Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 48 of 161
Found at i:14637367 original size:103 final size:102
Alignment explanation
Indices: 14637197--14637403 Score: 378
Period size: 103 Copynumber: 2.0 Consensus size: 102
14637187 TAGATAAGAA
* * *
14637197 TACTAAAAAATGAGTCTGATTTAACACTAATAATATATAATTAACTAAAACATGAGTAAAATAAA
1 TACTAAAAAATGAGTCTAATTTAACACTAATAATATATAATTAACTAAAACATAAATAAAATAAA
14637262 ATTCCTAAAATCTACTAAAATTAACTTATAGAATAAAC
66 ATTCCT-AAATCTACTAAAATTAACTTATAGAATAAAC
14637300 TACTAAAAAATGAGTCTAATTTAACACTAATAATATATAATTAACTAAAACATAAATAAAATAAA
1 TACTAAAAAATGAGTCTAATTTAACACTAATAATATATAATTAACTAAAACATAAATAAAATAAA
14637365 ATTCCTAAATCTACTAAAATTAACTTATAGAATAAAC
66 ATTCCTAAATCTACTAAAATTAACTTATAGAATAAAC
14637402 TA
1 TA
14637404 AAATAAAATA
Statistics
Matches: 101, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
102 33 0.33
103 68 0.67
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.30
Consensus pattern (102 bp):
TACTAAAAAATGAGTCTAATTTAACACTAATAATATATAATTAACTAAAACATAAATAAAATAAA
ATTCCTAAATCTACTAAAATTAACTTATAGAATAAAC
Found at i:14643791 original size:32 final size:33
Alignment explanation
Indices: 14643750--14643817 Score: 120
Period size: 32 Copynumber: 2.1 Consensus size: 33
14643740 GATTTAATCC
14643750 AACCTAATATATGTTTTTCTATTTCCCAAAATA
1 AACCTAATATATGTTTTTCTATTTCCCAAAATA
*
14643783 AACC-AATATATGTTTTTCTATTTCTCAAAATA
1 AACCTAATATATGTTTTTCTATTTCCCAAAATA
14643815 AAC
1 AAC
14643818 ATTATTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 30 0.88
33 4 0.12
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (33 bp):
AACCTAATATATGTTTTTCTATTTCCCAAAATA
Found at i:14652876 original size:20 final size:21
Alignment explanation
Indices: 14652844--14652882 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
14652834 CTTCCCCCTT
14652844 TTTTCCTTATTTT-ATTTTAA
1 TTTTCCTTATTTTAATTTTAA
14652864 TTTTCCTGT-TTTTAATTTT
1 TTTTCCT-TATTTTAATTTT
14652883 GGGGTAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.15, C:0.10, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTCCTTATTTTAATTTTAA
Found at i:14665355 original size:16 final size:16
Alignment explanation
Indices: 14665334--14665375 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
14665324 TTATTAAATT
*
14665334 ATATATTTTAATTATA
1 ATATATTTTAATAATA
14665350 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
14665365 AT-TATGTTTAA
1 ATATAT-TTTAA
14665376 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:14665360 original size:15 final size:15
Alignment explanation
Indices: 14665325--14665366 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14665315 TTAAGAATTT
*
14665325 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14665339 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14665353 TATTTAATAATAAT
1 TATTTAATTATAAT
14665367 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14665546 original size:39 final size:40
Alignment explanation
Indices: 14665503--14665607 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
14665493 TTCCATTATG
14665503 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
14665542 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
14665587 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
14665608 ACACCTCTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:14665601 original size:45 final size:44
Alignment explanation
Indices: 14665501--14665610 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
14665491 TTTTCCATTA
14665501 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
14665540 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
14665585 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
14665611 CCTCTATTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:14665610 original size:16 final size:16
Alignment explanation
Indices: 14665589--14665658 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
14665579 TTGATTTGCT
*
14665589 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
14665605 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
14665621 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
14665637 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
14665653 AATACA
1 ATTACA
14665659 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:14666034 original size:31 final size:30
Alignment explanation
Indices: 14665969--14666040 Score: 99
Period size: 31 Copynumber: 2.4 Consensus size: 30
14665959 TGTATATATG
*
14665969 AACTTTAATTTGGTGCAATTATACACGTGA
1 AACTTTAATTTGGTGCAAATATACACGTGA
* * *
14665999 AACTTTAATTGTGGTTCAAATATATACTTGA
1 AACTTTAATT-TGGTGCAAATATACACGTGA
14666030 AACTTTAATTT
1 AACTTTAATTT
14666041 TGATTTAATC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 11 0.30
31 26 0.70
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (30 bp):
AACTTTAATTTGGTGCAAATATACACGTGA
Found at i:14666111 original size:29 final size:29
Alignment explanation
Indices: 14666079--14666134 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
14666069 AAATACATCA
*
14666079 ATTTAGTTT-TATATTAGATAAATATAATT
1 ATTTA-TTTATATAATAGATAAATATAATT
*
14666108 ATTTATTTATGTAATAGATAAATATAA
1 ATTTATTTATATAATAGATAAATATAA
14666135 AATGATGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (29 bp):
ATTTATTTATATAATAGATAAATATAATT
Found at i:14671235 original size:33 final size:33
Alignment explanation
Indices: 14671198--14671261 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
14671188 GTCCCAGTGG
* *
14671198 ACTATATTTGTTCTGTGCT-TATTGTCCTAGCGA
1 ACTATATCTGTTCTATG-TATATTGTCCTAGCGA
*
14671231 ACTATCTCTGTTCTATGTATATTGTCCTAGC
1 ACTATATCTGTTCTATGTATATTGTCCTAGC
14671262 AGACTATCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 1 0.04
33 26 0.96
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.45
Consensus pattern (33 bp):
ACTATATCTGTTCTATGTATATTGTCCTAGCGA
Found at i:14675531 original size:19 final size:19
Alignment explanation
Indices: 14675507--14675546 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
14675497 AGTTGAATGA
*
14675507 AGAAAGTTGCTTACAATTC
1 AGAAAGTTGCCTACAATTC
14675526 AGAAAGTTGCCTACAATTC
1 AGAAAGTTGCCTACAATTC
14675545 AG
1 AG
14675547 GTATTTCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (19 bp):
AGAAAGTTGCCTACAATTC
Found at i:14677588 original size:13 final size:13
Alignment explanation
Indices: 14677570--14677604 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
14677560 AAAACTTAAT
14677570 GTCATGCAATCAA
1 GTCATGCAATCAA
14677583 GTCATGCAATCAA
1 GTCATGCAATCAA
14677596 GTCATGCAA
1 GTCATGCAA
14677605 ACCAGAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (13 bp):
GTCATGCAATCAA
Found at i:14682012 original size:31 final size:31
Alignment explanation
Indices: 14681910--14682024 Score: 106
Period size: 31 Copynumber: 3.6 Consensus size: 31
14681900 CCAGCGAACT
*** *
14681910 TTATGTGTATTTACTATCCCAATGGACTATATA
1 TTATGTG--TTTACTATCCCAGCAGACTATTTA
* * *
14681943 TTTTGTGCTTACTATCCCTA-CAGACTATTTG
1 TTATGTGTTTACTATCCC-AGCAGACTATTTA
*
14681974 TTTTGTGTTTACTATCCCAGCAGACTATTTA
1 TTATGTGTTTACTATCCCAGCAGACTATTTA
* *
14682005 TTATGTGTTTATTGTCCCAG
1 TTATGTGTTTACTATCCCAG
14682025 GAGGCTATCT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
30 1 0.01
31 61 0.88
32 1 0.01
33 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.45
Consensus pattern (31 bp):
TTATGTGTTTACTATCCCAGCAGACTATTTA
Found at i:14687057 original size:14 final size:15
Alignment explanation
Indices: 14687038--14687067 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
14687028 CATTTCTTGG
14687038 TCGGTTCAGTT-AAC
1 TCGGTTCAGTTCAAC
14687052 TCGGTTCAGTTCAAC
1 TCGGTTCAGTTCAAC
14687067 T
1 T
14687068 GGACCACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (15 bp):
TCGGTTCAGTTCAAC
Found at i:14697972 original size:19 final size:18
Alignment explanation
Indices: 14697950--14697989 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14697940 GAAATTTTGG
14697950 AATGGAAAAGAAGAGAGAA
1 AATGG-AAAGAAGAGAGAA
* *
14697969 AATGGAGAGAAGAGAGGA
1 AATGGAAAGAAGAGAGAA
14697987 AAT
1 AAT
14697990 ATGTGAATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.35, T:0.07
Consensus pattern (18 bp):
AATGGAAAGAAGAGAGAA
Found at i:14704186 original size:24 final size:22
Alignment explanation
Indices: 14704159--14704214 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 22
14704149 AAATATTTAA
*
14704159 TTAACTAAATTATTAAATATTCCT
1 TTAACTAAATTATTAAATAAT--T
* * *
14704183 TTAAATTAATTATTAATTAATT
1 TTAACTAAATTATTAAATAATT
14704205 TTAACTAAAT
1 TTAACTAAAT
14704215 ATTTTAGTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 9 0.35
24 17 0.65
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAACTAAATTATTAAATAATT
Found at i:14705995 original size:21 final size:21
Alignment explanation
Indices: 14705971--14706010 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14705961 ATATTAAAAT
14705971 TATTTATATTTATTT-TATAAA
1 TATTTATATTT-TTTATATAAA
*
14705992 TATTTTTATTTTTTATATA
1 TATTTATATTTTTTATATA
14706011 TCCTAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TATTTATATTTTTTATATAAA
Found at i:14706605 original size:21 final size:21
Alignment explanation
Indices: 14706580--14706630 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
14706570 TAACATCAAA
*
14706580 ATAAAGATTTGATTGGTAAAT
1 ATAAAGATTTGATCGGTAAAT
14706601 ATAAATG-TTTGATCGGTAAAT
1 ATAAA-GATTTGATCGGTAAAT
*
14706622 -TTAAGATTT
1 ATAAAGATTT
14706631 TAATAACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 6 0.23
21 18 0.69
22 1 0.04
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (21 bp):
ATAAAGATTTGATCGGTAAAT
Found at i:14709324 original size:3 final size:3
Alignment explanation
Indices: 14709316--14709348 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
14709306 TCGTTCTCTT
14709316 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
14709349 ATATACTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:14719306 original size:138 final size:138
Alignment explanation
Indices: 14718969--14719720 Score: 1162
Period size: 138 Copynumber: 5.5 Consensus size: 138
14718959 AATGAAAATG
*
14718969 AATTATATTCTTTCCAAAAGAATATTAATTT-ACATGTCTTTTATATTTTGATCGAAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCA-ATGTCTTTTATATTTTGACCGAAATTAATTA
