 final size:7
Alignment explanation
Indices: 44923281--44923357 Score: 57
Period size: 7 Copynumber: 11.0 Consensus size: 7
44923271 TAATTTCGGC
44923281 CCCTAAA
1 CCCTAAA
44923288 CCCTAAA
1 CCCTAAA
*
44923295 CTCTAAA
1 CCCTAAA
* * *
44923302 GCTTAAT
1 CCCTAAA
44923309 CCCTAAA
1 CCCTAAA
*
44923316 -CCTTAA
1 CCCTAAA
44923322 CACCTAAA
1 C-CCTAAA
44923330 CCCTAAA
1 CCCTAAA
**
44923337 ATCTAAA
1 CCCTAAA
* *
44923344 GCCTAAC
1 CCCTAAA
44923351 CCCTAAA
1 CCCTAAA
44923358 TCCCAACCCA
Statistics
Matches: 51, Mismatches: 17, Indels: 4
0.71 0.24 0.06
Matches are distributed among these distances:
6 5 0.10
7 40 0.78
8 6 0.12
ACGTcount: A:0.42, C:0.35, G:0.03, T:0.21
Consensus pattern (7 bp):
CCCTAAA
Found at i:44923314 original size:21 final size:21
Alignment explanation
Indices: 44923282--44923357 Score: 84
Period size: 21 Copynumber: 3.6 Consensus size: 21
44923272 AATTTCGGCC
44923282 CCTAAACCCTAAACTCTAAAG
1 CCTAAACCCTAAACTCTAAAG
* *
44923303 CTTAATCCCTAAAC-CTTAACA-
1 CCTAAACCCTAAACTC-TAA-AG
*
44923324 CCTAAACCCTAAAATCTAAAG
1 CCTAAACCCTAAACTCTAAAG
*
44923345 CCTAACCCCTAAA
1 CCTAAACCCTAAA
44923358 TCCCAACCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
20 2 0.04
21 41 0.91
22 2 0.04
ACGTcount: A:0.42, C:0.34, G:0.03, T:0.21
Consensus pattern (21 bp):
CCTAAACCCTAAACTCTAAAG
Found at i:44923356 original size:14 final size:14
Alignment explanation
Indices: 44923280--44923366 Score: 59
Period size: 14 Copynumber: 6.2 Consensus size: 14
44923270 TTAATTTCGG
44923280 CCCCTAAACCCTAA
1 CCCCTAAACCCTAA
* * * *
44923294 ACTCTAAAGCTTAA
1 CCCCTAAACCCTAA
* *
44923308 TCCCTAAACCTTAA
1 CCCCTAAACCCTAA
*
44923322 CACCTAAACCCTAA
1 CCCCTAAACCCTAA
*** *
44923336 AATCTAAAGCCTAA
1 CCCCTAAACCCTAA
44923350 CCCCTAAATCCC-AA
1 CCCCTAAA-CCCTAA
44923364 CCC
1 CCC
44923367 ATGAACTATA
Statistics
Matches: 55, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
14 53 0.96
15 2 0.04
ACGTcount: A:0.39, C:0.39, G:0.02, T:0.20
Consensus pattern (14 bp):
CCCCTAAACCCTAA
Found at i:44923445 original size:37 final size:37
Alignment explanation
Indices: 44923375--44923445 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 37
44923365 CCATGAACTA
**
44923375 TAAACCCTTAAACCTTAAAACCTTAAACAATAAAAAC
1 TAAACCCTTAAACCTTAAAACCCCAAACAATAAAAAC
* * * *
44923412 TAAATCCTTAAACTTTTAAACCCCAAACCATAAA
1 TAAACCCTTAAACCTTAAAACCCCAAACAATAAA
44923446 CCCTAAAACT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 28 1.00
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (37 bp):
TAAACCCTTAAACCTTAAAACCCCAAACAATAAAAAC
Found at i:44924497 original size:336 final size:337
Alignment explanation
Indices: 44923822--44924624 Score: 1114
Period size: 336 Copynumber: 2.4 Consensus size: 337
44923812 AGTTTAACAA
* *
44923822 TAGTGGCATTTTTGTCCAAAACGCCGCAATAGGCTATGCATTATCGGCGTTTGAGCCAAAAACGC
1 TAGTGGCATTTTT-TCCAAAACGCCGCAATAGGCTATGCATTACCGGCGTTTTAGCCAAAAACGC
** * *
44923887 TGCAAACATGTGTTAAGTGTTAGTAAAACAGTGCCGTTTTATGCTTTATTTTTAGTGGCGCTTTG
65 CACAAATATGTGTTAGGTGTTAGTAAAACAGTGCCGTTTTATGCTTTATTTTTAGTGGCGCTTTG
* * * *
44923952 TTAAAACGCCGCAAATATGTATTAGGAGTTCCCGAAAAGGCACCGTTTAGCCTTGTTATTAATGG
