Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 148 of 210
Found at i:44966053 original size:29 final size:29
Alignment explanation
Indices: 44966002--44966059 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
44965992 TGACCTAGAC
**
44966002 GCGTTTTTCTTTAGTGTGCTGACATGGAT
1 GCGTTTTTCTTTAGCCTGCTGACATGGAT
* *
44966031 GCGTTTTTCTTTAGCCTGTTGACCTGGAT
1 GCGTTTTTCTTTAGCCTGCTGACATGGAT
44966060 ATGTTTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.12, C:0.17, G:0.26, T:0.45
Consensus pattern (29 bp):
GCGTTTTTCTTTAGCCTGCTGACATGGAT
Found at i:44966065 original size:29 final size:29
Alignment explanation
Indices: 44966003--44966066 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
44965993 GACCTAGACG
** *
44966003 CGTTTTTCTTTAGTGTGCTGACATGGATG
1 CGTTTTTCTTTAGCCTGCTGACATGGATA
* *
44966032 CGTTTTTCTTTAGCCTGTTGACCTGGATA
1 CGTTTTTCTTTAGCCTGCTGACATGGATA
*
44966061 TGTTTT
1 CGTTTT
44966067 ATTGGTCAGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.12, C:0.16, G:0.23, T:0.48
Consensus pattern (29 bp):
CGTTTTTCTTTAGCCTGCTGACATGGATA
Found at i:44966487 original size:14 final size:14
Alignment explanation
Indices: 44966468--44966503 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
44966458 AAATAAAATT
44966468 TCGAGTTAATCGAA
1 TCGAGTTAATCGAA
*
44966482 TCGAGTTAATTGAA
1 TCGAGTTAATCGAA
*
44966496 TCAAGTTA
1 TCGAGTTA
44966504 TTCAAGTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.33
Consensus pattern (14 bp):
TCGAGTTAATCGAA
Found at i:44966719 original size:19 final size:20
Alignment explanation
Indices: 44966676--44966736 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 20
44966666 CAAAAATTAC
44966676 AAAAAATTCAAAATAATTTTT
1 AAAAAATTCAAAAT-ATTTTT
44966697 --AAAATTCAAAAT-TTTTT
1 AAAAAATTCAAAATATTTTT
* *
44966714 AAAAAATT-ATAATAGTTTT
1 AAAAAATTCAAAATATTTTT
44966733 AAAA
1 AAAA
44966737 TTTTTTCTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
17 5 0.14
18 4 0.11
19 26 0.74
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAAAATTCAAAATATTTTT
Found at i:44970274 original size:28 final size:30
Alignment explanation
Indices: 44970248--44970315 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
44970238 GGGTAACCTA
44970248 ATATAAT-TCAACTTGTGTGAGCAACCTTG
1 ATATAATGTCAACTTGTGTGAGCAACCTTG
* * *
44970277 ATATAATGTTAGCTTGTGTGAGTAACCTTG
1 ATATAATGTCAACTTGTGTGAGCAACCTTG
44970307 ATATAATGT
1 ATATAATGT
44970316 TAGCCTGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
29 7 0.20
30 28 0.80
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (30 bp):
ATATAATGTCAACTTGTGTGAGCAACCTTG
Found at i:44970295 original size:30 final size:30
Alignment explanation
Indices: 44970259--44970332 Score: 121
Period size: 30 Copynumber: 2.5 Consensus size: 30
44970249 TATAATTCAA
44970259 CTTGTGTGAGCAACCTTGATATAATGTTAG
1 CTTGTGTGAGCAACCTTGATATAATGTTAG
*
44970289 CTTGTGTGAGTAACCTTGATATAATGTTAG
1 CTTGTGTGAGCAACCTTGATATAATGTTAG
* *
44970319 CCTGTATGAGCAAC
1 CTTGTGTGAGCAAC
44970333 TTAATCACCC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (30 bp):
CTTGTGTGAGCAACCTTGATATAATGTTAG
Found at i:44973168 original size:25 final size:26
Alignment explanation
Indices: 44973117--44973169 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
44973107 TTAGAATTTT
* *
44973117 ATATTTTCAAAATGTATATCATTTATC
1 ATATTTTCAAAATATATAACA-TTATC
44973144 ATATTTTCAAAATATATAACA-TATC
1 ATATTTTCAAAATATATAACATTATC
44973169 A
1 A
44973170 GAATAAATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
27 19 0.79
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.43
Consensus pattern (26 bp):
ATATTTTCAAAATATATAACATTATC
Found at i:44974176 original size:14 final size:15
Alignment explanation
Indices: 44974145--44974178 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
44974135 AAACTTCATA
44974145 AAAAGAAACAAGAAG
1 AAAAGAAACAAGAAG
44974160 AAAAGAAACAA-AAG
1 AAAAGAAACAAGAAG
44974174 AAAAG
1 AAAAG
44974179 GAAGAATGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.76, C:0.06, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAGAAACAAGAAG
Found at i:44993425 original size:20 final size:19
Alignment explanation
Indices: 44993382--44993439 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
44993372 TTTATAATTC
*
44993382 GTTTTACAATTTTTATAAA
1 GTTTTACAATTTTTATATA
*
44993401 ATTTTACAAATTTTTATATA
1 GTTTTAC-AATTTTTATATA
*
44993421 GTTTTTACAGTTTTTATAT
1 G-TTTTACAATTTTTATAT
44993440 TTTTTTCTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 6 0.18
20 21 0.64
21 6 0.18
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (19 bp):
GTTTTACAATTTTTATATA
Found at i:44994577 original size:26 final size:26
Alignment explanation
Indices: 44994548--44994599 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
44994538 CCTTCCCTTT
*
44994548 CTTCTT-TTGATTCTTCTTTCTTTTTC
1 CTTCTTCTTCATTCTTC-TTCTTTTTC
*
44994574 CTTCTTCTTCATTTTTCTTCTTTTTC
1 CTTCTTCTTCATTCTTCTTCTTTTTC
44994600 ATCTTTCAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.04, C:0.25, G:0.02, T:0.69
Consensus pattern (26 bp):
CTTCTTCTTCATTCTTCTTCTTTTTC
Found at i:44994588 original size:16 final size:16
Alignment explanation
Indices: 44994558--44994606 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
44994548 CTTCTTTTGA
*
44994558 TTCTTCTTTCTTTTTCC
1 TTCTTC-TTCATTTTCC
*
44994575 TTCTTCTTCATTTTTC
1 TTCTTCTTCATTTTCC
*
44994591 TTCTTTTTCATCTTTC
1 TTCTTCTTCAT-TTTC
44994607 AAGTGAGTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 18 0.67
17 9 0.33
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (16 bp):
TTCTTCTTCATTTTCC
Found at i:44995396 original size:62 final size:63
Alignment explanation
Indices: 44995263--44995457 Score: 151
Period size: 62 Copynumber: 3.1 Consensus size: 63
44995253 GTGAGTCTAG
* * * ** * ** * * * *
44995263 GCCGTGTAACTCATTGTTTATTGTCTTGGTGCCACACGGGCA-ATAACACGGGCTTGTGTCTAG
1 GCCGTGTAACTCACTGTTTA-TGACTTAGAACCACACGGCCAGAGGACATGGGCATGTGTCCAA
* * * * *
44995326 GCCATGTAACTCTCTGTTTGTGACTTAGGACCACACGGCCAG-GGACATGGGCGTGTGTCCAA
1 GCCGTGTAACTCACTGTTTATGACTTAGAACCACACGGCCAGAGGACATGGGCATGTGTCCAA
** ** * * *
44995388 GCCGTGTAACTCACTGTTTATGTTTTAGAACCACACGGGTAGAGGACATAGGTAAGTGTCCAA