* *
14719033 ATATAACTATTTATATTAAAAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATC--A-
65 ATATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
14719095 --ATATATT
130 TCATATATT
* * * *
14719102 AATTATATTCTTTCTAAAAGAATTTTAATTTCTATGTCTTTTATATTTTGACAGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCAATGTCTTTTATATTTTGACCGAAATTAATTAA
14719167 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAAT-TATTTGTATGAATCAAAT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATAT-TTTGTATGAATCAAAT
*
14719231 CCATATATT
130 TCATATATT
14719240 AATTATATTCTTTCCAAAAGAATATTAATTTCAATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCAATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * *
14719305 TATAACTATTTAGATTAATAATTTCGGTAAAAAATATACAATTAAT-TATTTGTATGAATCAAAT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATAT-TTTGTATGAATCAAAT
14719369 TCATATATT
130 TCATATATT
* *
14719378 AATTAAATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCAATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
14719443 TACAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
14719508 CATATATT
131 CATATATT
* ** * *
14719516 AATTATATTCTTTCTAAAAGAATATTAATTTCCTTGCCTTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCAATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
14719581 TACAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
* *
14719646 AAAATATT
131 CATATATT
*
14719654 AATTATATTCTTTCCAAAAGAATATTAATTTTC-ATATCTTTTATATTTTGACCGAAATTAATAT
1 AATTATATTCTTTCCAAAAGAATATTAA-TTTCAATGTCTTTTATATTTTGACCGAAATTAAT-T
14719718 AAT
64 AAT
14719721 TGTTCATATT
Statistics
Matches: 573, Mismatches: 36, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
132 1 0.00
133 115 0.20
135 1 0.00
138 447 0.78
139 9 0.02
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.45
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCAATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:14719629 original size:67 final size:67
Alignment explanation
Indices: 14719420--14719632 Score: 166
Period size: 67 Copynumber: 3.1 Consensus size: 67
14719410 CATGTCTTTT
*
14719420 ATATTTTGACCGAAATTAATTAATACAACTGTTTATATTAATAAATTTGGTAAAATATATACAAT
1 ATATTTTGACTGAAATTAATTAATACAACTGTTTATATTAATAAATTTGGTAAAATATATACAAT
14719485 TA
66 TA
* * * * * * * * **
14719487 ATATTTTGTA-TG-AATCAAATTCATATATTAATTATATTCTTTCTAAAAGAATAT--TAATTTC
1 ATATTTTG-ACTGAAAT-TAATT-A-ATA-CAACTGT-TTATAT-TAATA-AATTTGGTAAAAT-
* * ** *
14719548 CT-TGCCTTTT
57 ATATACAATTA
14719558 ATATTTTGACTGAAATTAATTAATACAACTGTTTATATTAATAAATTTGGTAAAATATATACAAT
1 ATATTTTGACTGAAATTAATTAATACAACTGTTTATATTAATAAATTTGGTAAAATATATACAAT
14719623 TA
66 TA
14719625 ATATTTTG
1 ATATTTTG
14719633 TATGAATCAA
Statistics
Matches: 101, Mismatches: 31, Indels: 28
0.63 0.19 0.17
Matches are distributed among these distances:
65 4 0.04
66 8 0.08
67 33 0.33
68 6 0.06
69 6 0.06
70 6 0.06
71 26 0.26
72 8 0.08
73 4 0.04
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (67 bp):
ATATTTTGACTGAAATTAATTAATACAACTGTTTATATTAATAAATTTGGTAAAATATATACAAT
TA
Found at i:14720625 original size:11 final size:11
Alignment explanation
Indices: 14720609--14720667 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
14720599 ACTACTACAA
14720609 ACCATATCACC
1 ACCATATCACC
14720620 ACCATA-CAACC
1 ACCATATC-ACC
14720631 ACCATATCACC
1 ACCATATCACC
* * *
14720642 GCCATTTAACC
1 ACCATATCACC
* *
14720653 ACCTTAGCACC
1 ACCATATCACC
14720664 ACCA
1 ACCA
14720668 CACCGCCACC
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
10 1 0.03
11 35 0.95
12 1 0.03
ACGTcount: A:0.36, C:0.44, G:0.03, T:0.17
Consensus pattern (11 bp):
ACCATATCACC
Found at i:14720635 original size:22 final size:22
Alignment explanation
Indices: 14720609--14720667 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
14720599 ACTACTACAA
14720609 ACCATATCACCACCATACAACC
1 ACCATATCACCACCATACAACC
* **
14720631 ACCATATCACCGCCATTTAACC
1 ACCATATCACCACCATACAACC
* *
14720653 ACCTTAGCACCACCA
1 ACCATATCACCACCA
14720668 CACCGCCACC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.44, G:0.03, T:0.17
Consensus pattern (22 bp):
ACCATATCACCACCATACAACC
Found at i:14721089 original size:31 final size:31
Alignment explanation
Indices: 14721051--14721113 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
14721041 CTTCAAAATA
*
14721051 CTATATTTGTAACAAATAGGGTTTCTGAGAC
1 CTATATTTGTAACAAATAGGGCTTCTGAGAC
14721082 CTATATTTGTAACAAATAGGGCTTCTGAGAC
1 CTATATTTGTAACAAATAGGGCTTCTGAGAC
14721113 C
1 C
14721114 CAATACATAC
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:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (31 bp):
CTATATTTGTAACAAATAGGGCTTCTGAGAC
Found at i:14733420 original size:23 final size:22
Alignment explanation
Indices: 14733377--14733420 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
14733367 TTCTAAGTCG
14733377 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
14733400 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
14733421 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:14733533 original size:45 final size:45
Alignment explanation
Indices: 14733465--14733551 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 45
14733455 AACAGATACT
* *
14733465 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATATG
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATATG
*
14733510 CGGTGGAATCAGCACAT-GACAACCACTTTACTAATCAATGAT
1 CGGTGGAATCAGCACATAG-CAACCACCTTACTAATCAATGAT
14733552 GTTTGGTTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 1 0.03
45 37 0.97
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATATG
Found at i:14733625 original size:51 final size:51
Alignment explanation
Indices: 14733563--14733700 Score: 163
Period size: 51 Copynumber: 2.7 Consensus size: 51
14733553 TTTGGTTCAT
* *
14733563 ATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCGATACAC
1 ATAGTAGCCTGCACATAGTACTACACATGTGACCATAACCATCCGATACAC
* * * * * * *
14733614 GTTGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATCCGGTACGC
1 ATAGTAGCCTGCACATAGTACTACACATGTGA-CCATAACCATCCGATACAC
14733665 ATAGTAGCCTGCACATAGTACTACACACT-TGACCAT
1 ATAGTAGCCTGCACATAGTACTACACA-TGTGACCAT
14733701 GACTTTCACT
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
50 2 0.03
51 67 0.94
52 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
ATAGTAGCCTGCACATAGTACTACACATGTGACCATAACCATCCGATACAC
Found at i:14742687 original size:12 final size:14
Alignment explanation
Indices: 14742651--14742685 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
14742641 AGGCCTTAAC
*
14742651 TTGATTTTTAGTTA
1 TTGATTTTTAATTA
14742665 TTGATTTTTAATTA
1 TTGATTTTTAATTA
14742679 TT-ATTTT
1 TTGATTTT
14742686 AACCTTAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (14 bp):
TTGATTTTTAATTA
Found at i:14745776 original size:36 final size:36
Alignment explanation
Indices: 14745726--14745803 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
14745716 TACTAAGAAT
*
14745726 GAAAAACCTAATCTAAAAAGTAAACTAAAACGAAGG
1 GAAATACCTAATCTAAAAAGTAAACTAAAACGAAGG
14745762 GAAATACCTAATCTAAAAAGTAAACTAAAACGAAGG
1 GAAATACCTAATCTAAAAAGTAAACTAAAACGAAGG
14745798 GAAATA
1 GAAATA
14745804 GTCCCTTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.58, C:0.13, G:0.14, T:0.15
Consensus pattern (36 bp):
GAAATACCTAATCTAAAAAGTAAACTAAAACGAAGG
Found at i:14748460 original size:22 final size:22
Alignment explanation
Indices: 14748430--14748484 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
14748420 CCAATTTGGA
* * * *
14748430 TGTCGAGACATGACATGGCTGG
1 TGTCAAGACATCACATGACTAG
14748452 TGTCAAGACATCACATGACTAG
1 TGTCAAGACATCACATGACTAG
*
14748474 TGTCATGACAT
1 TGTCAAGACAT
14748485 TGATGGCAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (22 bp):
TGTCAAGACATCACATGACTAG
Found at i:14751430 original size:26 final size:26
Alignment explanation
Indices: 14751394--14751444 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
14751384 TCTATTAAAA
14751394 AAAATAAGTTTCTAATCTGATGGATC
1 AAAATAAGTTTCTAATCTGATGGATC
14751420 AAAATAAGTTTCTAATCTGATGGAT
1 AAAATAAGTTTCTAATCTGATGGAT
14751445 TAGTGATAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (26 bp):
AAAATAAGTTTCTAATCTGATGGATC
Found at i:14765590 original size:285 final size:282
Alignment explanation
Indices: 14765075--14765643 Score: 1111
Period size: 285 Copynumber: 2.0 Consensus size: 282
14765065 ACAAATAGTT
14765075 AATTACCCTAACACTTGCTTTTGCTTTTGCTTTTCTCTTCTCTTTTCTTTTGTTAATGCCACAAA
1 AATTACCCTAACACTTGCTTTTGCTTTTGCTTTTCTCTTCTCTTTTCTTTTGTTAATGCCACAAA
14765140 CCACTAAGTTTGTATAGTATTAGAATTTGTATTATTAATTGTAACCAGTCTAGGTTTGAAATTTT
66 CCACTAAGTTTGTATAGTATTAGAATTTGTATTATTAATTGTAACCAGTCTAGGTTTGAAATTTT
14765205 TTTTCTTTGATGGAGAAAAAGAACAATGTTAAATAACTCAAAACACTAAAACTTTCGAGTGTGGA
131 TTTTCTTTGATGGAGAAAAAGAACAATGTTAAATAACTCAAAACACTAAAACTTTCGAGTGTGGA
14765270 GTTTAAAACTTAAATGAAGCAATTAAGTGTCGAAATTTTTAACTTTTGTGTTTGACGCTTCTATT
196 GTTTAAAACTTAAATGAAGCAATTAAGTGTCGAAATTTTTAACTTTTGTGTTTGACGCTTCTATT
14765335 TTGACATACAATATATATAATA
261 TTGACATACAATATATATAATA
14765357 AATTACCCTAACACTTGCTTTTGCTTTTGCTTTTCTCTTCTCTTTTCTTTTGTTAATGCCACAAA
1 AATTACCCTAACACTTGCTTTTGCTTTTGCTTTTCTCTTCTCTTTTCTTTTGTTAATGCCACAAA
14765422 CCACTAAGTTTGTATAGTATTAGAATTTGTATTATTAATTGTAACCAGTCTACTAGGTTTGAAAT
66 CCACTAAGTTTGTATAGTATTAGAATTTGTATTATTAATTGTAACCAG--T-CTAGGTTTGAAAT
14765487 TTTTTTTCTTTGATGGAGAAAAAGAACAATGTTAAATAACTCAAAACACTAAAACTTTCGAGTGT
128 TTTTTTTCTTTGATGGAGAAAAAGAACAATGTTAAATAACTCAAAACACTAAAACTTTCGAGTGT
14765552 GGAGTTTAAAACTTAAATGAAGCAATTAAGTGTCGAAATTTTTAACTTTTGTGTTTGACGCTTCT
193 GGAGTTTAAAACTTAAATGAAGCAATTAAGTGTCGAAATTTTTAACTTTTGTGTTTGACGCTTCT
14765617 ATTTTGACATACAATATATATAATA
258 ATTTTGACATACAATATATATAATA
14765642 AA
1 AA
14765644 ATAATAATAA
Statistics
Matches: 284, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
282 113 0.40
284 1 0.00
285 170 0.60
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (282 bp):
AATTACCCTAACACTTGCTTTTGCTTTTGCTTTTCTCTTCTCTTTTCTTTTGTTAATGCCACAAA
CCACTAAGTTTGTATAGTATTAGAATTTGTATTATTAATTGTAACCAGTCTAGGTTTGAAATTTT
TTTTCTTTGATGGAGAAAAAGAACAATGTTAAATAACTCAAAACACTAAAACTTTCGAGTGTGGA
GTTTAAAACTTAAATGAAGCAATTAAGTGTCGAAATTTTTAACTTTTGTGTTTGACGCTTCTATT
TTGACATACAATATATATAATA