130 TTAAAAAGCCACAAATATGTATTAGGAGTTCCCGAAAAGACACCATTTAGCCTTGTTATTAATGG
* *
44924017 CGTTTCGCAAAAAAACGCCGCAAAAAATGTGTCAAGTGTTAACAAAACGGCACCGTTTTATTCCT
195 CGTTTCGCAAAAAAAC-CCACAAAAAATGTGTCAAGTGTTAACAAAACGACACCGTTTTATTCCT
* *
44924082 TGTATTTAGTGGCGCTTCCGTAAAATGTCGCAAATGTGTATTACAAGTCCATAAAACGATGTCGT
259 TGTATTTAGTGGCGCTTCCGTAAAATGCCGCAAATGTGTATTACAAGTCCATAAAACGATATCGT
44924147 TTTATCCTTGTTAT
324 TTTATCCTTGTTAT
44924161 TAGTGGCATTTTTTCCAAAACGCCGCAATAGGCTATGCATTACCGGCGTTTTAGCCAAAAACGCC
1 TAGTGGCATTTTTTCCAAAACGCCGCAATAGGCTATGCATTACCGGCGTTTTAGCCAAAAACGCC
* ** *
44924226 ACAAATATATGTTAGGTGTTAGTAAAATGGTGCCATTTTATGCTTTATTTTTAGTGGCGCTTTGT
66 ACAAATATGTGTTAGGTGTTAGTAAAACAGTGCCGTTTTATGCTTTATTTTTAGTGGCGCTTTGT
* * *
44924291 TAAAAAATCCACAAATATGTATTAGGAGTTCCC-AAAATGACACTATTTAGCCTTGTTATTAGTG
131 T-AAAAAGCCACAAATATGTATTAGGAGTTCCCGAAAA-GACACCATTTAGCCTTGTTATTAATG
* * * * * * * *
44924355 GCATTTTC-CAAAAATA-CCAC-AAATATGTGTTAAGTGTTAGCAAAACGACGCCGTTTTGTTCT
194 GC-GTTTCGCAAAAAAACCCACAAAAAATGTGTCAAGTGTTAACAAAACGACACCGTTTTATTCC
* **
44924417 TTGTATTTAGTGGCGCTTTCGTAAAATGCCGCAAATGTGTATTATGAGTCCATAAAACG-TCATC
258 TTGTATTTAGTGGCGCTTCCGTAAAATGCCGCAAATGTGTATTACAAGTCCATAAAACGAT-ATC
44924481 GTTTTATCCTTGTTAT
322 GTTTTATCCTTGTTAT
* * * * * *
44924497 TAGTGGCGTTTTGTCCAAAACGCCACAATAAGCTTTGCAATACCGGCGTTTTAGCCAAAAACG-C
1 TAGTGGCATTTTTTCCAAAACGCCGCAATAGGCTATGCATTACCGGCGTTTTAGCCAAAAACGCC
** * * *
44924561 AGCAAATATGTGTTAGGTGTTAGTAAAACAGTGTTGCTTTATGCTTTGTATTTAGTGGCGCTTT
66 A-CAAATATGTGTTAGGTGTTAGTAAAACAGTGCCGTTTTATGCTTTATTTTTAGTGGCGCTTT
44924625 ATTAGAAACG
Statistics
Matches: 412, Mismatches: 47, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
335 3 0.01
336 218 0.53
337 3 0.01
338 112 0.27
339 72 0.17
340 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (337 bp):
TAGTGGCATTTTTTCCAAAACGCCGCAATAGGCTATGCATTACCGGCGTTTTAGCCAAAAACGCC
ACAAATATGTGTTAGGTGTTAGTAAAACAGTGCCGTTTTATGCTTTATTTTTAGTGGCGCTTTGT
TAAAAAGCCACAAATATGTATTAGGAGTTCCCGAAAAGACACCATTTAGCCTTGTTATTAATGGC
GTTTCGCAAAAAAACCCACAAAAAATGTGTCAAGTGTTAACAAAACGACACCGTTTTATTCCTTG
TATTTAGTGGCGCTTCCGTAAAATGCCGCAAATGTGTATTACAAGTCCATAAAACGATATCGTTT
TATCCTTGTTAT
Found at i:44926191 original size:24 final size:24
Alignment explanation
Indices: 44926164--44926210 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
44926154 ATTATTATTG
*
44926164 AAATATTCTCGTCCGTTTTATCAA
1 AAATATTATCGTCCGTTTTATCAA
44926188 AAATATTATCGTCCGTTTTATCA
1 AAATATTATCGTCCGTTTTATCA
44926211 TTTAAGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.43
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAA
Found at i:44926461 original size:14 final size:14
Alignment explanation
Indices: 44926442--44926472 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
44926432 GTGTTAGTCG
44926442 ATAATGCCATTACC
1 ATAATGCCATTACC
44926456 ATAATGCCATTACC
1 ATAATGCCATTACC
44926470 ATA
1 ATA
44926473 TTAAAACAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.26, G:0.06, T:0.29
Consensus pattern (14 bp):
ATAATGCCATTACC
Found at i:44926778 original size:165 final size:164
Alignment explanation