1 GCCGTGTAACTCACTGTTTATGACTTAGAACCACACGGCCAGAGGACATGGGCATGTGTCCAA
44995451 GCCGTGT
1 GCCGTGT
44995458 GTGTAACACC
Statistics
Matches: 103, Mismatches: 27, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
62 64 0.62
63 39 0.38
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.28
Consensus pattern (63 bp):
GCCGTGTAACTCACTGTTTATGACTTAGAACCACACGGCCAGAGGACATGGGCATGTGTCCAA
Found at i:44996683 original size:23 final size:23
Alignment explanation
Indices: 44996654--44996775 Score: 167
Period size: 23 Copynumber: 5.3 Consensus size: 23
44996644 ATAAGTGCCA
*
44996654 CACTGATATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
44996677 CACTGATATGTAGCC-ATAGCTAC
1 CACTGATATGTAGCCGA-AGCTAC
*
44996700 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
44996723 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
44996746 CACTGA-ATTGTAGCTGAAGCTAT
1 CACTGATA-TGTAGCCGAAGCTAC
44996769 CACTGAT
1 CACTGAT
44996776 CAATAACACT
Statistics
Matches: 89, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
22 2 0.02
23 86 0.97
24 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:44996721 original size:46 final size:46
Alignment explanation
Indices: 44996654--44996775 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
44996644 ATAAGTGCCA
* *
44996654 CACTGATATGTAGCCAAAGCTACCACTGATATGTAGCCATAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCATAGCTAC
*
44996700 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCATAGCTAC
* * *
44996746 CACTGAATTGTAGCTGAAGCTATCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
44996776 CAATAACACT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCATAGCTAC
Found at i:44998143 original size:42 final size:42
Alignment explanation
Indices: 44998096--44998175 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
44998086 GGATATCACA
44998096 GTGTGAACCACAC-GAGCAAGGACACGAGCGTGTGTCCAGGCT
1 GTGTGAACCACACAG-GCAAGGACACGAGCGTGTGTCCAGGCT
*
44998138 GTGTGAACCACACAGGCAAGGACACGAGTGTGTGTCCA
1 GTGTGAACCACACAGGCAAGGACACGAGCGTGTGTCCA
44998176 AGCCATGTGG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
42 35 0.97
43 1 0.03
ACGTcount: A:0.28, C:0.25, G:0.33, T:0.15
Consensus pattern (42 bp):
GTGTGAACCACACAGGCAAGGACACGAGCGTGTGTCCAGGCT
Found at i:45000637 original size:7 final size:7
Alignment explanation
Indices: 45000624--45000679 Score: 76
Period size: 7 Copynumber: 8.0 Consensus size: 7
45000614 ATATCAGAAT
45000624 CAGATAA
1 CAGATAA
*
45000631 TAGATAA
1 CAGATAA
*
45000638 TAGATAA
1 CAGATAA
45000645 CAGATAA
1 CAGATAA
*
45000652 CAGATTA
1 CAGATAA
45000659 CAGATAA
1 CAGATAA
45000666 CAGATAA
1 CAGATAA
*
45000673 CATATAA
1 CAGATAA
45000680 AACGTATAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.55, C:0.11, G:0.12, T:0.21
Consensus pattern (7 bp):
CAGATAA
Found at i:45006933 original size:25 final size:25
Alignment explanation
Indices: 45006901--45006953 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
45006891 CTAAGTACAA
* *
45006901 TTTTAGAAAGTACTAGCTACAGTGT
1 TTTTAGAAAGTACTAACTACAATGT
*
45006926 TTTTAGAAAGTTCTAACTACAATGT
1 TTTTAGAAAGTACTAACTACAATGT
45006951 TTT
1 TTT
45006954 CTAAATTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (25 bp):
TTTTAGAAAGTACTAACTACAATGT
Found at i:45026444 original size:19 final size:19
Alignment explanation
Indices: 45026417--45026471 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
45026407 TAAAGGGTGA
*
45026417 GAAAGTAAAAGTTTAGGGG
1 GAAAATAAAAGTTTAGGGG
*
45026436 GAAAATAAAAAGTTT-TGGG
1 GAAAAT-AAAAGTTTAGGGG
45026455 G--AATAAAAGTTTGAGGG
1 GAAAATAAAAGTTT-AGGG
45026472 AAAGTAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
16 8 0.27
17 3 0.10
18 2 0.07
19 9 0.30
20 8 0.27
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.24
Consensus pattern (19 bp):
GAAAATAAAAGTTTAGGGG
Found at i:45029245 original size:23 final size:24
Alignment explanation
Indices: 45029214--45029258 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
45029204 TTAATGATGG
* *
45029214 TTATATATATATTTATATGTTAAC
1 TTATATATATATATACATGTTAAC
45029238 TTAT-TATATATATACATGTTA
1 TTATATATATATATACATGTTA
45029259 TATGTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (24 bp):
TTATATATATATATACATGTTAAC
Found at i:45029316 original size:15 final size:16
Alignment explanation
Indices: 45029298--45029345 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 16
45029288 ATTTATATGT
45029298 ATAAGTTATAA-AATA
1 ATAAGTTATAATAATA
*
45029313 ATAATACTTATAATAATA
1 AT-A-AGTTATAATAATA
45029331 AT-AGTTATAATAATA
1 ATAAGTTATAATAATA
45029346 GAATAGTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 14 0.50
16 1 0.04
17 7 0.25
18 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (16 bp):
ATAAGTTATAATAATA
Found at i:45029399 original size:23 final size:23
Alignment explanation
Indices: 45029373--45029425 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
45029363 ATGCAAAATT
45029373 AAGAGAAAGAA-GAAAGAAAAGAA
1 AAGAGAAAGAAGGAAAG-AAAGAA
* * *
45029396 AAGAAAAATAAGGAAAGAAAGGA
1 AAGAGAAAGAAGGAAAGAAAGAA
45029419 AAGAGAA
1 AAGAGAA
45029426 CGCACGGGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (23 bp):
AAGAGAAAGAAGGAAAGAAAGAA
Found at i:45029589 original size:16 final size:16
Alignment explanation
Indices: 45029568--45029602 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
45029558 GATTAAGATT
45029568 TTAAAT-GTTGTTAGTA
1 TTAAATAGTT-TTAGTA
45029584 TTAAATAGTTTTAGTA
1 TTAAATAGTTTTAGTA
45029600 TTA
1 TTA
45029603 GGGATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (16 bp):
TTAAATAGTTTTAGTA
Found at i:45030186 original size:16 final size:16
Alignment explanation
Indices: 45030167--45030200 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45030157 AAATTAATAT
* *
45030167 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
45030183 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
45030199 AT
1 AT
45030201 TGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:45032816 original size:41 final size:41
Alignment explanation
Indices: 45032771--45032999 Score: 386
Period size: 41 Copynumber: 5.6 Consensus size: 41
45032761 GGTTTTAAAA