Found at i:14765649 original size:3 final size:3
Alignment explanation
Indices: 14765636--14765665 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
14765626 TACAATATAT
14765636 ATA ATA A-A ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
14765666 AAGAGAACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:14768559 original size:28 final size:28
Alignment explanation
Indices: 14768528--14768587 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
14768518 TTCGTCAAGG
*
14768528 CTATCTTATATGTGGAAGCCCATTAGAA
1 CTATCTTATATGTGAAAGCCCATTAGAA
** *
14768556 CTATCTTATATGTGAAAGTTCATTGGAA
1 CTATCTTATATGTGAAAGCCCATTAGAA
14768584 CTAT
1 CTAT
14768588 ATTGTAAGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.37
Consensus pattern (28 bp):
CTATCTTATATGTGAAAGCCCATTAGAA
Found at i:14773984 original size:20 final size:20
Alignment explanation
Indices: 14773961--14774067 Score: 81
Period size: 20 Copynumber: 5.3 Consensus size: 20
14773951 TACACTTTGG
*
14773961 TGCCCCTGTTTGCACTTCGA
1 TGCCCCTATTTGCACTTCGA
* * *
14773981 TGCCCTTATATACACTTCGA
1 TGCCCCTATTTGCACTTCGA
* * *
14774001 TGTCTCTATTTGCACTACGA
1 TGCCCCTATTTGCACTTCGA
* * * *
14774021 TGCCTCTGTTTGCATATTTG-
1 TGCCCCTATTTGCA-CTTCGA
* *
14774041 TGCCCCTATTTGCACTTTGG
1 TGCCCCTATTTGCACTTCGA
14774061 TGCCCCT
1 TGCCCCT
14774068 GTTATGCATC
Statistics
Matches: 67, Mismatches: 18, Indels: 4
0.75 0.20 0.04
Matches are distributed among these distances:
19 4 0.06
20 61 0.91
21 2 0.03
ACGTcount: A:0.14, C:0.30, G:0.17, T:0.39
Consensus pattern (20 bp):
TGCCCCTATTTGCACTTCGA
Found at i:14774218 original size:7 final size:7
Alignment explanation
Indices: 14774206--14774232 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
14774196 AAGATATTAG
14774206 TAAATGT
1 TAAATGT
14774213 TAAATGT
1 TAAATGT
14774220 TAAATGT
1 TAAATGT
14774227 TAAATG
1 TAAATG
14774233 AATTACTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (7 bp):
TAAATGT
Found at i:14776606 original size:13 final size:13
Alignment explanation
Indices: 14776590--14776618 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
14776580 ATAATAAAAA
14776590 ATATATTTATTAT
1 ATATATTTATTAT
14776603 ATATATTTATTAT
1 ATATATTTATTAT
14776616 ATA
1 ATA
14776619 AATACTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATATTTATTAT
Found at i:14777067 original size:16 final size:16
Alignment explanation
Indices: 14777046--14777081 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
14777036 CACTTCTTCT
14777046 TTTCTTTTCATTTT-TA
1 TTTCTTTT-ATTTTATA
14777062 TTTCTTTTATTTTATA
1 TTTCTTTTATTTTATA
14777078 TTTC
1 TTTC
14777082 GTATTTCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTCTTTTATTTTATA
Found at i:14785480 original size:14 final size:14
Alignment explanation
Indices: 14785442--14785484 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
14785432 TAAAATGTAC
14785442 AATATAATTAAA-T
1 AATATAATTAAATT
14785455 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
14785470 AA-ATAATTTAATT
1 AATATAATTAAATT
14785483 AA
1 AA
14785485 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:14790701 original size:25 final size:24
Alignment explanation
Indices: 14790649--14790721 Score: 85
Period size: 25 Copynumber: 3.0 Consensus size: 24
14790639 GTGCATGTAT
* *
14790649 GCTCATACGAGCTGTGAACGGTAA
1 GCTCATAAGAGCTGAGAACGGTAA
* *
14790673 GCTCATATGAGCTGAGTATCGGTAA
1 GCTCATAAGAGCTGAG-AACGGTAA
14790698 GCTCATAAGAGCTGA-AACCGGTAA
1 GCTCATAAGAGCTGAGAA-CGGTAA
14790722 CCCTAATGAC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.02
24 20 0.48
25 21 0.50
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (24 bp):
GCTCATAAGAGCTGAGAACGGTAA
Found at i:14794413 original size:267 final size:267
Alignment explanation
Indices: 14793936--14794470 Score: 831
Period size: 267 Copynumber: 2.0 Consensus size: 267
14793926 TTTACTTAAA
14793936 GGCCCAAGTAAGATCAAAAGCAAACTTGAATGGCCAATATGTTCAAGGTTGCATAAGAAGGCATG
1 GGCCCAAGTAAGATCAAAAGCAAACTTGAATGGCCAATATGTTCAAGGTTGCATAAGAAGGCATG
*
14794001 ATCTTGAGAGGTTAGTGGAGAATATTGGACTATTGAACCAAGTGGAGCCAAATGAATAGAACAAA
66 ATCTTGAGAGGTTAGTGGAGAATATTGGACTATTGAACCAAGTGGAGCCAAATGAACAGAACAAA
* * * *
14794066 CCAAAACCTGTTGAGTCATCAACTAAGTATGAACTAGAAGCTAACTCAACAAATGCCACAGAAGA
131 CCAAAACCTGATAAGTCATCAACTAAGTATGAACTAGAAGCTAACACAACAAATGCCACAAAAGA
*
14794131 AGCAAAAACTGAAGAGGAACAAAACAACCC-CAAGCTGAGGGTGGACACAAATGCTGCTGAACGA
196 AGCAAAAACTGAAGAGGAACAAAACAACCCTCAA-CTGAGGGTGGACACAAATGCTGCTGAACCA
14794195 GTGGAGTC
260 GTGGAGTC
14794203 GGCCCAAGTAAGATCAAAAGCAAACTTGAATGGCCAATATGTTCAAGGTTGCATAAGAAGGCATG
1 GGCCCAAGTAAGATCAAAAGCAAACTTGAATGGCCAATATGTTCAAGGTTGCATAAGAAGGCATG
* **
14794268 ATCTTGAGAGGTTAGTGGAGAATATTGGACTATTGAACCAAGTGGAGCCAAATGAACCGAATGAA
66 ATCTTGAGAGGTTAGTGGAGAATATTGGACTATTGAACCAAGTGGAGCCAAATGAACAGAACAAA
* * * * *
14794333 CTAGAATCTGATAAGTCATCAACTAAGTCTGAA-TCAGAAGCTGACACAACAAATGCCACAAAAG
131 CCAAAACCTGATAAGTCATCAACTAAGTATGAACT-AGAAGCTAACACAACAAATGCCACAAAAG
* * * * * ** * *
14794397 AAGTAGAAATTGAAGAGGAACCAAACAACCCTGAACTGAGGGTGGAGTCAATTGTTGCTGAACCA
195 AAGCAAAAACTGAAGAGGAACAAAACAACCCTCAACTGAGGGTGGACACAAATGCTGCTGAACCA
14794462 GTGGAGTC
260 GTGGAGTC
14794470 G
1 G
14794471 AGTTTTAATC
Statistics
Matches: 243, Mismatches: 23, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
266 1 0.00
267 240 0.99
268 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.19
Consensus pattern (267 bp):
GGCCCAAGTAAGATCAAAAGCAAACTTGAATGGCCAATATGTTCAAGGTTGCATAAGAAGGCATG
ATCTTGAGAGGTTAGTGGAGAATATTGGACTATTGAACCAAGTGGAGCCAAATGAACAGAACAAA
CCAAAACCTGATAAGTCATCAACTAAGTATGAACTAGAAGCTAACACAACAAATGCCACAAAAGA
AGCAAAAACTGAAGAGGAACAAAACAACCCTCAACTGAGGGTGGACACAAATGCTGCTGAACCAG
TGGAGTC
Found at i:14804152 original size:22 final size:22
Alignment explanation
Indices: 14804112--14804153 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14804102 CCATAATCAT
14804112 AACACTTTAAACACATTTAACC
1 AACACTTTAAACACATTTAACC
*
14804134 AACACATTTACACAC-TTTAA
1 AACAC-TTTAAACACATTTAA
14804154 TTTGATACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (22 bp):
AACACTTTAAACACATTTAACC
Found at i:14804526 original size:3 final size:3
Alignment explanation
Indices: 14804518--14804610 Score: 177
Period size: 3 Copynumber: 31.0 Consensus size: 3
14804508 TGATTACCAA
14804518 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
14804566 TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
14804611 ATTATCATCA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 88 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:14804657 original size:21 final size:21
Alignment explanation
Indices: 14804633--14804672 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14804623 GACATCATCA
14804633 TCATCATCGTCATATTCATTG
1 TCATCATCGTCATATTCATTG
** *
14804654 TCATTGTCGTCATCTTCAT
1 TCATCATCGTCATATTCAT
14804673 CTTCTTTTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.25, G:0.10, T:0.45
Consensus pattern (21 bp):
TCATCATCGTCATATTCATTG
Found at i:14812226 original size:21 final size:22
Alignment explanation
Indices: 14812194--14812245 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
14812184 CAATTGAATC
14812194 TATTTT-TTATTTTTAAATA-T
1 TATTTTATTATTTTTAAATATT
*
14812214 TATTTTATTATTTTTAATTATT
1 TATTTTATTATTTTTAAATATT
*
14812236 TATTTAATTA
1 TATTTTATTA
14812246 AACCGTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 6 0.21
21 12 0.43
22 10 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
TATTTTATTATTTTTAAATATT
Found at i:14815000 original size:15 final size:15
Alignment explanation
Indices: 14814965--14815016 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
14814955 TTAAGAATTT
*
14814965 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14814979 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14814993 TATTTAATAATAAT-
1 TATTTAATTATAATA
14815007 TATGTTAATT
1 TAT-TTAATT
14815017 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14815050 original size:120 final size:120
Alignment explanation
Indices: 14814903--14815132 Score: 460
Period size: 120 Copynumber: 1.9 Consensus size: 120
14814893 TTTGAGTAAA
14814903 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
14814968 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
14815023 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
14815088 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
14815133 TAAATATGAT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (120 bp):
TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
Found at i:14815098 original size:61 final size:61
Alignment explanation
Indices: 14814913--14815100 Score: 208
Period size: 61 Copynumber: 3.1 Consensus size: 61
14814903 TTATAGTATC
14814913 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
14814974 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AATT
14815033 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
14815094 ATATATT
1 ATATATT
14815101 TTAATTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 29 0.30
60 26 0.27
61 36 0.37
62 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:14815115 original size:16 final size:16
Alignment explanation
Indices: 14815094--14815135 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
14815084 TTATTAAATT
*
14815094 ATATATTTTAATTATA
1 ATATATTTTAATAATA
14815110 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
14815125 AT-TATGTTTAA
1 ATATAT-TTTAA
14815136 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:14815120 original size:15 final size:15
Alignment explanation
Indices: 14815085--14815126 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14815075 TTAAGAATTT
*
14815085 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14815099 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14815113 TATTTAATAATAAT
1 TATTTAATTATAAT
14815127 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14815360 original size:16 final size:16
Alignment explanation
Indices: 14815336--14815387 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
14815326 GATTTGCTAT
*
14815336 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
14815352 TATACCTCTAATCCAA
1 TACACCTCTAATCCAA
14815368 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
14815384 TACA
1 TACA