Indices: 44926491--44926792 Score: 568
Period size: 165 Copynumber: 1.8 Consensus size: 164
44926481 AGGTTCAATC
44926491 TTATTTTTAATATTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTT
1 TTATTTTTAATATTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTT
*
44926556 TATACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAA
66 TATACACAATTTTTTAAATTACATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAA
*
44926621 TTTTTTTCCATGTGATTTTCCACACCGTCAAATT
131 TTGTTTTCCATGTGATTTTCCACACCGTCAAATT
*
44926655 TTATTTTTATTATTTCTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTT
1 TTATTTTTAATATTT-TTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTT
44926720 TTATACACAATTTTTTAAATTACATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATA
65 TTATACACAATTTTTTAAATTACATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATA
44926785 ATTGTTTT
130 ATTGTTTT
44926793 AAAGGAAAAT
Statistics
Matches: 134, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
164 14 0.10
165 120 0.90
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (164 bp):
TTATTTTTAATATTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTT
TATACACAATTTTTTAAATTACATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAA
TTGTTTTCCATGTGATTTTCCACACCGTCAAATT
Found at i:44926856 original size:10 final size:9
Alignment explanation
Indices: 44926822--44926867 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
44926812 CTTAATGTTA
44926822 AATATATAT
1 AATATATAT
*
44926831 CATATA-AT
1 AATATATAT
*
44926839 AATTTATAT
1 AATATATAT
44926848 AAATATATAT
1 -AATATATAT
44926858 AATATA-AT
1 AATATATAT
44926866 AA
1 AA
44926868 CTTACAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
8 10 0.32
9 13 0.42
10 8 0.26
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (9 bp):
AATATATAT
Found at i:44926864 original size:15 final size:15
Alignment explanation
Indices: 44926820--44926864 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
44926810 ATCTTAATGT
*
44926820 TAAATATATATCATA
1 TAAATATATATAATA
*
44926835 T-AATA-AT-TTATA
1 TAAATATATATAATA
44926847 TAAATATATATAATA
1 TAAATATATATAATA
44926862 TAA
1 TAA
44926865 TAACTTACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 5 0.20
13 6 0.24
14 6 0.24
15 8 0.32
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAATATATATAATA
Found at i:44926878 original size:9 final size:9
Alignment explanation
Indices: 44926866--44926891 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
44926856 ATAATATAAT
44926866 AACTTACAA
1 AACTTACAA
44926875 AACTTACAA
1 AACTTACAA
44926884 AACTTACA
1 AACTTACA
44926892 TAATACATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (9 bp):
AACTTACAA
Found at i:44926922 original size:43 final size:43
Alignment explanation
Indices: 44926875--44927141 Score: 329
Period size: 43 Copynumber: 6.4 Consensus size: 43
44926865 TAACTTACAA
44926875 AACTTACAAAACTTACATAATACATAAATATATATCATATCAT
1 AACTTACAAAACTTACATAATACATAAATATATATCATATCAT
44926918 AACTTACAAAACTTACATAATACATAAATATATATCATATCAT
1 AACTTACAAAACTTACATAATACATAAATATATATCATATCAT
*
44926961 TACTTACAAAACTTACATAATACATAAATATATATCATATC--