45032771 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
45032812 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
* **
45032853 CCTAGCAGGCTAAGTGCCAGTGATTTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
*
45032894 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
* * *
45032935 CCTAGCAGTCTAAGTGCCGGTGAACTGGATTAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
*
45032976 CCTAGCAGGCTAAGTGCCAGTGAA
1 CCTAGCAGGCTAAGTGCCGGTGAA
45033000 TCTGTTTAAA
Statistics
Matches: 177, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 177 1.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.21
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
Found at i:45036315 original size:20 final size:20
Alignment explanation
Indices: 45036290--45036413 Score: 131
Period size: 20 Copynumber: 6.2 Consensus size: 20
45036280 TGTACGGGAC
*
45036290 TGCACTTCGGTGCCTCTATT
1 TGCACTTCGGTGCCTCTGTT
*
45036310 TGCACTTTGGTGCCTCTGTT
1 TGCACTTCGGTGCCTCTGTT
* ** *
45036330 TCCACTTTAGTGCCTCTGTC
1 TGCACTTCGGTGCCTCTGTT
* *
45036350 TACACTTTGGTGCCTCTGTT
1 TGCACTTCGGTGCCTCTGTT
* * *
45036370 TCCACTTCAGTGCCTCTGTC
1 TGCACTTCGGTGCCTCTGTT
* *
45036390 GGCACTTCGGTGCCTCTGCT
1 TGCACTTCGGTGCCTCTGTT
45036410 TGCA
1 TGCA
45036414 TTTTAATGCT
Statistics
Matches: 86, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 86 1.00
ACGTcount: A:0.09, C:0.31, G:0.21, T:0.39
Consensus pattern (20 bp):
TGCACTTCGGTGCCTCTGTT
Found at i:45036356 original size:40 final size:40
Alignment explanation
Indices: 45036312--45036407 Score: 156
Period size: 40 Copynumber: 2.4 Consensus size: 40
45036302 CCTCTATTTG
* *
45036312 CACTTTGGTGCCTCTGTTTCCACTTTAGTGCCTCTGTCTA
1 CACTTTGGTGCCTCTGTTTCCACTTCAGTGCCTCTGTCGA
*
45036352 CACTTTGGTGCCTCTGTTTCCACTTCAGTGCCTCTGTCGG
1 CACTTTGGTGCCTCTGTTTCCACTTCAGTGCCTCTGTCGA
*
45036392 CACTTCGGTGCCTCTG
1 CACTTTGGTGCCTCTG
45036408 CTTGCATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.08, C:0.32, G:0.21, T:0.39
Consensus pattern (40 bp):
CACTTTGGTGCCTCTGTTTCCACTTCAGTGCCTCTGTCGA
Found at i:45041965 original size:31 final size:31
Alignment explanation
Indices: 45041927--45041994 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
45041917 ACGGATTAAT
45041927 TTGAAATGCTAGAATGGTGAATTAATTTTCA
1 TTGAAATGCTAGAATGGTGAATTAATTTTCA
45041958 TTGAAATGCTAGAATGGTGAATTAATTTTCA
1 TTGAAATGCTAGAATGGTGAATTAATTTTCA
45041989 TT-AAAT
1 TTGAAAT
45041995 ATGTTATGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 4 0.11
31 33 0.89
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.40
Consensus pattern (31 bp):
TTGAAATGCTAGAATGGTGAATTAATTTTCA
Found at i:45044294 original size:31 final size:32
Alignment explanation
Indices: 45044258--45044322 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
45044248 CTTCGATAAT
45044258 TTTAAAGAG-TTTTATTAGAATTAAATTACTC
1 TTTAAAGAGTTTTTATTAGAATTAAATTACTC
* *
45044289 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGAATTAAATTACTC
45044321 TT
1 TT
45044323 GTAATTTGCC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 9 0.29
32 22 0.71
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGAATTAAATTACTC
Found at i:45044874 original size:10 final size:11
Alignment explanation
Indices: 45044859--45044896 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
45044849 TTATTCTTTA
45044859 AAAAAAACAG-
1 AAAAAAACAGC
*
45044869 AAAAAAAAAGC
1 AAAAAAACAGC
45044880 AAAAAAAC-GC
1 AAAAAAACAGC
45044890 AAAAAAA
1 AAAAAAA
45044897 GAAGAAGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 18 0.72
11 7 0.28
ACGTcount: A:0.82, C:0.11, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAACAGC
Found at i:45044895 original size:23 final size:22
Alignment explanation
Indices: 45044869--45044945 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 22
45044859 AAAAAAACAG
*
45044869 AAAAAAAAAGCAAAAAAACGCAA
1 AAAAAAAAAGC-AAAAAGCGCAA
45044892 AAAAAGAAGAAGCAAAAAGCGCAA
1 AAAAA-AA-AAGCAAAAAGCGCAA
45044916 AAAAGAAAAAGCAAAAAGCGCAA
1 AAAA-AAAAAGCAAAAAGCGCAA
45044939 AAAAAAA
1 AAAAAAA
45044946 GTTGCCTACC
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
22 3 0.06
23 24 0.48
24 18 0.36
25 5 0.10
ACGTcount: A:0.74, C:0.12, G:0.14, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAGCAAAAAGCGCAA
Found at i:45050564 original size:31 final size:32
Alignment explanation
Indices: 45050528--45050592 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
45050518 CTTAGATAGT
45050528 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
45050559 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
45050591 TT
1 TT
45050593 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:45054855 original size:18 final size:18
Alignment explanation
Indices: 45054819--45054856 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
45054809 TAATTTCATT
*
45054819 TTTTTTTATTTTTTCTCA
1 TTTTTTTATTTTATCTCA
45054837 TTTTTTTA-TTTATCATCA
1 TTTTTTTATTTTATC-TCA
45054855 TT
1 TT
45054857 AAATTCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTTATTTTATCTCA
Found at i:45061737 original size:37 final size:38
Alignment explanation
Indices: 45061682--45061761 Score: 126
Period size: 37 Copynumber: 2.1 Consensus size: 38
45061672 GAGAAAGTAA
45061682 AAGGAAATAAAAAGGCATTAGTGAATG-AAAACTATAC
1 AAGGAAATAAAAAGGCATTAGTGAATGAAAAACTATAC
* * *
45061719 AAGGTAATAAAGAGGCATTAGTGAATGAAAAAGTATAC
1 AAGGAAATAAAAAGGCATTAGTGAATGAAAAACTATAC
45061757 AAGGA
1 AAGGA
45061762 GCATGATGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
37 25 0.66
38 13 0.34
ACGTcount: A:0.53, C:0.06, G:0.23, T:0.19
Consensus pattern (38 bp):
AAGGAAATAAAAAGGCATTAGTGAATGAAAAACTATAC
Found at i:45063094 original size:25 final size:25
Alignment explanation
Indices: 45063065--45063113 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
45063055 AAAGAAGAAG
45063065 CGAATTTG-ACACTCACCAAAACAAA
1 CGAATTTGCA-ACTCACCAAAACAAA
*
45063090 CGAATTTGCAAGTCACCAAAACAA
1 CGAATTTGCAACTCACCAAAACAA
45063114 TGGAGACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.47, C:0.27, G:0.10, T:0.16
Consensus pattern (25 bp):
CGAATTTGCAACTCACCAAAACAAA
Found at i:45063990 original size:2 final size:2
Alignment explanation