14815388 ACGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:14816341 original size:25 final size:25
Alignment explanation
Indices: 14816304--14816352 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
14816294 CAGTTAGGGA
14816304 AATTATAAAAAATATATATT-TTTAT
1 AATTATAAAAAAT-TATATTATTTAT
14816329 AATTA-AAATAAATTATATTATTTA
1 AATTATAAA-AAATTATATTATTTA
14816353 AGGGTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AATTATAAAAAATTATATTATTTAT
Found at i:14817544 original size:20 final size:21
Alignment explanation
Indices: 14817519--14817563 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
14817509 GTTCAACTAA
14817519 TTTTGGGTT-TCGATCTCAAT
1 TTTTGGGTTCTCGATCTCAAT
*
14817539 TTTT-GGTTCTCGATTTCAAT
1 TTTTGGGTTCTCGATCTCAAT
14817559 TTTTG
1 TTTTG
14817564 ATCTCAAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.13, C:0.13, G:0.18, T:0.56
Consensus pattern (21 bp):
TTTTGGGTTCTCGATCTCAAT
Found at i:14819473 original size:45 final size:45
Alignment explanation
Indices: 14819423--14819585 Score: 168
Period size: 45 Copynumber: 3.6 Consensus size: 45
14819413 CCAGAAACAA
* * *
14819423 TAAGACCGTAGCTAAAAGACGTTATGGCATCATGATTCTATCAAG
1 TAAGACCATAGCTGAAAGACATTATGGCATCATGATTCTATCAAG
* * **
14819468 TAAGACCATACCTGAAAGACATTATGGCATCATGATTTTATTGAG
1 TAAGACCATAGCTGAAAGACATTATGGCATCATGATTCTATCAAG
* * * * * *
14819513 TAAGACCATAGTTGAAAGACATTATGGCATAACGAATCAAATGAA-
1 TAAGACCATAGCTGAAAGACATTATGGCATCATGATTC-TATCAAG
* *
14819558 -AAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATAGCTGAAAGACATTATGGCA
14819586 ACACGACGGA
Statistics
Matches: 100, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
44 27 0.27
45 70 0.70
46 3 0.03
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (45 bp):
TAAGACCATAGCTGAAAGACATTATGGCATCATGATTCTATCAAG
Found at i:14819575 original size:44 final size:46
Alignment explanation
Indices: 14819468--14819714 Score: 204
Period size: 45 Copynumber: 5.5 Consensus size: 46
14819458 TTCTATCAAG
** * * * ** * *
14819468 TAAGACCATACCTGAAAGACATTATGGCAT-CATGATTTTATTGAG
1 TAAGACCATAGTTGAAAGACACTATGGCATACACGAATAAAATGAA
* *
14819513 TAAGACCATAGTTGAAAGACATTATGGCATA-ACGAATCAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCATACACGAATAAAATGAA
**
14819558 -AAGACCATAGTTGAAAGACACTATGGCA-ACACGACGGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCATACACGA-ATAAAATGAA
* * *
14819603 TAAGATCATAATTGAAAGACACTGTGGCA-ACACG-ATGAAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCATACACGAAT--AAAATGAA
* * *** *
14819649 TAAGACCATGGTTGAAAGACACTATGGCAT-CAAGTCGAGAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCATACACGAATAAAATGAA
14819694 TAAGACCAT-GTTTGAAAGACA
1 TAAGACCATAG-TTGAAAGACA
14819715 ATAACTCCCT
Statistics
Matches: 168, Mismatches: 25, Indels: 18
0.80 0.12 0.09
Matches are distributed among these distances:
43 1 0.01
44 32 0.19
45 69 0.41
46 66 0.39
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.21
Consensus pattern (46 bp):
TAAGACCATAGTTGAAAGACACTATGGCATACACGAATAAAATGAA
Found at i:14819643 original size:45 final size:45
Alignment explanation
Indices: 14819468--14819714 Score: 225
Period size: 46 Copynumber: 5.5 Consensus size: 45
14819458 TTCTATCAAG
** * * * *** * *
14819468 TAAGACCATACCTGAAAGACATTATGGCATCATGATTTTATTGAG
1 TAAGACCATAGTTGAAAGACACTATGGCAACACGATGAAAATGAA
* *
14819513 TAAGACCATAGTTGAAAGACATTATGGCATA-ACGAAT-CAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCA-ACACG-ATGAAAATGAA
*
14819558 -AAGACCATAGTTGAAAGACACTATGGCAACACGACGGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACACGA-TGAAAATGAA
* * *
14819603 TAAGATCATAATTGAAAGACACTGTGGCAACACGATGAAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACACGATG-AAAATGAA
* * * *
14819649 TAAGACCATGGTTGAAAGACACTATGGCATCAAG-TCGAGAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACACGAT-GAAAATGAA
14819694 TAAGACCAT-GTTTGAAAGACA
1 TAAGACCATAG-TTGAAAGACA
14819715 ATAACTCCCT
Statistics
Matches: 171, Mismatches: 22, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
43 2 0.01
44 31 0.18
45 68 0.40
46 70 0.41
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.21
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCAACACGATGAAAATGAA
Found at i:14821072 original size:26 final size:27
Alignment explanation
Indices: 14821041--14821110 Score: 108
Period size: 26 Copynumber: 2.7 Consensus size: 27
14821031 CATTCTGACC
14821041 CACAACTCGTATGAGCAAGG-CCATTT
1 CACAACTCGTATGAGCAAGGCCCATTT
14821067 CACAACTCGTATGAGC-AGGCCCATTT
1 CACAACTCGTATGAGCAAGGCCCATTT
* *
14821093 CACAGCTCGTGTGAGCAA
1 CACAACTCGTATGAGCAA
14821111 TGTAAAGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
25 3 0.08
26 36 0.90
27 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (27 bp):
CACAACTCGTATGAGCAAGGCCCATTT
Found at i:14831304 original size:21 final size:21
Alignment explanation
Indices: 14831280--14831324 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
14831270 AGGACTAAAT
*
14831280 TGTAAAAATATAAAAGTGTTA
1 TGTAAAAATATAAAAGTGATA
* *
14831301 TGTAAAAGTGTAAAAGTGATA
1 TGTAAAAATATAAAAGTGATA
14831322 TGT
1 TGT
14831325 GTGCATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (21 bp):
TGTAAAAATATAAAAGTGATA
Found at i:14831943 original size:16 final size:16
Alignment explanation
Indices: 14831922--14831957 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
14831912 GGGAATTATG
14831922 GAATTTAATAGATTTT
1 GAATTTAATAGATTTT
14831938 GAATTTAATAGATTTT
1 GAATTTAATAGATTTT
14831954 GAAT
1 GAAT
14831958 ATCAAGGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (16 bp):
GAATTTAATAGATTTT
Found at i:14837330 original size:26 final size:26
Alignment explanation
Indices: 14837287--14837358 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 26
14837277 TCTCGTCCCT
* ** *
14837287 ATTTTACCCCCAACAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACA
* *
14837313 ATTTTACCCTTGGTAAAATTTTGACA
1 ATTTTACCCCTAGTAAAATTTTGACA
*
14837339 ATTTTGCCCCTAGTAAAATT
1 ATTTTACCCCTAGTAAAATT
14837359 CTAAGAAAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.38
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACA
Found at i:14844291 original size:15 final size:15
Alignment explanation
Indices: 14844273--14844302 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14844263 TAACCCTAAT
*
14844273 CCTATTAGACACATC
1 CCTATCAGACACATC
14844288 CCTATCAGACACATC
1 CCTATCAGACACATC
14844303 AAAATCAGAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.37, G:0.07, T:0.23
Consensus pattern (15 bp):
CCTATCAGACACATC
Found at i:14845741 original size:104 final size:104
Alignment explanation
Indices: 14845614--14845807 Score: 388
Period size: 104 Copynumber: 1.9 Consensus size: 104
14845604 TTCTTATATA
14845614 TATATATATTTACTTTTTTTTCATCCATATATAAGACTAATTTTAATATAAAATTTTAGAAATAC
1 TATATATATTTACTTTTTTTTCATCCATATATAAGACTAATTTTAATATAAAATTTTAGAAATAC
14845679 ACTCGATGACTCGAATCAATTGGAATTTACTCACTTTCT
66 ACTCGATGACTCGAATCAATTGGAATTTACTCACTTTCT
14845718 TATATATATTTACTTTTTTTTCATCCATATATAAGACTAATTTTAATATAAAATTTTAGAAATAC
1 TATATATATTTACTTTTTTTTCATCCATATATAAGACTAATTTTAATATAAAATTTTAGAAATAC
14845783 ACTCGATGACTCGAATCAATTGGAA
66 ACTCGATGACTCGAATCAATTGGAA
14845808 ACCAAATTCA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 90 1.00
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.42
Consensus pattern (104 bp):
TATATATATTTACTTTTTTTTCATCCATATATAAGACTAATTTTAATATAAAATTTTAGAAATAC
ACTCGATGACTCGAATCAATTGGAATTTACTCACTTTCT
Found at i:14847866 original size:3 final size:3
Alignment explanation
Indices: 14847858--14847948 Score: 83
Period size: 3 Copynumber: 30.3 Consensus size: 3
14847848 TAATTTTAAG
* * ** * * * * * *
14847858 ATT ATT ATT ATT GTT ATT ATT ATT AAT ACC ATC ATC ATC ATC ATC ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
14847906 ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
14847949 AATTGTTTTA
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.34, C:0.10, G:0.01, T:0.55
Consensus pattern (3 bp):
ATT
Found at i:14848626 original size:40 final size:40
Alignment explanation
Indices: 14848567--14848645 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
14848557 ATTGATGAGG
14848567 TTTCTGCTATAAGGAAAGCAACTCGAGAAAGTATCCAATT
1 TTTCTGCTATAAGGAAAGCAACTCGAGAAAGTATCCAATT
*
14848607 TTTCTGCTATAAGGCAAGCAACTCGAGAAAGTATCCAAT
1 TTTCTGCTATAAGGAAAGCAACTCGAGAAAGTATCCAAT
14848646 CACAACACGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (40 bp):
TTTCTGCTATAAGGAAAGCAACTCGAGAAAGTATCCAATT
Found at i:14853537 original size:74 final size:74
Alignment explanation
Indices: 14853450--14853588 Score: 174
Period size: 74 Copynumber: 1.9 Consensus size: 74
14853440 CTCATTTGAG
14853450 CTTCACTCAGTATAAC-AGTA-GAATTTGATCAATTAAACATCAGTCAGTATAACAGTAAGATTT
1 CTTCACTCAGTATAACGA-TATG-ATTTGATCAATTAAACATCAGTCAGTATAACAGTAAGATTT
14853513 GCTCAATTAAA
64 GCTCAATTAAA
* * * * * * * *
14853524 CTTCATTCGGTATAACGATATGATTTGCTCGATTGAGCTTCATTCAGTATAACAGTAAGATTTGC
1 CTTCACTCAGTATAACGATATGATTTGATCAATTAAACATCAGTCAGTATAACAGTAAGATTTGC
14853589 CTCGATAGAG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
74 53 0.96
75 2 0.04
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.34
Consensus pattern (74 bp):
CTTCACTCAGTATAACGATATGATTTGATCAATTAAACATCAGTCAGTATAACAGTAAGATTTGC
TCAATTAAA
Found at i:14853588 original size:37 final size:37
Alignment explanation
Indices: 14853440--14853588 Score: 158
Period size: 37 Copynumber: 4.0 Consensus size: 37
14853430 TAGATTTCTA
* *
14853440 CTCATTTGAGCTTCACTCAGTATAACAGT-AGAATTTG
1 CTCAATTGAGCTTCATTCAGTATAACAGTAAG-ATTTG
* * * * *
14853477 ATCAATTAAACATCAGTCAGTATAACAGTAAGATTTG
1 CTCAATTGAGCTTCATTCAGTATAACAGTAAGATTTG
* * * *
14853514 CTCAATTAAACTTCATTCGGTATAAC-GATATGATTTG
1 CTCAATTGAGCTTCATTCAGTATAACAG-TAAGATTTG
*
14853551 CTCGATTGAGCTTCATTCAGTATAACAGTAAGATTTG
1 CTCAATTGAGCTTCATTCAGTATAACAGTAAGATTTG
14853588 C
1 C
14853589 CTCGATAGAG
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
36 1 0.01
37 89 0.96
38 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (37 bp):
CTCAATTGAGCTTCATTCAGTATAACAGTAAGATTTG
Found at i:14861768 original size:47 final size:47
Alignment explanation
Indices: 14861703--14861844 Score: 198
Period size: 47 Copynumber: 3.1 Consensus size: 47
14861693 TACTATGGCA