1 AACTTACAAAACTTACATAATACATAAATATATATCATATCAT
*
44927002 -A--T----AACTTACATAATACATAATTATATATCATATCAT
1 AACTTACAAAACTTACATAATACATAAATATATATCATATCAT
* **
44927038 AACTTACATAACTTACATAATACATAGCTATATATCATATCAT
1 AACTTACAAAACTTACATAATACATAAATATATATCATATCAT
* * ** * * *
44927081 AACTTACATAGCTTACATAAATGTATATCATATCATAACTTA-CAT
1 AACTTACAAAACTTACAT-AATACATA-AATAT-ATATCATATCAT
44927126 AACTTACAAAACTTAC
1 AACTTACAAAACTTAC
44927142 TTAACCTACG
Statistics
Matches: 199, Mismatches: 13, Indels: 22
0.85 0.06 0.09
Matches are distributed among these distances:
34 31 0.16
37 1 0.01
38 1 0.01
39 1 0.01
40 1 0.01
43 132 0.66
44 6 0.03
45 20 0.10
46 6 0.03
ACGTcount: A:0.48, C:0.17, G:0.01, T:0.34
Consensus pattern (43 bp):
AACTTACAAAACTTACATAATACATAAATATATATCATATCAT
Found at i:44927008 original size:77 final size:77
Alignment explanation
Indices: 44926820--44927133 Score: 360
Period size: 77 Copynumber: 3.9 Consensus size: 77
44926810 ATCTTAATGT
* * * * * * *
44926820 TAAATATATATCATATAATAATTTATATAAATATATATAATATAATAACTTA-CAAAACTTACAA
1 TAAATATATATCATATCATAACTTACAT-AATACATA-AATAT-ATATCATATCATAACTTACAA
44926884 AACTTACATAATACA
63 AACTTACATAATACA
*
44926899 TAAATATATATCATATCATAACTTACAAAACTTACATAATACATAAATATATATCATATCATTAC
1 TAAATATATATCATATC---A--T----AACTTACATAATACATAAATATATATCATATCATAAC
44926964 TTACAAAACTTACATAATACA
57 TTACAAAACTTACATAATACA
* *
44926985 TAAATATATATCATATCATAACTTACATAATACATAATTATATATCATATCATAACTTACATAAC
1 TAAATATATATCATATCATAACTTACATAATACATAAATATATATCATATCATAACTTACAAAAC
44927050 TTACATAATACA
66 TTACATAATACA
** * * *
44927062 TAGCTATATATCATATCATAACTTACATAGCTTACATAAATGTATATCATATCATAACTTACATA
1 TAAATATATATCATATCATAACTTACATA--ATACATAAATATATATCATATCATAACTTACAAA
44927127 ACTTACA
64 ACTTACA
44927134 AAACTTACTT
Statistics
Matches: 207, Mismatches: 16, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
77 82 0.40
79 54 0.26
81 1 0.00
82 1 0.00
83 1 0.00
84 1 0.00
85 6 0.03
86 47 0.23
87 7 0.03
88 7 0.03
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.35
Consensus pattern (77 bp):
TAAATATATATCATATCATAACTTACATAATACATAAATATATATCATATCATAACTTACAAAAC
TTACATAATACA
Found at i:44927008 original size:120 final size:120
Alignment explanation
Indices: 44926884--44927100 Score: 371
Period size: 120 Copynumber: 1.8 Consensus size: 120
44926874 AAACTTACAA
44926884 AACTTACATAATACATAAATATATATCATATCATAACTTACAAAACTTACATAATACATAAATAT
1 AACTTACATAATACATAAATATATATCATATCATAACTTACAAAACTTACATAATACATAAATAT
*
44926949 ATATCATATCATTACTTACAAAACTTACATAATACATAAATATATATCATATCAT
66 ATATCATATCATAACTTACAAAACTTACATAATACATAAATATATATCATATCAT
* * **
44927004 AACTTACATAATACATAATTATATATCATATCATAACTTACATAACTTACATAATACATAGCTAT
1 AACTTACATAATACATAAATATATATCATATCATAACTTACAAAACTTACATAATACATAAATAT
* *
44927069 ATATCATATCATAACTTACATAGCTTACATAA
66 ATATCATATCATAACTTACAAAACTTACATAA
44927101 ATGTATATCA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 90 1.00
ACGTcount: A:0.48, C:0.17, G:0.01, T:0.35
Consensus pattern (120 bp):
AACTTACATAATACATAAATATATATCATATCATAACTTACAAAACTTACATAATACATAAATAT
ATATCATATCATAACTTACAAAACTTACATAATACATAAATATATATCATATCAT