Indices: 45063983--45064014 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
45063973 ATCAAGTTAA
45063983 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45064015 GGAAAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45065995 original size:15 final size:15
Alignment explanation
Indices: 45065975--45066007 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
45065965 CTAAACTAAT
45065975 AAAATTAAACTACGA
1 AAAATTAAACTACGA
*
45065990 AAAATTAAATTACGA
1 AAAATTAAACTACGA
45066005 AAA
1 AAA
45066008 CAAACCTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.09, G:0.06, T:0.21
Consensus pattern (15 bp):
AAAATTAAACTACGA
Found at i:45073963 original size:103 final size:103
Alignment explanation
Indices: 45073719--45074077 Score: 560
Period size: 103 Copynumber: 3.5 Consensus size: 103
45073709 GGTGGATTTC
* **
45073719 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTAGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCACT
*
45073784 TAGCAACCCCC-TTCACATTTCAAAGATATGGTGGAATCA
66 TAGCAACCCCCTTTCACATTT-AAA-ATATGGTGGGATCA
* * **
45073823 GCACTTAACAACCACCAATGAATAGGGGAATTAGCACTTAGCAACCCCTCGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCACT
*
45073888 TAGCAACCCCCTTTCACATTTAAAATACGGTGGGATCA
66 TAGCAACCCCCTTTCACATTTAAAATATGGTGGGATCA
* **
45073926 GCACTTAGCAACCACCAAT-AGGTAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCAC
1 GCACTTAGCAACCACCAATGA-ATAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCAC
45073990 TTAGCAACCCCCTTTCACATTTAAAATATGGTGGGATCA
65 TTAGCAACCCCCTTTCACATTTAAAATATGGTGGGATCA
*
45074029 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCT
45074078 TTATATGCAA
Statistics
Matches: 235, Mismatches: 17, Indels: 7
0.91 0.07 0.03
Matches are distributed among these distances:
102 1 0.00
103 152 0.65
104 73 0.31
105 9 0.04
ACGTcount: A:0.33, C:0.29, G:0.20, T:0.19
Consensus pattern (103 bp):
GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCACT
TAGCAACCCCCTTTCACATTTAAAATATGGTGGGATCA
Found at i:45081552 original size:103 final size:103
Alignment explanation
Indices: 45081303--45081645 Score: 537
Period size: 103 Copynumber: 3.3 Consensus size: 103
45081293 GGTGGATTCC
* ** *
45081303 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACT
*
45081368 TAGCAACCCCC-TTCACATTTCAAAGATATGGTGGAATCA
66 TAGCAACCCCCTTTCACATTT-AAA-ATATGGTGGGATCA
* *
45081407 GCACTTAGAAACCACCAATGAATAGGGGAATTAGCACTTAGCAACCCCTCGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACT
*
45081472 TAGCAACCCCCTTTCACATTTAAAATACGGTGGGATCA
66 TAGCAACCCCCTTTCACATTTAAAATATGGTGGGATCA
* * *
45081510 ACACTTAGCAACCACCAAT-AGGTAGCGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCAC
1 GCACTTAGCAACCACCAATGA-ATAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCAC
45081574 TTAGCAACCCCCTTTCACATTTAAAATATGGTGGGATCA
65 TTAGCAACCCCCTTTCACATTTAAAATATGGTGGGATCA
*
45081613 GCACTTAGCAACCACCAATGAATCGGGGAATCA
1 GCACTTAGCAACCACCAATGAATAGGGGAATCA
45081646 ACACACAGCA
Statistics
Matches: 218, Mismatches: 18, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
102 1 0.00
103 134 0.61
104 74 0.34
105 9 0.04
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (103 bp):
GCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACT
TAGCAACCCCCTTTCACATTTAAAATATGGTGGGATCA
Found at i:45093603 original size:7 final size:7
Alignment explanation
Indices: 45093593--45093637 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
45093583 ATTTTAAGGT
*
45093593 TTATAGA
1 TTATGGA
45093600 TTATGGAA
1 TTATGG-A
*
45093608 TTAGGGA
1 TTATGGA
45093615 TTATGGA
1 TTATGGA
45093622 TTATGGA
1 TTATGGA
*
45093629 TTAGGGA
1 TTATGGA
45093636 TT
1 TT
45093638 CTGGTTTAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (7 bp):
TTATGGA
Found at i:45093618 original size:22 final size:21
Alignment explanation
Indices: 45093593--45093637 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
45093583 ATTTTAAGGT
45093593 TTATAGATTATGGAATTAGGGA
1 TTATAGATTATGG-ATTAGGGA
*
45093615 TTATGGATTATGGATTAGGGA
1 TTATAGATTATGGATTAGGGA
45093636 TT
1 TT
45093638 CTGGTTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (21 bp):
TTATAGATTATGGATTAGGGA
Found at i:45093966 original size:33 final size:35
Alignment explanation
Indices: 45093873--45093967 Score: 99
Period size: 34 Copynumber: 2.8 Consensus size: 35
45093863 GGGGTTAGTA
* *
45093873 GTTAAGGGTTTAGGGTTTGGGGTTT-G-GATTAGAG
1 GTTAAGAG-TTAGGGTTTAGGGTTTAGAGATTAGAG
* *
45093907 GTTAAGAGTTAGTGATTTAGGGTTTAGAGATTCGAG
1 GTTAAGAGTTAG-GGTTTAGGGTTTAGAGATTAGAG
*
45093943 GTT-AG-GTTAGGGTTTAAGGTTTAGA
1 GTTAAGAGTTAGGGTTTAGGGTTTAGA
45093968 TTAATTAGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
33 17 0.33
34 22 0.42
35 3 0.06
36 10 0.19
ACGTcount: A:0.23, C:0.01, G:0.38, T:0.38
Consensus pattern (35 bp):
GTTAAGAGTTAGGGTTTAGGGTTTAGAGATTAGAG
Found at i:45098297 original size:17 final size:17
Alignment explanation
Indices: 45098272--45098305 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
45098262 TTAATTTTCA
45098272 TAAAAATTTTAATTTAT
1 TAAAAATTTTAATTTAT
* *
45098289 TAAATATTTTTATTTAT
1 TAAAAATTTTAATTTAT
45098306 CATTAAAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TAAAAATTTTAATTTAT
Found at i:45098462 original size:43 final size:43
Alignment explanation
Indices: 45098413--45098597 Score: 289
Period size: 43 Copynumber: 4.3 Consensus size: 43
45098403 AGGTTATGTT
* * * *
45098413 TTTAGCGGCGTTTTTGCGAAAAGCGTCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
45098456 TTTAGCGGCGTTTGTGGGAAAGGCGCCCCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
45098499 TTTAGCGGCGTTTGTGGGAGAAGTGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
45098542 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
45098585 TTTAGCAGCGTTT
1 TTTAGCGGCGTTT
45098598 TTTTCTAAAA
Statistics
Matches: 129, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 129 1.00
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:45099265 original size:20 final size:20
Alignment explanation
Indices: 45099222--45099266 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
45099212 ATGCTAGGCG
*
45099222 GTGTGGAGGTCTACACGCCC
1 GTGTGGAGGTCTACACACCC
* *
45099242 GTGTGGTGGTCTACACACCT
1 GTGTGGAGGTCTACACACCC