* * * *
14861703 TTTTGATCATGACACCATAACATCTTTCAGTTATGGTCTTACTCATT
1 TTTTCATCATGACGCCATAGCATCTTTCAGCTATGGTCTTACTCATT
* *
14861750 TTTTTATCATGATGCCATAGCATCTTTCAGCTATGGTCTTACTCA--
1 TTTTCATCATGACGCCATAGCATCTTTCAGCTATGGTCTTACTCATT
* *
14861795 TTTACATTATGACGCCATAGCATCTTTCAGCTATGGTCTTACTCATT
1 TTTTCATCATGACGCCATAGCATCTTTCAGCTATGGTCTTACTCATT
14861842 TTT
1 TTT
14861845 AGGCGTATAG
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
45 41 0.49
47 43 0.51
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.43
Consensus pattern (47 bp):
TTTTCATCATGACGCCATAGCATCTTTCAGCTATGGTCTTACTCATT
Found at i:14861826 original size:45 final size:45
Alignment explanation
Indices: 14861708--14861842 Score: 189
Period size: 45 Copynumber: 3.0 Consensus size: 45
14861698 TGGCATTTTG
* * * **
14861708 ATCATGACACCATAACATCTTTCAGTTATGGTCTTACTCATTTTTTT
1 ATCATGACGCCATAGCATCTTTCAGCTATGGTCTTACTCA--TTTAC
*
14861755 ATCATGATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTAC
1 ATCATGACGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTAC
*
14861800 ATTATGACGCCATAGCATCTTTCAGCTATGGTCTTACTCATTT
1 ATCATGACGCCATAGCATCTTTCAGCTATGGTCTTACTCATTT
14861843 TTAGGCGTAT
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 44 0.55
47 36 0.45
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (45 bp):
ATCATGACGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTAC
Found at i:14863227 original size:23 final size:22
Alignment explanation
Indices: 14863175--14863233 Score: 95
Period size: 21 Copynumber: 2.7 Consensus size: 22
14863165 ACACATAAGA
14863175 GCCTGAA-ACGACACACGAGGT
1 GCCTGAATACGACACACGAGGT
14863196 GCCTG-ATACGACACACGAGGT
1 GCCTGAATACGACACACGAGGT
14863217 GCCTGAAATACGACACA
1 GCCTG-AATACGACACA
14863234 TAAAGTGCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.03
21 24 0.69
23 10 0.29
ACGTcount: A:0.34, C:0.29, G:0.25, T:0.12
Consensus pattern (22 bp):
GCCTGAATACGACACACGAGGT
Found at i:14863269 original size:23 final size:23
Alignment explanation
Indices: 14863159--14863269 Score: 88
Period size: 23 Copynumber: 5.0 Consensus size: 23
14863149 ACTTGATCAG
*
14863159 TATACGACACAT-AAGAGCCTGA
1 TATACGACACATAAAGTGCCTGA
** *
14863181 -A-ACGACACACGAGGTGCCTG-
1 TATACGACACATAAAGTGCCTGA
** *
14863201 -ATACGACACACGAGGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
*
14863223 AATACGACACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
* * *
14863246 TATATGACGCATAAAGTTCCTGA
1 TATACGACACATAAAGTGCCTGA
14863269 T
1 T
14863270 CGGTAGATTC
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
20 9 0.12
21 27 0.36
23 39 0.52
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (23 bp):
TATACGACACATAAAGTGCCTGA
Found at i:14863581 original size:51 final size:51
Alignment explanation
Indices: 14863526--14863627 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
14863516 TCTTATGTTC
*
14863526 ACAATTCAAATCACTTTTTCAACCCAATATGCATTTCAAAACCACATTAAT
1 ACAATTCAAATCAATTTTTCAACCCAATATGCATTTCAAAACCACATTAAT
*
14863577 ACAATTCAAATCAATTTTTCAATCCAATATGCATTTCAAAACCACATTAAT
1 ACAATTCAAATCAATTTTTCAACCCAATATGCATTTCAAAACCACATTAAT
14863628 TCTTTTAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.42, C:0.24, G:0.02, T:0.32
Consensus pattern (51 bp):
ACAATTCAAATCAATTTTTCAACCCAATATGCATTTCAAAACCACATTAAT
Found at i:14864130 original size:41 final size:42
Alignment explanation
Indices: 14864037--14864151 Score: 128
Period size: 41 Copynumber: 2.8 Consensus size: 42
14864027 AAAGGTGCCG
** * * *
14864037 CTAATGCTCATGGTTTTAGCAGCGTTTTTGAAAAAAGTACCG
1 CTAATGCTCGGGGTTTTAGCGGCGTTTTTGAAAAAAGCACCA
* *
14864079 CTAATGCTCGGGGTTTTAGCGGCGTTTTT-ATAAAAGCGCCA
1 CTAATGCTCGGGGTTTTAGCGGCGTTTTTGAAAAAAGCACCA
* *
14864120 CTAATTCTCGGGATTTTAGC-G-GTTTTTGAAAA
1 CTAATGCTCGGGGTTTTAGCGGCGTTTTTGAAAA
14864152 TGCGCCGCAA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
39 6 0.10
40 4 0.06
41 26 0.42
42 26 0.42
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (42 bp):
CTAATGCTCGGGGTTTTAGCGGCGTTTTTGAAAAAAGCACCA
Found at i:14868102 original size:124 final size:124
Alignment explanation
Indices: 14867882--14868227 Score: 640
Period size: 124 Copynumber: 2.8 Consensus size: 124
14867872 TTATTTCGAG
** *
14867882 TTGACGTTTCTG-GTGAAATAGTATAAAATCGCTTCTAACATGATGCTATTTGAGAAGAAATTAT
1 TTGACGTTTCTGAGT-AAATAGTATAAAATCGCTTCTTCCATGATGCTATTTGAGAAGAAATTGT
14867946 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATGTAAGAAATAATTTTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATGTAAGAAATAATTTTTT
14868006 TTGACGTTTCTGAGTAAATAGTATAAAATCGCTTCTTCCATGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGTAAATAGTATAAAATCGCTTCTTCCATGATGCTATTTGAGAAGAAATTGTG
*
14868071 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATGTAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATGTAAGAAATAATTTTTT
14868130 TTGACGTTTCTGAGTAAATAGTATAAAATCGCTTCTTCCATGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGTAAATAGTATAAAATCGCTTCTTCCATGATGCTATTTGAGAAGAAATTGTG
14868195 AAATCGCGCCCTCGTGGACGCGATTTTGCTACA
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACA
14868228 ATAGCAAGTT
Statistics
Matches: 216, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
124 214 0.99
125 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (124 bp):
TTGACGTTTCTGAGTAAATAGTATAAAATCGCTTCTTCCATGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATGTAAGAAATAATTTTTT
Found at i:14871188 original size:55 final size:55
Alignment explanation
Indices: 14871084--14871263 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
14871074 GTTATGTAAC
* *
14871084 ATTATGTAAAATTATTAAG-CCAAAAAAATTTTGTTAATGGTTAGTAAAATTATCAA
1 ATTATGTAAAATTATTAAGTCC--AATAATTGTGTTAATGGTTAGTAAAATTATCAA
*
14871140 ATTATGTAAAATTATTAAGTCCAATAAGTGTGTTAATGGTTAGTAAAATTATCAA
1 ATTATGTAAAATTATTAAGTCCAATAATTGTGTTAATGGTTAGTAAAATTATCAA
14871195 ATTATGTAAAATTATTAAGTCCAATAATTGTGTTAATGGTTAGTAAAATTATCAA
1 ATTATGTAAAATTATTAAGTCCAATAATTGTGTTAATGGTTAGTAAAATTATCAA
*
14871250 ATTATATAAAATTA
1 ATTATGTAAAATTA
14871264 GGTTAGGGTT
Statistics
Matches: 118, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
55 97 0.82
56 19 0.16
57 2 0.02
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (55 bp):
ATTATGTAAAATTATTAAGTCCAATAATTGTGTTAATGGTTAGTAAAATTATCAA
Found at i:14871292 original size:29 final size:29
Alignment explanation
Indices: 14871258--14871633 Score: 556
Period size: 29 Copynumber: 13.3 Consensus size: 29
14871248 AAATTATATA
*
14871258 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTAAGGGTTTTTAATT
*
14871287 AAATTAGGTTAGTGTAAGGGTTTTTAATT
1 AAATTAGGTTAGGGTAAGGGTTTTTAATT
* *
14871316 AAATTATGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTAAGGGTTTTTAATT
*
14871345 -AA--A--TTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTAAGGGTTTTTAATT
*
14871369 AAATTAGGTTAGTGTAAGGGTTTTTAATT
1 AAATTAGGTTAGGGTAAGGGTTTTTAATT
* *
14871398 AAATTATGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTAAGGGTTTTTAATT
*
14871427 -AA--A--TTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTAAGGGTTTTTAATT
*
14871451 AAATTAGGTTAGTGTAAGGGTTTTTAATT
1 AAATTAGGTTAGGGTAAGGGTTTTTAATT
14871480 AAATTAGGTTAGGGTAAGGGTTTTTAATT
1 AAATTAGGTTAGGGTAAGGGTTTTTAATT
14871509 AAATTAGGTTAGGGTAAGGGTTTTTAATT
1 AAATTAGGTTAGGGTAAGGGTTTTTAATT
*
14871538 AAAATTAGGTTAGTGTAAGGGTTTTTAATT
1 -AAATTAGGTTAGGGTAAGGGTTTTTAATT
*
14871568 AAATTAGGTTAGTGTAAGGGTTTTTAATT
1 AAATTAGGTTAGGGTAAGGGTTTTTAATT
*
14871597 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTAAGGGTTTTTAATT
14871626 AAATTAGG
1 AAATTAGG
14871634 ATTTTTATTA
Statistics
Matches: 320, Mismatches: 16, Indels: 22
0.89 0.04 0.06
Matches are distributed among these distances:
24 42 0.13
25 4 0.01
26 2 0.01
27 2 0.01
28 4 0.01
29 238 0.74
30 28 0.09
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.44
Consensus pattern (29 bp):
AAATTAGGTTAGGGTAAGGGTTTTTAATT
Found at i:14871362 original size:82 final size:85
Alignment explanation
Indices: 14871265--14871633 Score: 597
Period size: 82 Copynumber: 4.4 Consensus size: 85
14871255 ATAAAATTAG
*
14871265 GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGTGTAAGGGTTTTTAATTAAATTATGTTAGGG
1 GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGTGTAAGGGTTTTTAATTAAATTAGGTTAGGG
*
14871330 TTAGGGTTTTTAATT-AA-A
66 TAAGGGTTTTTAATTAAATA
*
14871348 -TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGTGTAAGGGTTTTTAATTAAATTATGTTAGGG
1 GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGTGTAAGGGTTTTTAATTAAATTAGGTTAGGG
*
14871412 TTAGGGTTTTTAATT-AA-A
66 TAAGGGTTTTTAATTAAATA
14871430 -TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGTGTAAGGGTTTTTAATTAAATTAGGTTAGGG
1 GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGTGTAAGGGTTTTTAATTAAATTAGGTTAGGG
14871494 TAAGGGTTTTTAATTAAATTA
66 TAAGGGTTTTTAATTAAA-TA
*
14871515 GGTTAGGGTAAGGGTTTTTAATTAAAATTAGGTTAGTGTAAGGGTTTTTAATTAAATTAGGTTAG
1 -GTTAGGGTTAGGGTTTTTAATT-AAATTAGGTTAGTGTAAGGGTTTTTAATTAAATTAGGTTAG
*
14871580 TGTAAGGGTTTTTAATTAAATTA
64 GGTAAGGGTTTTTAATTAAA-TA
14871603 GGTTAGGGTTAGGGTTTTTAATTAAATTAGG
1 -GTTAGGGTTAGGGTTTTTAATTAAATTAGG
14871634 ATTTTTATTA
Statistics
Matches: 275, Mismatches: 5, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
82 159 0.58
83 2 0.01
85 1 0.00
87 28 0.10
88 85 0.31
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (85 bp):
GTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGTGTAAGGGTTTTTAATTAAATTAGGTTAGGG
TAAGGGTTTTTAATTAAATA
Found at i:14873980 original size:31 final size:30
Alignment explanation
Indices: 14873945--14874010 Score: 114
Period size: 31 Copynumber: 2.2 Consensus size: 30
14873935 GCCATTAATG
*
14873945 AAAATATAAAAGAATTTAAAATTATTTTTAA
1 AAAATATAAAAAAATTTAAAATTA-TTTTAA
14873976 AAAATATAAAAAAATTTAAAATTATTTTAA
1 AAAATATAAAAAAATTTAAAATTATTTTAA
14874006 AAAAT
1 AAAAT
14874011 GAAATTGAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 11 0.32
31 23 0.68
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAATTATTTTAA
Found at i:14874077 original size:51 final size:51
Alignment explanation
Indices: 14874011--14874123 Score: 199
Period size: 51 Copynumber: 2.2 Consensus size: 51
14874001 TTTAAAAAAT
*
14874011 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
* *
14874062 GAAATTGAGAGGAAATTTAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
14874113 GAAATTGAGAG
1 GAAATTGAGAG
14874124 AATTAGAGAG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
Found at i:14874568 original size:43 final size:43
Alignment explanation
Indices: 14874475--14874672 Score: 202
Period size: 43 Copynumber: 4.5 Consensus size: 43
14874465 AATAATTTTT
* * * *
14874475 TAAAAGTCATG-TTTTTAGCAGCATTTGTGGTAGAAGCGCCGCGAAGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGGTAGAAGCG-C-C---GC
* * *
14874522 TAAAGGTCATAATCTTTTGCGGCGTTTGTGGTAGAAGC-CTTGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGGTAGAAGCGC-CGC
* * *
14874565 TAAATGTCATGATCCTTAGCTGCGTTTGTGGTAGAAGCGCCGC
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGGTAGAAGCGCCGC
* *
14874608 TAAAGGTCATGATCTTTAGCGGCGTTTGTGGTAGAAGTGCCGT
1 TAAAGGTCATGATCTTTAGCGGCGTTTGTGGTAGAAGCGCCGC
* *
14874651 TAAAGGTCATAATCCTTAGCGG
1 TAAAGGTCATGATCTTTAGCGG
14874673 TATTTTTTCA
Statistics
Matches: 128, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
43 95 0.74
44 1 0.01
46 1 0.01
47 9 0.07
48 22 0.17
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
TAAAGGTCATGATCTTTAGCGGCGTTTGTGGTAGAAGCGCCGC
Found at i:14880023 original size:27 final size:27
Alignment explanation
Indices: 14879965--14880016 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
14879955 ATAGTCCCAA
* *
14879965 CGGACTATCTCCTATTTATTGTCCCGT
1 CGGACTATCTCATATTTAGTGTCCCGT
*
14879992 CGGACTATCTCATGTTTAGTGTCCC
1 CGGACTATCTCATATTTAGTGTCCC
14880017 AGTGGACAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.15, C:0.29, G:0.17, T:0.38
Consensus pattern (27 bp):
CGGACTATCTCATATTTAGTGTCCCGT
Found at i:14880245 original size:45 final size:45
Alignment explanation
Indices: 14880120--14880272 Score: 182
Period size: 45 Copynumber: 3.4 Consensus size: 45
14880110 TCAGCTATAG
* *
14880120 TCTTACTCATTTTTATCATGACACCATAGCATCTTTCAACCATGG
1 TCTTACTCATTTTTATCATGACACCAAAGCATCTTTCAACCATGA
* * * * * *
14880165 TCTTAATCATATTTTTATCATGACTCC-ATGTCATCTTTTAGCTATGA
1 TCTTACTC--ATTTTTATCATGACACCAAAG-CATCTTTCAACCATGA
* *
14880212 TCTTACTCATTTTTATCATGACGCCAAAGCATCTTTCAACCATGG
1 TCTTACTCATTTTTATCATGACACCAAAGCATCTTTCAACCATGA
14880257 TCTTACTCATTTTTAT
1 TCTTACTCATTTTTAT
14880273 GGGTATAGCC
Statistics
Matches: 89, Mismatches: 15, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
45 51 0.57
46 3 0.03
47 35 0.39
ACGTcount: A:0.25, C:0.24, G:0.08, T:0.42
Consensus pattern (45 bp):
TCTTACTCATTTTTATCATGACACCAAAGCATCTTTCAACCATGA
Found at i:14896625 original size:41 final size:41
Alignment explanation
Indices: 14896563--14896671 Score: 146
Period size: 41 Copynumber: 2.7 Consensus size: 41
14896553 TGATCGAATG
* *
14896563 TAATACAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAA
1 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
*
14896604 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGATA
1 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
* * * * *
14896645 CATTTCGGACTATAGGTCTAGCAGGCT
1 TAATTCAGACTTTACGTCTAGCAGGCT
14896672 AAAAGCTGGT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (41 bp):
TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
Found at i:14897048 original size:18 final size:18
Alignment explanation
Indices: 14897025--14897093 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
14897015 TATGATGAAT
14897025 ATGTATATATATATTCGA
1 ATGTATATATATATTCGA
14897043 ATGTATGTATTAGCTATGTATTCGAA
1 ATGTA--TA-TA--TA--TATTCG-A
14897069 TATGTATATATATATTCGA
1 -ATGTATATATATATTCGA
14897088 ATGTAT
1 ATGTAT
14897094 GTATTAGCTA
Statistics
Matches: 42, Mismatches: 0, Indels: 18
0.70 0.00 0.30
Matches are distributed among these distances:
18 11 0.26
19 1 0.02
20 8 0.19
21 2 0.05
22 2 0.05
23 2 0.05
24 2 0.05
25 8 0.19
26 1 0.02
27 5 0.12
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (18 bp):
ATGTATATATATATTCGA
Found at i:14897067 original size:25 final size:25
Alignment explanation
Indices: 14897036--14897110 Score: 106
Period size: 25 Copynumber: 3.2 Consensus size: 25
14897026 TGTATATATA
14897036 TATTCGAATGTATGTATTAGCTATG
1 TATTCGAATGTATGTATTAGCTATG
*
14897061 TATTCGAA--TATGTA-TA--TATA
1 TATTCGAATGTATGTATTAGCTATG
14897081 TATTCGAATGTATGTATTAGCTATG
1 TATTCGAATGTATGTATTAGCTATG
14897106 TATTC
1 TATTC
14897111 AGGTATAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
20 11 0.26
22 8 0.19
23 8 0.19
25 16 0.37
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (25 bp):
TATTCGAATGTATGTATTAGCTATG
Found at i:14897070 original size:45 final size:45
Alignment explanation
Indices: 14897021--14897110 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
14897011 TGTATATGAT
14897021 GAATATGTATATATATATTCGAATGTATGTATTAGCTATGTATTC
1 GAATATGTATATATATATTCGAATGTATGTATTAGCTATGTATTC
14897066 GAATATGTATATATATATTCGAATGTATGTATTAGCTATGTATTC
1 GAATATGTATATATATATTCGAATGTATGTATTAGCTATGTATTC
14897111 AGGTATAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (45 bp):
GAATATGTATATATATATTCGAATGTATGTATTAGCTATGTATTC
Found at i:14897086 original size:20 final size:20
Alignment explanation
Indices: 14897021--14897089 Score: 84
Period size: 20 Copynumber: 3.2 Consensus size: 20
14897011 TGTATATGAT
14897021 GAATATGTATATATATATTC
1 GAATATGTATATATATATTC
*
14897041 GAATGTATGTATTAGCTATGTATTC
1 GAA--TATGTA-TA--TATATATTC
14897066 GAATATGTATATATATATTC
1 GAATATGTATATATATATTC
14897086 GAAT
1 GAAT
14897090 GTATGTATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
20 15 0.36
22 8 0.19
23 8 0.19
25 11 0.26
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.43
Consensus pattern (20 bp):
GAATATGTATATATATATTC
Found at i:14898666 original size:5 final size:5
Alignment explanation
Indices: 14898627--14898651 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
14898617 GTATTGCAAC
14898627 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
14898652 CTCAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:14905381 original size:53 final size:53
Alignment explanation
Indices: 14905318--14905424 Score: 198
Period size: 53 Copynumber: 2.0 Consensus size: 53
14905308 TACTTCTACT
14905318 CCAAGAGTTTGATCTAGAAATTCAGGATCGAAAGGGT-GTAGAAAATCAAGTAG
1 CCAAGAGTTTGATCTAGAAATTCAGGATCGAAA-GGTAGTAGAAAATCAAGTAG
14905371 CCAAGAGTTTGATCTAGAAATTCAGGATCGAAAGGTAGTAGAAAATCAAGTAG
1 CCAAGAGTTTGATCTAGAAATTCAGGATCGAAAGGTAGTAGAAAATCAAGTAG
14905424 C
1 C
14905425 AGACCACTTA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
52 3 0.06
53 50 0.94
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.22
Consensus pattern (53 bp):
CCAAGAGTTTGATCTAGAAATTCAGGATCGAAAGGTAGTAGAAAATCAAGTAG
Found at i:14911898 original size:5 final size:5
Alignment explanation
Indices: 14911855--14911879 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
14911845 GCATTGAAAC
14911855 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
14911880 CTCAGTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:14912302 original size:2 final size:2
Alignment explanation
Indices: 14912295--14912342 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
14912285 ATATCTTTAT
14912295 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
14912337 AC AC AC
1 AC AC AC
14912343 CATAGAACCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:14913338 original size:41 final size:41
Alignment explanation
Indices: 14913260--14913399 Score: 194
Period size: 41 Copynumber: 3.4 Consensus size: 41
14913250 TCATTACTAA
* *
14913260 CCTTTTCGACCTTTTCA-TTGATAT-TTTCTTCAAATATCGT
1 CCTTTTCAACCTTTTCATTTGATATCTTT-TTCAGATATCGT
* * * *
14913300 CATTTCCAACCTTTTCATTTGATATCCTTTTCGGATATCGT
1 CCTTTTCAACCTTTTCATTTGATATCTTTTTCAGATATCGT
*
14913341 CCTTTTCAACCTTTTCATTTGATATCTTTTTCAGATATCAT
1 CCTTTTCAACCTTTTCATTTGATATCTTTTTCAGATATCGT
14913382 CCTTTTCAACCTTTTCAT
1 CCTTTTCAACCTTTTCAT
14913400 AGATTCAGGA
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
40 14 0.16
41 71 0.82
42 2 0.02
ACGTcount: A:0.20, C:0.24, G:0.06, T:0.49
Consensus pattern (41 bp):
CCTTTTCAACCTTTTCATTTGATATCTTTTTCAGATATCGT
Found at i:14913599 original size:20 final size:20
Alignment explanation
Indices: 14913561--14913599 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14913551 AGATATCAAT
*
14913561 TAATATTATAAATTCAAATG
1 TAATATTATAAAATCAAATG
* *
14913581 TAATATTTTAAAATGAAAT
1 TAATATTATAAAATCAAAT
14913600 ACGAACTTAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
TAATATTATAAAATCAAATG
Found at i:14917567 original size:17 final size:17
Alignment explanation
Indices: 14917528--14917570 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
14917518 AACAGAAGTT
14917528 TGCGAGCTCACCAAGAC
1 TGCGAGCTCACCAAGAC
* * *
14917545 TACGAGCTCACCAATAG
1 TGCGAGCTCACCAAGAC
14917562 TGCGAGCTC
1 TGCGAGCTC
14917571 TTTACCTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.28, C:0.33, G:0.23, T:0.16
Consensus pattern (17 bp):
TGCGAGCTCACCAAGAC
Found at i:14921817 original size:15 final size:15
Alignment explanation
Indices: 14921797--14921825 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14921787 ATGCCTCACA
14921797 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
14921812 CACCGTGTTATCAA
1 CACCGTGTTATCAA
14921826 GCAACAGTAC
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:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:14922683 original size:15 final size:15
Alignment explanation
Indices: 14922663--14922691 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14922653 ATGCCTCACA
14922663 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
14922678 CACCGTGTTATCAA
1 CACCGTGTTATCAA
14922692 GCAACAGTAC
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:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:14923550 original size:15 final size:15
Alignment explanation
Indices: 14923530--14923558 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14923520 ATGCCTCACA
14923530 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
14923545 CACCGTGTTATCAA
1 CACCGTGTTATCAA
14923559 GCAACAGTAC
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:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:14923767 original size:867 final size:867
Alignment explanation
Indices: 14921499--14924099 Score: 5098