Found at i:44927013 original size:9 final size:9
Alignment explanation
Indices: 44927001--44927146 Score: 83
Period size: 9 Copynumber: 16.7 Consensus size: 9
44926991 TATATCATAT
44927001 CATAACTTA
1 CATAACTTA
44927010 CATAA--TA
1 CATAACTTA
44927017 CATAA-TTA
1 CATAACTTA
* * *
44927025 TATATCATA
1 CATAACTTA
44927034 TCATAACTTA
1 -CATAACTTA
44927044 CATAACTTA
1 CATAACTTA
44927053 CATAA--TA
1 CATAACTTA
*
44927060 CATAGC-TA
1 CATAACTTA
* * *
44927068 TATATCATA
1 CATAACTTA
44927077 TCATAACTTA
1 -CATAACTTA
*
44927087 CATAGCTTA
1 CATAACTTA
*
44927096 CATAAATGT-
1 CATAACT-TA
* *
44927105 -ATATCATA
1 CATAACTTA
44927113 TCATAACTTA
1 -CATAACTTA
44927123 CATAACTTA
1 CATAACTTA
*
44927132 CAAAACTTA
1 CATAACTTA
*
44927141 CTTAAC
1 CATAAC
44927147 CTACGTAATA
Statistics
Matches: 104, Mismatches: 23, Indels: 20
0.71 0.16 0.14
Matches are distributed among these distances:
7 14 0.13
8 14 0.13
9 57 0.55
10 19 0.18
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:44931635 original size:40 final size:40
Alignment explanation
Indices: 44931561--44931779 Score: 363
Period size: 40 Copynumber: 5.5 Consensus size: 40
44931551 AACCCAAGTA
* *
44931561 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
44931600 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
44931640 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
44931680 CCTTCGGGGCTTAGCCCGGATATAGTCACTAGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
44931719 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
44931759 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
44931780 GTCATCCGAA
Statistics
Matches: 172, Mismatches: 5, Indels: 5
0.95 0.03 0.03
Matches are distributed among these distances:
39 51 0.30
40 118 0.69
41 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:44931759 original size:79 final size:80
Alignment explanation
Indices: 44931561--44931779 Score: 363
Period size: 79 Copynumber: 2.8 Consensus size: 80
44931551 AACCCAAGTA
* *
44931561 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
44931624 GTCAATAGCACAAATG
65 GTCAATAGCACAAATG
* *
44931640 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGGCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
44931705 TCACTAGCAC-AATG
66 TCAATAGCACAAATG
44931719 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
44931780 GTCATCCGAA
Statistics
Matches: 131, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
79 76 0.58
80 54 0.41
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAATG
Found at i:44931772 original size:119 final size:119
Alignment explanation
Indices: 44931561--44931779 Score: 370
Period size: 119 Copynumber: 1.8 Consensus size: 119
44931551 AACCCAAGTA
* *
44931561 CCTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CCTTCGGGACTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
44931626 CAATAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
66 CAATAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
44931680 CCTTCGGGGCTTAGCCCGGATATAGTC-ACTAGCAC-AATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAG-CCGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