45099262 GTGTG
1 GTGTG
45099267 CAAGTTTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.13, C:0.24, G:0.36, T:0.27
Consensus pattern (20 bp):
GTGTGGAGGTCTACACACCC
Found at i:45109817 original size:50 final size:50
Alignment explanation
Indices: 45109734--45109865 Score: 158
Period size: 50 Copynumber: 2.6 Consensus size: 50
45109724 ATGACATATT
* * * * *
45109734 CTGTGAAGCCCTTATGGCCAACTATCTGTAAAGCCTTTGTGGCGAACTCA
1 CTGTGAAGCCTTTGTGGCAAACTCTCTGTAAAGCCTTTGTGGCAAACTCA
*
45109784 CTGTGCAA-CCTTTGTGGCAAACTCTCTGTAAAGCCTTTGTGGCAAACTCT
1 CTGTG-AAGCCTTTGTGGCAAACTCTCTGTAAAGCCTTTGTGGCAAACTCA
* ** *
45109834 TTGTGAAGCCTTTGTGGTGAACTCTCTATAAA
1 CTGTGAAGCCTTTGTGGCAAACTCTCTGTAAA
45109866 ATCTTCTTGG
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
49 2 0.03
50 66 0.94
51 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (50 bp):
CTGTGAAGCCTTTGTGGCAAACTCTCTGTAAAGCCTTTGTGGCAAACTCA
Found at i:45109856 original size:25 final size:25
Alignment explanation
Indices: 45109733--45109860 Score: 141
Period size: 25 Copynumber: 5.1 Consensus size: 25
45109723 CATGACATAT
* * * *
45109733 TCTGTGAAGCCCTTATGGCCAACTA
1 TCTGTGAAGCCTTTGTGGCAAACTC
* *
45109758 TCTGTAAAGCCTTTGTGGCGAACTC
1 TCTGTGAAGCCTTTGTGGCAAACTC
*
45109783 ACTGTGCAA-CCTTTGTGGCAAACTC
1 TCTGTG-AAGCCTTTGTGGCAAACTC
*
45109808 TCTGTAAAGCCTTTGTGGCAAACTC
1 TCTGTGAAGCCTTTGTGGCAAACTC
* **
45109833 TTTGTGAAGCCTTTGTGGTGAACTC
1 TCTGTGAAGCCTTTGTGGCAAACTC
45109858 TCT
1 TCT
45109861 ATAAAATCTT
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
24 2 0.02
25 82 0.95
26 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (25 bp):
TCTGTGAAGCCTTTGTGGCAAACTC
Found at i:45119710 original size:21 final size:20
Alignment explanation
Indices: 45119684--45119723 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
45119674 TAGATGAAAT
*
45119684 TAATTTCTTGGAATTATTATC
1 TAATTTATTGGAATT-TTATC
*
45119705 TAATTTATTGTAATTTTAT
1 TAATTTATTGGAATTTTAT
45119724 AATTAAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (20 bp):
TAATTTATTGGAATTTTATC
Found at i:45119914 original size:28 final size:28
Alignment explanation
Indices: 45119861--45119914 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
45119851 GAGAAAATAA
* *
45119861 TTTAATTAAGTGAATTAATTAAATTTAT
1 TTTAATTAAGTGAAATAAATAAATTTAT
*
45119889 TTTAATTAA-TTAAATAAATAATATTT
1 TTTAATTAAGTGAAATAAATAA-ATTT
45119915 TTGGAATAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (28 bp):
TTTAATTAAGTGAAATAAATAAATTTAT
Found at i:45121571 original size:90 final size:90
Alignment explanation
Indices: 45121440--45121642 Score: 309
Period size: 90 Copynumber: 2.3 Consensus size: 90
45121430 TTAAACTTTA
* * * *
45121440 AAAAAAAAAATTAAGTCCTTCCTTTTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGC
1 AAAAAAACAATTAAGCCCCTGCTTTTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGC
* *
45121505 ATCAAAAAGGCCCTCAAACTTCTTC
66 ATCAAAAAGACCCTCAAAATTCTTC
* *
45121530 AAAAAAAGCAATTAAGCCCCTGCTTTTTTTTTT-CACTCAATTGGGTACTTGAACTTTCAAAATG
1 AAAAAAA-CAATTAAGCCCCTGCTTTTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATG
*
45121594 CATCAAAAAGACCCTCAAAATTTTTC
65 CATCAAAAAGACCCTCAAAATTCTTC
45121620 AAAAAAACAATTAAGCCCCTGCT
1 AAAAAAACAATTAAGCCCCTGCT
45121643 CTTATTAAAA
Statistics
Matches: 103, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
89 16 0.16
90 66 0.64
91 21 0.20
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (90 bp):
AAAAAAACAATTAAGCCCCTGCTTTTTTTTTTGCACTCAATTGAGCACTTGAACTTTCAAAATGC
ATCAAAAAGACCCTCAAAATTCTTC
Found at i:45121693 original size:18 final size:19
Alignment explanation
Indices: 45121670--45121718 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
45121660 AAAAATGATA
45121670 AAAAATAATAAATTTT-AG
1 AAAAATAATAAATTTTAAG
* *
45121688 AAAAATTATTAAATTTTAAT
1 AAAAA-TAATAAATTTTAAG
45121708 AAAAAT-ATAAA
1 AAAAATAATAAA
45121719 AAATTACAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 9 0.35
19 11 0.42
20 6 0.23
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAATAATAAATTTTAAG
Found at i:45121718 original size:47 final size:47
Alignment explanation
Indices: 45121660--45121770 Score: 122
Period size: 46 Copynumber: 2.4 Consensus size: 47
45121650 AAAATTAGAA
* *
45121660 AAAAATGATAAAAAATAATA-AATTT-TAGAAAAATTATTAA-ATTTTAAT
1 AAAAATCATAAAAAAT--TACAATTTAT-GAAAAATTA-CAATATTTTAAT
* *
45121708 AAAAAT-ATAAAAAATTACAATTTATTAAAAATTACAATTTTTTAAT
1 AAAAATCATAAAAAATTACAATTTATGAAAAATTACAATATTTTAAT
45121754 AAAAATCATAAAAAATT
1 AAAAATCATAAAAAATT
45121771 TGTAAAATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
45 4 0.07
46 26 0.46
47 20 0.36
48 6 0.11
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (47 bp):
AAAAATCATAAAAAATTACAATTTATGAAAAATTACAATATTTTAAT
Found at i:45121739 original size:17 final size:17
Alignment explanation
Indices: 45121717--45121752 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
45121707 TAAAAATATA
45121717 AAAAATTACAATTTATT
1 AAAAATTACAATTTATT
*
45121734 AAAAATTACAATTTTTT
1 AAAAATTACAATTTATT
45121751 AA
1 AA
45121753 TAAAAATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAAATTACAATTTATT
Found at i:45121769 original size:30 final size:30
Alignment explanation
Indices: 45121734--45121798 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
45121724 ACAATTTATT
**
45121734 AAAAA-TTACAATTTTTTAATAAAAATCATA
1 AAAAATTTACAAAATTTT-ATAAAAATCATA
**
45121764 AAAAATTTGTAAAATTTTATAAAAATCATA
1 AAAAATTTACAAAATTTTATAAAAATCATA
45121794 AAAAA
1 AAAAA
45121799 ATTAATGACC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 22 0.73
31 8 0.27
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.34
Consensus pattern (30 bp):
AAAAATTTACAAAATTTTATAAAAATCATA
Found at i:45134863 original size:2 final size:2
Alignment explanation
Indices: 45134856--45134883 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
45134846 AGTGAAATGG
45134856 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45134884 GATAGTGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45137639 original size:17 final size:18
Alignment explanation
Indices: 45137607--45137642 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
45137597 CAATTTTTGA