Period size: 866 Copynumber: 3.0 Consensus size: 867
14921489 AGCCTTGGAT
14921499 AATTTCCAATAAAATCAAAATTATGATTTTTTGCGAAAAACTCATTTTAAAATTTGATTTTGCAT
1 AATTTCCAATAAAATCAAAATTATGATTTTTTGCGAAAAACTCATTTTAAAATTTGATTTTGCAT
14921564 ATTTTAATGGTCAATTAAACTCGATTTAACTACGATTAATTAACATGCATATACATACACCTTCA
66 ATTTTAATGGTCAATTAAACTCGATTTAACTACGATTAATTAACATGCATATACATACACCTTCA
14921629 ATTGAGTTTATTGACATCAATCAAGCCTCAATTATATAGAACTAGGCAATCAATTTCATGCATAT
131 ATTGAGTTTATTGACATCAATCAAGCCTCAATTATATAGAACTAGGCAATCAATTTCATGCATAT
14921694 CAAACACTGAATAAATCAAACAAGTGATGTACCTTAGTTGCTAGTAAACGTCTCCATGGAAGCTT
196 CAAACACTGAATAAATCAAACAAGTGATGTACCTTAGTTGCTAGTAAACGTCTCCATGGAAGCTT
14921759 CATTTAAACAATCGTTAGTACAAATTTCATGCCTCACACACCGTGTTATCAATCACCGTGTTATC
261 CATTTAAACAATCGTTAGTACAAATTTCATGCCTCACACACCGTGTTATCAATCACCGTGTTATC
14921824 AAGCAACAGTACAATGTAAACCATTCAATAATTAAACTCAAACATGCCTAAAAATTATTATAAAA
326 AAGCAACAGTACAATGTAAACCATTCAATAATTAAACTCAAACATGCCTAAAAATTATTATAAAA
14921889 CCATCCAAAATAAAATGTCCAATGTCCAAAATCCAATTACAACCAAAATTAAACTAATTCCCGGG
391 CCATCCAAAATAAAATGTCCAATGTCCAAAATCCAATTACAACCAAAATTAAACTAATTCCCGGG
14921954 AGTTCCAGAATGTCCGATTACAGTCTCTAAAACATGTAATAAAGTATCTACCAAGTCTAAAACTC
456 AGTTCCAGAATGTCCGATTACAGTCTCTAAAACATGTAATAAAGTATCTACCAAGTCTAAAACTC
* *
14922019 TTGGAACTCTCTTGCTTTGCTCCTCAACTCCTCAAGCCCGATGATTATCTGTACAAATTGTGAGG
521 TTGGAACTCTCTTGCTTGGCTCCTCAACTCCTCAAGCCCGATGATTATCTGCACAAATTGTGAGG
14922084 GTGTGAGCTCTAAAACTCTCAGTGAATGTTAATAAAAACGACTAGTAAATCAACATCCAAACCAT
586 GTGTGAGCTCTAAAACTCTCAGTGAATGTTAATAAAAACGACTAGTAAATCAACATCCAAACCAT
14922149 GCTTATATCTCATCCAATCAATCACCAATTATCAACCATAATAATGAAACATGTCAATTTAATTT
651 GCTTATATCTCATCCAATCAATCACCAATTATCAACCATAATAATGAAACATGTCAATTTAATTT
*
14922214 CCATATGCTTTATCAATATCAAGAATCAATTATTTATGGTTTACAAACATCGAATGATATAACAA
716 TCATATGCTTTATCAATATCAAGAATCAATTATTTATGGTTTACAAACATCGAATGATATAACAA
14922279 TAATCACACATAAATATATTGGCATACACTTCTCATGGCTTAATTGGGTGATCATACATCGGATA
781 TAATCACACATAAATATATTGGCATACACTTCTCATGGCTTAATTGGGTGATCATACATCGGATA
*
14922344 AATGAATTTCCAAACTCCGAAA
846 AACGAATTTCCAAACTCCGAAA
14922366 AATTTCCAATAAAATCAAAATTATGA-TTTTTGCGAAAAACTCATTTTAAAATTTGATTTTGCAT
1 AATTTCCAATAAAATCAAAATTATGATTTTTTGCGAAAAACTCATTTTAAAATTTGATTTTGCAT
14922430 ATTTTAATGGTCAATTAAACTCGATTTAACTACGATTAATTAACATGCATATACATACACCTTCA
66 ATTTTAATGGTCAATTAAACTCGATTTAACTACGATTAATTAACATGCATATACATACACCTTCA
14922495 ATTGAGTTTATTGACATCAATCAAGCCTCAATTATATAGAACTAGGCAATCAATTTCATGCATAT
131 ATTGAGTTTATTGACATCAATCAAGCCTCAATTATATAGAACTAGGCAATCAATTTCATGCATAT
14922560 CAAACACTGAATAAATCAAACAAGTGATGTACCTTAGTTGCTAGTAAACGTCTCCATGGAAGCTT
196 CAAACACTGAATAAATCAAACAAGTGATGTACCTTAGTTGCTAGTAAACGTCTCCATGGAAGCTT
14922625 CATTTAAACAATCGTTAGTACAAATTTCATGCCTCACACACCGTGTTATCAATCACCGTGTTATC
261 CATTTAAACAATCGTTAGTACAAATTTCATGCCTCACACACCGTGTTATCAATCACCGTGTTATC
14922690 AAGCAACAGTACAATGTAAACCATTCAATAATTAAACTCAAACATGCCTAAAAATTATTATAAAA
326 AAGCAACAGTACAATGTAAACCATTCAATAATTAAACTCAAACATGCCTAAAAATTATTATAAAA
14922755 CCATCCAAAATAAAATGTCCAATGTCCAAAATCCAATTACAACCAAAATTAAACTAATTCCCGGG
391 CCATCCAAAATAAAATGTCCAATGTCCAAAATCCAATTACAACCAAAATTAAACTAATTCCCGGG
14922820 AGTTCCAGAATGTCCGATTACAGTCTCTAAAACATGTAATAAAGTATCTACCAAGTCTAAAACTC
456 AGTTCCAGAATGTCCGATTACAGTCTCTAAAACATGTAATAAAGTATCTACCAAGTCTAAAACTC
14922885 TTGGAACTCTCTTGCTTGGCTCCTCAACTCCTCAAGCCCGATGATTATCTGCACAAATTGTGAGG
521 TTGGAACTCTCTTGCTTGGCTCCTCAACTCCTCAAGCCCGATGATTATCTGCACAAATTGTGAGG
14922950 GTGTGAGCTCTAAAACTCTCAGTGAATGTTAATAAAAACGACTAGTAAATCAACATCCAAACCAT
586 GTGTGAGCTCTAAAACTCTCAGTGAATGTTAATAAAAACGACTAGTAAATCAACATCCAAACCAT
14923015 GCTTATATCTCATCCAATCAATCACCAATTATCAACCATAATAATGAAACATGTCAATTTAATTT
651 GCTTATATCTCATCCAATCAATCACCAATTATCAACCATAATAATGAAACATGTCAATTTAATTT
14923080 TCATATGCTTTATCAATATCAAGAATCAATTATTTATGGTTTACAAACATCGAATGATATAACAA
716 TCATATGCTTTATCAATATCAAGAATCAATTATTTATGGTTTACAAACATCGAATGATATAACAA
14923145 TAATCACACATAAATATATTGGCATACACTTCTCATGGCTTAATTGGGTGATCATACATCGGATA
781 TAATCACACATAAATATATTGGCATACACTTCTCATGGCTTAATTGGGTGATCATACATCGGATA
14923210 AACGAATTTCCAAACTCCGAAA
846 AACGAATTTCCAAACTCCGAAA
14923232 AATTTCCAATAAAATCAAAATTATGATTTTTTGCGAAAAACTCATTTTAAAATTTGATTTTGCAT
1 AATTTCCAATAAAATCAAAATTATGATTTTTTGCGAAAAACTCATTTTAAAATTTGATTTTGCAT
14923297 ATTTTAATGGTCAATTAAACTCGATTTAACTACGATTAATTAACATGCATATACATACACCTTCA
66 ATTTTAATGGTCAATTAAACTCGATTTAACTACGATTAATTAACATGCATATACATACACCTTCA
14923362 ATTGAGTTTATTGACATCAATCAAGCCTCAATTATATAGAACTAGGCAATCAATTTCATGCATAT
131 ATTGAGTTTATTGACATCAATCAAGCCTCAATTATATAGAACTAGGCAATCAATTTCATGCATAT
14923427 CAAACACTGAATAAATCAAACAAGTGATGTACCTTAGTTGCTAGTAAACGTCTCCATGGAAGCTT
196 CAAACACTGAATAAATCAAACAAGTGATGTACCTTAGTTGCTAGTAAACGTCTCCATGGAAGCTT
14923492 CATTTAAACAATCGTTAGTACAAATTTCATGCCTCACACACCGTGTTATCAATCACCGTGTTATC
261 CATTTAAACAATCGTTAGTACAAATTTCATGCCTCACACACCGTGTTATCAATCACCGTGTTATC
14923557 AAGCAACAGTACAATGTAAACCATTCAATAATTAAACTCAAACATGCCTAAAAATTATTATAAAA
326 AAGCAACAGTACAATGTAAACCATTCAATAATTAAACTCAAACATGCCTAAAAATTATTATAAAA
*
14923622 CCATCCAAAATAAAATGTCCAATGTCCAAAATCCAATTACAACCAAAATTAAACTAATTCCCAGG
391 CCATCCAAAATAAAATGTCCAATGTCCAAAATCCAATTACAACCAAAATTAAACTAATTCCCGGG
*
14923687 AGTTCCAGAATGTCCGATTACAGTCTCTAAAACATGTAATAAAGTGTCTACCAAGTCTAAAACTC
456 AGTTCCAGAATGTCCGATTACAGTCTCTAAAACATGTAATAAAGTATCTACCAAGTCTAAAACTC
14923752 TTGGAACTCTCTTGCTTGGCTCCTCAACTCCTCAAGCCCGATGATTATCTGCACAAATTGTGAGG
521 TTGGAACTCTCTTGCTTGGCTCCTCAACTCCTCAAGCCCGATGATTATCTGCACAAATTGTGAGG
* * *
14923817 GTGTGAGCTCTAAAACTCTCAATGAATGTTAATAAAAACAACTAGTAAATCAACATCCAAAGCAT
586 GTGTGAGCTCTAAAACTCTCAGTGAATGTTAATAAAAACGACTAGTAAATCAACATCCAAACCAT
14923882 GCTTATATCTCATCCAATCAATCACCAATTATCAACCATAATAATGAAACATGTCAATTTAA-TT
651 GCTTATATCTCATCCAATCAATCACCAATTATCAACCATAATAATGAAACATGTCAATTTAATTT
14923946 TCTATATGCTTTATCAATATCAAGAATCAATTATTTATGGTTTACAAACATCGAATGATATAACA
716 TC-ATATGCTTTATCAATATCAAGAATCAATTATTTATGGTTTACAAACATCGAATGATATAACA
14924011 ATAATCACACATAAATATATTGGCATACACTTCTCATGGCTTAATTGGGTGATCATACATCGGAT
780 ATAATCACACATAAATATATTGGCATACACTTCTCATGGCTTAATTGGGTGATCATACATCGGAT
14924076 AAACGAATTTCCAAACTCCGAAA
845 AAACGAATTTCCAAACTCCGAAA
14924099 A
1 A
14924100 TATCAAATAT
Statistics
Matches: 1723, Mismatches: 9, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
866 866 0.50
867 857 0.50
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (867 bp):
AATTTCCAATAAAATCAAAATTATGATTTTTTGCGAAAAACTCATTTTAAAATTTGATTTTGCAT
ATTTTAATGGTCAATTAAACTCGATTTAACTACGATTAATTAACATGCATATACATACACCTTCA
ATTGAGTTTATTGACATCAATCAAGCCTCAATTATATAGAACTAGGCAATCAATTTCATGCATAT
CAAACACTGAATAAATCAAACAAGTGATGTACCTTAGTTGCTAGTAAACGTCTCCATGGAAGCTT
CATTTAAACAATCGTTAGTACAAATTTCATGCCTCACACACCGTGTTATCAATCACCGTGTTATC
AAGCAACAGTACAATGTAAACCATTCAATAATTAAACTCAAACATGCCTAAAAATTATTATAAAA
CCATCCAAAATAAAATGTCCAATGTCCAAAATCCAATTACAACCAAAATTAAACTAATTCCCGGG
AGTTCCAGAATGTCCGATTACAGTCTCTAAAACATGTAATAAAGTATCTACCAAGTCTAAAACTC
TTGGAACTCTCTTGCTTGGCTCCTCAACTCCTCAAGCCCGATGATTATCTGCACAAATTGTGAGG
GTGTGAGCTCTAAAACTCTCAGTGAATGTTAATAAAAACGACTAGTAAATCAACATCCAAACCAT
GCTTATATCTCATCCAATCAATCACCAATTATCAACCATAATAATGAAACATGTCAATTTAATTT
TCATATGCTTTATCAATATCAAGAATCAATTATTTATGGTTTACAAACATCGAATGATATAACAA
TAATCACACATAAATATATTGGCATACACTTCTCATGGCTTAATTGGGTGATCATACATCGGATA
AACGAATTTCCAAACTCCGAAA
Found at i:14950185 original size:45 final size:45
Alignment explanation
Indices: 14950116--14950206 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
14950106 AGATACTCGA
* *
14950116 TGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCCGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
*
14950161 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTTCGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
14950206 T
1 T
14950207 TCACATAGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (45 bp):
TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
Found at i:14950324 original size:47 final size:49
Alignment explanation
Indices: 14950212--14950385 Score: 271
Period size: 47 Copynumber: 3.5 Consensus size: 49
14950202 TCGGTTCACA
* *
14950212 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACC--TATCATTCGATACACG
14950263 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-GATACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCGATACACG
*
14950310 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTTCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-TTCGATACACG
*
14950360 TAGTAGCCTGCACATAGTAGTACACA
1 TAGTAGCCTGCACATAGTACTACACA
14950386 CGTGACCATC
Statistics
Matches: 116, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
47 46 0.40
48 1 0.01
49 5 0.04
50 32 0.28
51 32 0.28
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCGATACACG
Found at i:14958628 original size:13 final size:13
Alignment explanation
Indices: 14958610--14958652 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
14958600 GTTTGCACTT
14958610 CGGTCTAACCACA
1 CGGTCTAACCACA
**
14958623 CGGTCT-TTCACA
1 CGGTCTAACCACA
14958635 CGGTCTAACCACA
1 CGGTCTAACCACA
14958648 CGGTC
1 CGGTC
14958653 GTGTGAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.23, C:0.37, G:0.19, T:0.21
Consensus pattern (13 bp):
CGGTCTAACCACA
Found at i:14960125 original size:13 final size:13
Alignment explanation
Indices: 14960107--14960132 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14960097 GAAAATGTGG
14960107 ATCAGGTTTGGAA
1 ATCAGGTTTGGAA
14960120 ATCAGGTTTGGAA
1 ATCAGGTTTGGAA
14960133 CTCATAGTTA
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:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (13 bp):
ATCAGGTTTGGAA
Found at i:14965062 original size:16 final size:16
Alignment explanation
Indices: 14965041--14965072 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14965031 GTTTTGTTGC
*
14965041 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
14965057 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
14965073 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:14965269 original size:46 final size:43
Alignment explanation
Indices: 14965196--14965294 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 43
14965186 AATAATAACA
*
14965196 GATACACGGTGGATTCAGCACACAGCAACCACCCTTTGTAATCAAT
1 GATAC-CGGTGGATTCAGCACACAGCAACCA-CC-TTATAATCAAT
* *
14965242 GATATCCGGTGGGA-TCAGCACATAGCAACCACCTTATAATTAAT