44931743 GTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
64 GTCAATAGCACAAATGCCTTCGGGACTTAGCCCGGAT
44931780 GTCATCCGAA
Statistics
Matches: 94, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
119 76 0.81
120 17 0.18
121 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (119 bp):
CCTTCGGGACTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CAATAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:44936749 original size:86 final size:85
Alignment explanation
Indices: 44936597--44936899 Score: 313
Period size: 86 Copynumber: 3.5 Consensus size: 85
44936587 TTTGCTAAAA
* * *
44936597 TTAGTGGCGTTTGTATGAAAAGCGCCGCTATAGGTCATGTTCTTTAGCGGCATT-TTTGAGAAAA
1 TTAGCGGCGTTTGTATGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCTTTGTTTG-G-AAA
* * *
44936661 GCACCGCCAAAGATCACGTTCT
64 GCACCGCTAAAGGTCAAGTTCT
* * * *
44936683 TTAGCGGCGTTTGTATGAAAAGAGCCGCCAAAGGTCACGTTCTTTAGCGGCGTTTGTTTGGTAAG
1 TTAGCGGCGTTTGTATGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGC-TTTGTTTGGAAAG
*
44936748 CACCGCTAAAGGTCATGTTCT
65 CACCGCTAAAGGTCAAGTTCT
* * ** * * *
44936769 TTAGCGACGTTTGTACGGGAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGATTTTGTATGGCAAG
1 TTAGCGGCGTTTGTATGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG-CTTTGTTTGGAAAG
* *
44936834 CGCCGCTAGAGGTCAAGTTCT
65 CACCGCTAAAGGTCAAGTTCT
* * * * ** *
44936855 TCAGCGGCGCTT-TCTCAAAAATGCCGCTAAATGTCATGTTCTTTA
1 TTAGCGGCGTTTGTATGAAAAGCGCCGCTAAAGGTCATGTTCTTTA
44936900 ACGGTGTTTT
Statistics
Matches: 180, Mismatches: 34, Indels: 7
0.81 0.15 0.03
Matches are distributed among these distances:
85 25 0.14
86 148 0.82
87 3 0.02
88 4 0.02
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (85 bp):
TTAGCGGCGTTTGTATGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCTTTGTTTGGAAAGC
ACCGCTAAAGGTCAAGTTCT
Found at i:44936825 original size:43 final size:43
Alignment explanation
Indices: 44936605--44936861 Score: 252
Period size: 43 Copynumber: 6.0 Consensus size: 43
44936595 AATTAGTGGC
* *
44936605 GTTTGTATGAAAAGCGCCGCTATAGGTCATGTTCTTTAGCGGCA
1 GTTTGTATGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG-A
* * * * *
44936649 -TTT-T-TGAGAAAAGCACCGCCAAAGATCACGTTCTTTAGCGGC
1 GTTTGTATG-G-AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGA
* * * * *
44936691 GTTTGTATGAAAAGAGCCGCCAAAGGTCACGTTCTTTAGCGGC
1 GTTTGTATGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGA
* * *
44936734 GTTTGTTTGGTAAGCACCGCTAAAGGTCATGTTCTTTAGC-GA
1 GTTTGTATGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGA
* *
44936776 CGTTTGTACGGGAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGA
1 -GTTTGTATGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGA
* * * * *
44936820 TTTTGTATGGCAAGCGCCGCTAGAGGTCAAGTTCTTCAGCGG
1 GTTTGTATGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
44936862 CGCTTTCTCA
Statistics
Matches: 177, Mismatches: 29, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 168 0.95
44 3 0.02
45 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (43 bp):
GTTTGTATGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGA
Done.