45137607 AAAAATATCATAATTTTT
1 AAAAATATCATAATTTTT
*
45137625 AAAAATA-CATTATTTTT
1 AAAAATATCATAATTTTT
45137642 A
1 A
45137643 TAATAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAAATATCATAATTTTT
Found at i:45141212 original size:11 final size:11
Alignment explanation
Indices: 45141196--45141222 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
45141186 TTTGATATTT
45141196 TAATTGAGTTC
1 TAATTGAGTTC
45141207 TAATTGAGTTC
1 TAATTGAGTTC
45141218 TAATT
1 TAATT
45141223 AATGATGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (11 bp):
TAATTGAGTTC
Found at i:45141577 original size:440 final size:440
Alignment explanation
Indices: 45140756--45141640 Score: 1554
Period size: 440 Copynumber: 2.0 Consensus size: 440
45140746 AATACTCTAG
*
45140756 TAATTGAGCTCTAATCAAATTCTAATTAATGATGGACTAGTTAGGAATTAGAACCAATATGCCAA
1 TAATTGAGCTCTAATCAAATTCTAATTAATGATGGACTAATTAGGAATTAGAACCAATATGCCAA
*
45140821 TGTTATAAATATTGGGGTTATGGTCCTCAAATTAAACACAAGATATCTTTTTTAGTATCCCATCC
66 TGTTATAAATATTGGGGTTATGGTCCTCAAATTAAACACAAAATATCTTTTTTAGTATCCCATCC
*
45140886 TTAGCAAAGAGAGAGCAAATATTCTCTGAAGTTCTTATGTGCTAATTTGGAAGATCAAATCCCCA
131 TTAGCAAAGAGAGAGCAAATATTCTCTGAAGTTCTTATGTACTAATTTGGAAGATCAAATCCCCA
* *
45140951 AGATCCGTAGATTTCAAGGAATTCATGGATTCAGGTACGCTGTTGCATCTAATTTTGTTCTTGAT
196 AGATCCGTAGATTTCAAGGAATTCATAGATTCAAGTACGCTGTTGCATCTAATTTTGTTCTTGAT
*
45141016 TTATTCATGATGATTTGACATGATAGATCATGGTTTATTAAGTTTTATTTTAGATTTATTTTACA
261 TTATTCATGATGATTTGACATGATAGATCATGATTTATTAAGTTTTATTTTAGATTTATTTTACA
45141081 AATCTAACAAGTGGTATCAGAGTTTTGTCACGTTGAATCATTGCGAATGAATTGATTCTTTATTA
326 AATCTAACAAGTGGTATCAGAGTTTTGTCACGTTGAATCATTGCGAATGAATTGATTCTTTATTA
45141146 TTTTTGGATTGATTCGTTTTTCTTTTTTTAATTTTATGGATTTGATATTT
391 TTTTTGGATTGATTCGTTTTTCTTTTTTTAATTTTATGGATTTGATATTT
* ** * *
45141196 TAATTGAGTTCTAATTGAGTTCTAATTAATGATGGACTAATTAGGAATTAGAACTAATATGCCAA
1 TAATTGAGCTCTAATCAAATTCTAATTAATGATGGACTAATTAGGAATTAGAACCAATATGCCAA
* *
45141261 TGTTATAAATATTGGGGTTATGGTCTTCAAATTACACACAAAATATCTTTTTTAGTATCCCATCC
66 TGTTATAAATATTGGGGTTATGGTCCTCAAATTAAACACAAAATATCTTTTTTAGTATCCCATCC
* * * *
45141326 TTAGTAAAGAGAGAGCAAATATTCTCTGAATTTCTTATGTACTAATTTGGAAGATCAAATTCTCA
131 TTAGCAAAGAGAGAGCAAATATTCTCTGAAGTTCTTATGTACTAATTTGGAAGATCAAATCCCCA
*
45141391 AGATCCGTAGATTTCAAGGAATTCATAGATTCAAGTACGTTGTTGCATCTAATTTTGTTCTTGAT
196 AGATCCGTAGATTTCAAGGAATTCATAGATTCAAGTACGCTGTTGCATCTAATTTTGTTCTTGAT
* * *
45141456 TTATTCTTGATGATTTGACATGATAGATCTTGATTTATTAAGTTTTATTTTAGATTTATTTTATA
261 TTATTCATGATGATTTGACATGATAGATCATGATTTATTAAGTTTTATTTTAGATTTATTTTACA
* *
45141521 AATCTAGCAAGTGGTATCAGAGTTTTGTCATGTTGAATCATTGCGAATGAATTGATTCTTTATTA
326 AATCTAACAAGTGGTATCAGAGTTTTGTCACGTTGAATCATTGCGAATGAATTGATTCTTTATTA
*
45141586 TTTTTGGATTGTTTCGTTTTTCTTTTTTTAATTTTATGGATTTGATATTT
391 TTTTTGGATTGATTCGTTTTTCTTTTTTTAATTTTATGGATTTGATATTT
45141636 TAATT
1 TAATT
45141641 ATTTATTATG
Statistics
Matches: 421, Mismatches: 24, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
440 421 1.00
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (440 bp):
TAATTGAGCTCTAATCAAATTCTAATTAATGATGGACTAATTAGGAATTAGAACCAATATGCCAA
TGTTATAAATATTGGGGTTATGGTCCTCAAATTAAACACAAAATATCTTTTTTAGTATCCCATCC
TTAGCAAAGAGAGAGCAAATATTCTCTGAAGTTCTTATGTACTAATTTGGAAGATCAAATCCCCA
AGATCCGTAGATTTCAAGGAATTCATAGATTCAAGTACGCTGTTGCATCTAATTTTGTTCTTGAT
TTATTCATGATGATTTGACATGATAGATCATGATTTATTAAGTTTTATTTTAGATTTATTTTACA
AATCTAACAAGTGGTATCAGAGTTTTGTCACGTTGAATCATTGCGAATGAATTGATTCTTTATTA
TTTTTGGATTGATTCGTTTTTCTTTTTTTAATTTTATGGATTTGATATTT
Found at i:45154447 original size:26 final size:26
Alignment explanation
Indices: 45154391--45154448 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
45154381 TTTTAATTAA
* *
45154391 GAAAATTACTTAAAAATAATATAGTT
1 GAAAATTAATTAAAAACAATATAGTT
* *
45154417 TAAAATTAATTAATAAACATTATA-TT
1 GAAAATTAATTAA-AAACAATATAGTT
45154443 GAAAAT
1 GAAAAT
45154449 AGGGGTGTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.36
Consensus pattern (26 bp):
GAAAATTAATTAAAAACAATATAGTT
Found at i:45158129 original size:28 final size:28
Alignment explanation
Indices: 45158064--45158256 Score: 164
Period size: 28 Copynumber: 6.9 Consensus size: 28
45158054 ATTCAATGTA
* * * *
45158064 CGCCGCAAAGGCTTTCC-TCTCAAGATT
1 CGCCACAAAGGCTTTCCTTTTTATGATT
*
45158091 CGCCACGAAGGCTTTCCTTTTTATGATT
1 CGCCACAAAGGCTTTCCTTTTTATGATT
45158119 CGCCACAAAGGCTATT-CTTTTTATGATT
1 CGCCACAAAGGCT-TTCCTTTTTATGATT
* *
45158147 CACCACAAAGGCTTTCCTTTCTATGAATT
1 CGCCACAAAGGCTTTCCTTTTTATG-ATT
* *
45158176 -GTCACAAAAGCTTTCCTTTTTATGATT
1 CGCCACAAAGGCTTTCCTTTTTATGATT
** *
45158203 CGTCC-CAAAGG-TTATTATTTTTATGAAT
1 CG-CCACAAAGGCTT-TCCTTTTTATGATT
* * *
45158231 CACCATAAAGG-TTTATCTTTTTATGA
1 CGCCACAAAGGCTTT-CCTTTTTATGA
45158257 ATCACCACTA
Statistics
Matches: 137, Mismatches: 20, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
27 25 0.18
28 106 0.77
29 6 0.04
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.38
Consensus pattern (28 bp):
CGCCACAAAGGCTTTCCTTTTTATGATT
Found at i:45158212 original size:84 final size:84
Alignment explanation
Indices: 45158101--45158258 Score: 230
Period size: 84 Copynumber: 1.9 Consensus size: 84
45158091 CGCCACGAAG
* *
45158101 GCTTTCCTTTTTATGATTCGCCACAAAGGCTATTCTTTTTATGATTCACCACAAAGGCTTT-CCT
1 GCTTTCCTTTTTATGATTCGCCACAAAGGCTATTATTTTTATGAATCACCACAAAGG-TTTACCT
45158165 TTCTATGAATTGTCACAAAA
65 TTCTATGAATTGTCACAAAA
* * *
45158185 GCTTTCCTTTTTATGATTCGTCC-CAAAGGTTATTATTTTTATGAATCACCATAAAGGTTTATCT
1 GCTTTCCTTTTTATGATTCG-CCACAAAGGCTATTATTTTTATGAATCACCACAAAGGTTTACCT
*
45158249 TTTTATGAAT
65 TTCTATGAAT
45158259 CACCACTATG
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
83 3 0.05
84 61 0.92
85 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.43
Consensus pattern (84 bp):
GCTTTCCTTTTTATGATTCGCCACAAAGGCTATTATTTTTATGAATCACCACAAAGGTTTACCTT
TCTATGAATTGTCACAAAA
Found at i:45159652 original size:15 final size:15
Alignment explanation
Indices: 45159632--45159663 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
45159622 AAGTTCCAAG
45159632 TTTGATTCCTTTCCC
1 TTTGATTCCTTTCCC
45159647 TTTGATTCCTTTCCC
1 TTTGATTCCTTTCCC
45159662 TT
1 TT
45159664 GCAAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.31, G:0.06, T:0.56