1 GATA-CCGGT-GGATTCAGCACACAGCAACCACCTTATAATCAAT
14965286 GATACCGGT
1 GATACCGGT
14965295 TCACATAGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
43 5 0.10
44 13 0.27
45 2 0.04
46 24 0.50
47 4 0.08
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (43 bp):
GATACCGGTGGATTCAGCACACAGCAACCACCTTATAATCAAT
Found at i:14965358 original size:51 final size:51
Alignment explanation
Indices: 14965300--14965490 Score: 237
Period size: 51 Copynumber: 3.8 Consensus size: 51
14965290 CCGGTTCACA
* * *
14965300 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTACACG
* * *
14965351 TAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCTGGTACACG
** * *
14965402 TAGTAGCCTATACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCTGGTACACG
14965452 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
14965491 TTCACTTTCA
Statistics
Matches: 117, Mismatches: 17, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
49 4 0.03
50 41 0.35
51 69 0.59
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTACACG
Found at i:14965465 original size:101 final size:102
Alignment explanation
Indices: 14965298--14965482 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
14965288 TACCGGTTCA
* *
14965298 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
14965363 CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
* * *
14965400 CATAGTAGCCTATACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTGC
14965463 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
14965483 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
101 40 0.52
102 33 0.43
103 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
Found at i:14965505 original size:101 final size:102
Alignment explanation
Indices: 14965293--14965516 Score: 276
Period size: 101 Copynumber: 2.2 Consensus size: 102
14965283 AATGATACCG
* *
14965293 GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGC
* **
14965358 CTGCACATAGTACTACACACGTGATCGAAGCTATCTG
66 CTGCACATAGTACTACACACGTGATCCAAGCTATCAC
* * * * *
14965395 GTACGCATAGTAGCCTATACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAG
1 GTTCACATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAG
*
14965458 CCTGCACATAGTACTACACACGTGA-CCATCA-CTTTCAC
65 CCTGCACATAGTACTACACACGTGATCCA--AGCTATCAC
* *
14965496 TTTCACATAGTGGCCTACACA
1 GTTCACATAGTAGCCTACACA
14965517 CAGTCCATGC
Statistics
Matches: 103, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
100 2 0.02
101 60 0.58
102 37 0.36
103 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (102 bp):
GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGC
CTGCACATAGTACTACACACGTGATCCAAGCTATCAC
Found at i:14977203 original size:19 final size:21
Alignment explanation
Indices: 14977181--14977220 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
14977171 TTCTATCCAT
14977181 AAAATA-T-TAAACCATAATC
1 AAAATAGTCTAAACCATAATC
14977200 AAAATATGTCTAAACCATAAT
1 AAAATA-GTCTAAACCATAAT
14977221 TCACTCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.28
Consensus pattern (21 bp):
AAAATAGTCTAAACCATAATC
Found at i:14977982 original size:43 final size:43
Alignment explanation
Indices: 14977875--14977991 Score: 123
Period size: 43 Copynumber: 2.7 Consensus size: 43
14977865 TTCGTACAAC
* * * *
14977875 GCCAACGTCCCAGACGTGATCTTACATGTAATCACAGATCGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGAAAACACAGATCGAT
* * *
14977918 GCC-GCTATCCCGGACAG-GGTCTTACACGAAAACACA-AGTCGAT
1 GCCAAC-GTCCCAGAC-GTGGTCTTACACGAAAACACAGA-TCGAT
14977961 GCCAACGTCCCAGACGTGGTCTTACACGAAA
1 GCCAACGTCCCAGACGTGGTCTTACACGAAA
14977992 TCACTTATCA
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
42 3 0.05
43 54 0.92
44 2 0.03
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACACGAAAACACAGATCGAT
Found at i:14984114 original size:26 final size:26
Alignment explanation
Indices: 14984078--14984169 Score: 130
Period size: 26 Copynumber: 3.5 Consensus size: 26
14984068 CATTAGGACA
*
14984078 TAGCAGGCTTCGAGTTGGTGTATATT
1 TAGCAGGCTTCGAGCTGGTGTATATT
* *
14984104 TAGCCGGCTTCGAGCTGGTGTATTTT
1 TAGCAGGCTTCGAGCTGGTGTATATT
* * *
14984130 TAGTAGGTTTCGTGCTGGTGTATATT
1 TAGCAGGCTTCGAGCTGGTGTATATT
14984156 TAGCAGGCTTCGAG
1 TAGCAGGCTTCGAG
14984170 TCATTGTTTT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.16, C:0.14, G:0.32, T:0.38
Consensus pattern (26 bp):
TAGCAGGCTTCGAGCTGGTGTATATT
Found at i:14989112 original size:12 final size:12
Alignment explanation
Indices: 14989078--14989190 Score: 55
Period size: 12 Copynumber: 9.8 Consensus size: 12
14989068 ATTCTAAAAA
*
14989078 TAATA-TTATTT
1 TAATATTTAATT
14989089 TAATAGTTTAATAT
1 TAATA-TTTAAT-T
14989103 TAA-ATTTAATT
1 TAATATTTAATT
14989114 TAATATTT-ATCT
1 TAATATTTAAT-T
*
14989126 TAATA-GT-ATT
1 TAATATTTAATT
14989136 T--TA-TTAATT
1 TAATATTTAATT
* *
14989145 TAATATTAAAGT
1 TAATATTTAATT
* *
14989157 GATTATCTTAATAT
1 TAATAT-TTAAT-T
14989171 TAA-ATTTAATT
1 TAATATTTAATT
*
14989182 TAATGTTTA
1 TAATATTTA
14989191 TCTTGTAGAT
Statistics
Matches: 78, Mismatches: 12, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
8 3 0.04
9 4 0.05
10 2 0.03
11 20 0.26
12 33 0.42
13 10 0.13
14 6 0.08
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (12 bp):
TAATATTTAATT
Found at i:14989131 original size:37 final size:37
Alignment explanation
Indices: 14989078--14989194 Score: 99
Period size: 37 Copynumber: 3.4 Consensus size: 37
14989068 ATTCTAAAAA
*
14989078 TAATA-TTATTTTAATAGTTTAATATTAAATTTAATT
1 TAATATTTATCTTAATAGTTTAATATTAAATTTAATT
*
14989114 TAATATTTATCTTAATAGTATT-TTATT-AATTTAATAT
1 TAATATTTATCTTAATAGT-TTAATATTAAATTTAAT-T
* * *
14989151 TAA-AGTGA--TT-AT--CTTAATATTAAATTTAATT
1 TAATATTTATCTTAATAGTTTAATATTAAATTTAATT
*
14989182 TAATGTTTATCTT
1 TAATATTTATCTT
14989195 GTAGATAAAC
Statistics
Matches: 64, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
30 2 0.03
31 8 0.12
32 10 0.16
33 2 0.03
34 4 0.06
36 16 0.25
37 20 0.31
38 2 0.03
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (37 bp):
TAATATTTATCTTAATAGTTTAATATTAAATTTAATT
Found at i:14989153 original size:11 final size:11
Alignment explanation
Indices: 14989078--14989153 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
14989068 ATTCTAAAAA
*
14989078 TAATATTATTT
1 TAATATTAATT
14989089 TAATAGTTTAATAT
1 TAATA--TTAAT-T
14989103 TAA-ATTTAATT
1 TAATA-TTAATT
*
14989114 TAATATTTATCT
1 TAATATTAAT-T
*
14989126 TAATAGT-ATT
1 TAATATTAATT
14989136 T--TATTAATT
1 TAATATTAATT
14989145 TAATATTAA
1 TAATATTAA
14989154 AGTGATTATC
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 14 0.26
13 5 0.09
14 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:14991213 original size:9 final size:9
Alignment explanation
Indices: 14991199--14991230 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
14991189 ACATATATTA
14991199 AATTTGGTT
1 AATTTGGTT
14991208 AATTTGGTT
1 AATTTGGTT
*
14991217 AATTCGGTT
1 AATTTGGTT
14991226 AATTT
1 AATTT
14991231 TTTTATCTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.25, C:0.03, G:0.19, T:0.53
Consensus pattern (9 bp):
AATTTGGTT
Found at i:14991362 original size:91 final size:90
Alignment explanation
Indices: 14991206--14991376 Score: 272
Period size: 91 Copynumber: 1.9 Consensus size: 90
14991196 TTAAATTTGG
** * *
14991206 TTAATTTGGTTAATTCGGTTAATTTTTTTATCTGTTTTATACTTGTTTTAACCAAAAAACAAAAA
1 TTAATTTGGTTAATTCAATTAATTTTTTTATATGTGTTATACTTGTTTTAACCAAAAAAC-AAAA
14991271 AATATAAATTTTGGTTATTTCATTCGA
65 AATATAAA-TTTGGTTATTTCATTCGA
*
14991298 TTAATTTGGTTAATTCAATTAA-TTTTTTATATGTGTTATACTTGTTTTAACCAAAAAATAAAAA
1 TTAATTTGGTTAATTCAATTAATTTTTTTATATGTGTTATACTTGTTTTAACCAAAAAACAAAAA
14991362 ATATAAATTTGGTTA
66 ATATAAATTTGGTTA
14991377 AATCGACCGA
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
89 8 0.11
90 12 0.16
91 34 0.46
92 20 0.27
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.47
Consensus pattern (90 bp):
TTAATTTGGTTAATTCAATTAATTTTTTTATATGTGTTATACTTGTTTTAACCAAAAAACAAAAA
ATATAAATTTGGTTATTTCATTCGA
Found at i:14992119 original size:27 final size:27
Alignment explanation
Indices: 14992079--14992131 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
14992069 GCAATCAGTA
*
14992079 TAGTCCACTGAGACAGTAAACATGAGG
1 TAGTCCACTAAGACAGTAAACATGAGG
* *
14992106 TAGTCCGCTAAGACATTAAACATGAG
1 TAGTCCACTAAGACAGTAAACATGAG
14992132 AATTTTAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (27 bp):
TAGTCCACTAAGACAGTAAACATGAGG
Found at i:14995792 original size:24 final size:24
Alignment explanation
Indices: 14995745--14995792 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
14995735 GATGAATTAT
* *
14995745 AATTTAAAGTATATTGGTTGAATA
1 AATTTAAAGTATAATGATTGAATA
14995769 AATTTAAAGTATGAATGATT-AATA
1 AATTTAAAGTAT-AATGATTGAATA
14995793 TACTGTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (24 bp):
AATTTAAAGTATAATGATTGAATA
Found at i:15003093 original size:25 final size:24
Alignment explanation
Indices: 15003057--15003115 Score: 93
Period size: 25 Copynumber: 2.5 Consensus size: 24
15003047 ATAGAAATAA
*
15003057 ATTAA-AAAATGATTATCAATATC
1 ATTAATAAAATGATTATAAATATC
15003080 ATTAATAACAATGATTATAAATATC
1 ATTAATAA-AATGATTATAAATATC
15003105 ATTAATAAAAT
1 ATTAATAAAAT
15003116 CACAATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 5 0.15
24 5 0.15
25 23 0.70
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.36
Consensus pattern (24 bp):
ATTAATAAAATGATTATAAATATC
Found at i:15003411 original size:27 final size:27
Alignment explanation
Indices: 15003365--15003416 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
15003355 TATTAGAGTA
*
15003365 GCCCACGACCGTCTGAGAATTGGGGTT
1 GCCCACGACCCTCTGAGAATTGGGGTT
* *
15003392 GCCCACGACCCTTTGGGAATTGGGG
1 GCCCACGACCCTCTGAGAATTGGGG
15003417 CTAATAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.17, C:0.27, G:0.35, T:0.21
Consensus pattern (27 bp):
GCCCACGACCCTCTGAGAATTGGGGTT
Found at i:15004611 original size:18 final size:17
Alignment explanation
Indices: 15004573--15004622 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 17
15004563 TGTATTATAA
15004573 TATTAATTAATAAAAAT
1 TATTAATTAATAAAAAT
* *
15004590 TATTAGTTATTAAAATAT
1 TATTAATTAATAAAA-AT
*
15004608 TATTATTTAATAAAA
1 TATTAATTAATAAAA
15004623 GTTTAGGGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
TATTAATTAATAAAAAT
Done.