Consensus pattern (15 bp):
TTTGATTCCTTTCCC
Found at i:45166748 original size:14 final size:15
Alignment explanation
Indices: 45166731--45166771 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
45166721 TTATTTATTA
45166731 AATTAATTTT-AATT
1 AATTAATTTTCAATT
45166745 AATTAATTTTTCAATT
1 AATTAA-TTTTCAATT
*
45166761 AAATAATTTTC
1 AATTAATTTTC
45166772 TCAACCCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 9 0.38
16 9 0.38
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
AATTAATTTTCAATT
Found at i:45166762 original size:16 final size:16
Alignment explanation
Indices: 45166731--45166775 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
45166721 TTATTTATTA
45166731 AATTAA-TTTT-AATT
1 AATTAATTTTTCAATT
45166745 AATTAATTTTTCAATT
1 AATTAATTTTTCAATT
*
45166761 AAATAATTTTCTCAA
1 AATTAATTTT-TCAA
45166776 CCCAATTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 6 0.22
15 4 0.15
16 13 0.48
17 4 0.15
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTAATTTTTCAATT
Found at i:45195393 original size:24 final size:22
Alignment explanation
Indices: 45195343--45195402 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 22
45195333 TAACAAAAGA
*
45195343 GAAAAAGAAAG-AAGAGCAATC
1 GAAAAAGAAAGAAAGACCAATC
*
45195364 GGAAAAGAAAGAAAGAACCCAATC
1 GAAAAAGAAAGAAAG-A-CCAATC
45195388 GAAAAAGGAAA-AAAG
1 GAAAAA-GAAAGAAAG
45195403 GAAAACCTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 10 0.31
22 3 0.09
23 1 0.03
24 14 0.44
25 4 0.12
ACGTcount: A:0.63, C:0.10, G:0.23, T:0.03
Consensus pattern (22 bp):
GAAAAAGAAAGAAAGACCAATC
Found at i:45198474 original size:17 final size:17
Alignment explanation
Indices: 45198449--45198482 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45198439 CACTAACATT
45198449 AAAAGGCAATGACAATG
1 AAAAGGCAATGACAATG
*
45198466 AAAATGCAATGACAATG
1 AAAAGGCAATGACAATG
45198483 TATACTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.12, G:0.21, T:0.15
Consensus pattern (17 bp):
AAAAGGCAATGACAATG
Found at i:45198929 original size:18 final size:18
Alignment explanation
Indices: 45198906--45198942 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
45198896 TCTTTTTTTT
45198906 CTTTCTCATT-TTCAGCAA
1 CTTTCTC-TTGTTCAGCAA
45198924 CTTTCTCTTGTTCAGCAA
1 CTTTCTCTTGTTCAGCAA
45198942 C
1 C
45198943 AACTTCCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.19, C:0.30, G:0.08, T:0.43
Consensus pattern (18 bp):
CTTTCTCTTGTTCAGCAA
Found at i:45203613 original size:23 final size:23
Alignment explanation
Indices: 45203587--45203634 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
45203577 TAGAAAGACA
* * *
45203587 TATTGTAATATCCCAAAAATTAC
1 TATTGAAATACCCCAAAAACTAC
*
45203610 TATTGAAATACCCCGAAAACTAC
1 TATTGAAATACCCCAAAAACTAC
45203633 TA
1 TA
45203635 CAGTCAGAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (23 bp):
TATTGAAATACCCCAAAAACTAC
Found at i:45206269 original size:15 final size:15
Alignment explanation
Indices: 45206249--45206279 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45206239 ACACTAAAGG
45206249 TGACTTGCTCATCAT
1 TGACTTGCTCATCAT
45206264 TGACTTGCTCATCAT
1 TGACTTGCTCATCAT
45206279 T
1 T
45206280 AAGTCGTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.42
Consensus pattern (15 bp):
TGACTTGCTCATCAT
Found at i:45226594 original size:18 final size:19
Alignment explanation
Indices: 45226573--45226612 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
45226563 TTTTTTTAGA
45226573 TTTTCCAAAAATAATTT-T
1 TTTTCCAAAAATAATTTCT
**
45226591 TTTTTGAAAAATAATTTCT
1 TTTTCCAAAAATAATTTCT
45226610 TTT
1 TTT
45226613 GTTTTTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (19 bp):
TTTTCCAAAAATAATTTCT
Found at i:45226613 original size:17 final size:18
Alignment explanation
Indices: 45226579--45226613 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
45226569 TAGATTTTCC
*
45226579 AAAAATAATTTTTTTTTG
1 AAAAATAATTTTCTTTTG
45226597 AAAAATAA-TTTCTTTTG
1 AAAAATAATTTTCTTTTG
45226614 TTTTTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (18 bp):
AAAAATAATTTTCTTTTG
Found at i:45229781 original size:19 final size:18
Alignment explanation
Indices: 45229753--45229794 Score: 75
Period size: 19 Copynumber: 2.3 Consensus size: 18
45229743 ACTTATGTAG
45229753 TTTTTAATTTTGAATTAT
1 TTTTTAATTTTGAATTAT
45229771 TTTTATAATTTTGAATTAT
1 TTTT-TAATTTTGAATTAT
45229790 TTTTT
1 TTTTT
45229795 GATGTGAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (18 bp):
TTTTTAATTTTGAATTAT
Found at i:45232534 original size:24 final size:25
Alignment explanation
Indices: 45232507--45232553 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
45232497 ACTGGTCATA
*
45232507 GAGAGAATTGAGGA-AGCATATTTG
1 GAGAGAATTGAGGAGAGAATATTTG
*
45232531 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAGAGAATATT
45232554 GGGATTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.38, C:0.02, G:0.34, T:0.26
Consensus pattern (25 bp):
GAGAGAATTGAGGAGAGAATATTTG
Found at i:45232555 original size:24 final size:24
Alignment explanation
Indices: 45232507--45232566 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
45232497 ACTGGTCATA
* *
45232507 GAGAGAATTGAGGA-AGCATATTT
1 GAGAGATTTGAGGAGAGAATATTT
45232530 GGAGAGATTTGAGGAGAGAATA-TT
1 -GAGAGATTTGAGGAGAGAATATTT
45232554 G-G-GATTTGAGGAG
1 GAGAGATTTGAGGAG
45232567 GTTGTTGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 11 0.33
22 1 0.03
23 1 0.03
24 15 0.45
25 5 0.15
ACGTcount: A:0.35, C:0.02, G:0.38, T:0.25
Consensus pattern (24 bp):
GAGAGATTTGAGGAGAGAATATTT
Found at i:45233171 original size:27 final size:27
Alignment explanation
Indices: 45233133--45233433 Score: 442
Period size: 27 Copynumber: 11.2 Consensus size: 27
45233123 TTACACTATT
* **
45233133 ATGACCAAAATACCTTCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
45233160 ATGACCGAAATACCCCCATAAGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * * *
45233187 ATGAACAAAATACCCTCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
45233214 ATGACC-AAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
45233240 ATGACCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
45233267 ATGACTGAAATACCCTCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
45233294 ATGACCGAAATACCCTCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
45233321 ATGACCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
45233348 ATGACTGAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
45233375 ATGATCGAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
45233402 ATGACCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
45233429 ATGAC
1 ATGAC
45233434 TGTTATGGCT
Statistics
Matches: 251, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
26 25 0.10
27 226 0.90
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.18
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTAAA
Found at i:45241453 original size:66 final size:66
Alignment explanation
Indices: 45241344--45241467 Score: 178
Period size: 66 Copynumber: 1.9 Consensus size: 66
45241334 AATTGGATGC
* * * *
45241344 GTTTTCAGAAAATTTTGTAAGAAAACGCTTCTAGTTGGTTGCGCTTTTCTGCTCAGTCTTGGACG
1 GTTTTCAGAAAATTTTGTAAGAAAACGCTTCCAGCTGGATGCGCTTTCCTGCTCAGTCTTGGACG
45241409 T
66 T
* *
45241410 GTTTTCA-ACAAATTTTGTAAGAAAATGCTTCCAGCTGGATGCGCTTTCCTGTTCAGTC
1 GTTTTCAGA-AAATTTTGTAAGAAAACGCTTCCAGCTGGATGCGCTTTCCTGCTCAGTC
45241468 AGCAAAGCTC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
65 1 0.02
66 50 0.98
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.38
Consensus pattern (66 bp):
GTTTTCAGAAAATTTTGTAAGAAAACGCTTCCAGCTGGATGCGCTTTCCTGCTCAGTCTTGGACG
T
Found at i:45241647 original size:11 final size:11
Alignment explanation
Indices: 45241603--45241663 Score: 68
Period size: 11 Copynumber: 5.5 Consensus size: 11
45241593 CAAATTTCCC
*
45241603 TCTCTCTCGAT
1 TCTCTCTCAAT
* *
45241614 TCACTCTCAAC
1 TCTCTCTCAAT
45241625 TCTCTCTCAAT
1 TCTCTCTCAAT
*
45241636 TCTCTCTTAAT
1 TCTCTCTCAAT
* *
45241647 TATCACTCAAT
1 TCTCTCTCAAT
45241658 TCTCTC
1 TCTCTC
45241664 ATATCACTCT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 39 1.00
ACGTcount: A:0.20, C:0.36, G:0.02, T:0.43
Consensus pattern (11 bp):
TCTCTCTCAAT
Found at i:45241813 original size:11 final size:11
Alignment explanation
Indices: 45241786--45241827 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
45241776 TCTCCCTTTC
* *
45241786 AATTCACTCTC
1 AATTCTCTCTT
45241797 AATTCTCTCTT
1 AATTCTCTCTT
*
45241808 AATTCTCACTT
1 AATTCTCTCTT
45241819 AATTCTCTC
1 AATTCTCTC
45241828 AGTTCACTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (11 bp):
AATTCTCTCTT
Found at i:45241902 original size:161 final size:163
Alignment explanation
Indices: 45241628--45241932 Score: 501
Period size: 161 Copynumber: 1.9 Consensus size: 163
45241618 TCTCAACTCT
* *
45241628 CTCTCAATTCTCTCTTAATTATCACTCAATTCTCTCATATCACTCTTATTTTTTATTAAAATTTT
1 CTCTCAATTCTCTCTTAATTATCACTCAATTCTCTCATATCACTCTGATTTTTTATTAAAATTCT
*
45241693 CTTAAGGTTTTTTTAATTAATTTTGTATTACAATTTTTATTTGTATTTATTGAAATTCTTAATGG
66 CTTAAGG-TTTTTTAATTAATTTTGTATTACAATTTTTATTCGTATTTATTGAAATTCTTAATGG
45241758 AAAATTCTCTTATTCGCTTCTCCCTTTCAATTCA
130 AAAATTCTCTTATTCGCTTCTCCCTTTCAATTCA
* *
45241792 CTCTCAATTCTCTCTTAATTCTCACTTAATTCTCTCAGT-TCACTCTGA-TTTTTATTAAAATTG
1 CTCTCAATTCTCTCTTAATTATCACTCAATTCTCTCA-TATCACTCTGATTTTTTATTAAAATT-
45241855 CT-TTAAGG-TTTTTAATTAATTTTGTATTACAATTTTTATTCGTATTTATTGAAATTCTTAATG
64 CTCTTAAGGTTTTTTAATTAATTTTGTATTACAATTTTTATTCGTATTTATTGAAATTCTTAATG
*
45241918 GCAAATTCTCTTATT
129 GAAAATTCTCTTATT
45241933 TGTTTAGATG
Statistics
Matches: 133, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
161 68 0.51
163 20 0.15
164 44 0.33
165 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.51
Consensus pattern (163 bp):
CTCTCAATTCTCTCTTAATTATCACTCAATTCTCTCATATCACTCTGATTTTTTATTAAAATTCT
CTTAAGGTTTTTTAATTAATTTTGTATTACAATTTTTATTCGTATTTATTGAAATTCTTAATGGA
AAATTCTCTTATTCGCTTCTCCCTTTCAATTCA
Found at i:45248362 original size:18 final size:20
Alignment explanation
Indices: 45248327--45248365 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
45248317 ATTACACGGG
45248327 TAATTTTAATATTTTCAAAA
1 TAATTTTAATATTTTCAAAA
45248347 TAATTTTAA-A-TTTCAAAA
1 TAATTTTAATATTTTCAAAA
45248365 T
1 T
45248366 TTATATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
19 1 0.05
20 9 0.47
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATTTTAATATTTTCAAAA
Found at i:45254309 original size:2 final size:2
Alignment explanation
Indices: 45254302--45254335 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
45254292 GCACCCATGC
45254302 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45254336 GTCTTAGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45257191 original size:20 final size:22
Alignment explanation
Indices: 45257162--45257202 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
45257152 TTTTAACATT
*
45257162 ATAAATGGAT-AATTT-TTTTA
1 ATAAAAGGATCAATTTGTTTTA
45257182 ATAAAAGGATCAATTTGTTTT
1 ATAAAAGGATCAATTTGTTTT
45257203 TAATGTAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 5 0.28
22 4 0.22
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.46
Consensus pattern (22 bp):
ATAAAAGGATCAATTTGTTTTA
Found at i:45266296 original size:18 final size:19
Alignment explanation
Indices: 45266257--45266297 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
45266247 ATTATTCATA
45266257 ATTTT-ATATTTTTACAGT
1 ATTTTAATATTTTTACAGT
*
45266275 -TTTTAATATTTTTATA-T
1 ATTTTAATATTTTTACAGT
45266292 ATTTTA
1 ATTTTA
45266298 TTTAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTTAATATTTTTACAGT
Found at i:45268180 original size:7 final size:7
Alignment explanation
Indices: 45268168--45268211 Score: 88
Period size: 7 Copynumber: 6.3 Consensus size: 7
45268158 ATTTATGTCT
45268168 TTTTGTA
1 TTTTGTA
45268175 TTTTGTA
1 TTTTGTA
45268182 TTTTGTA
1 TTTTGTA
45268189 TTTTGTA
1 TTTTGTA
45268196 TTTTGTA
1 TTTTGTA
45268203 TTTTGTA
1 TTTTGTA
45268210 TT
1 TT
45268212 CAGCGTTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.73
Consensus pattern (7 bp):
TTTTGTA
Found at i:45268220 original size:21 final size:21
Alignment explanation
Indices: 45268174--45268220 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
45268164 GTCTTTTTGT
** *
45268174 ATTTTGTATTTTGTATTTTGT
1 ATTTTGTATTTTGTATTCAGC
45268195 ATTTTGTATTTTGTATTCAGC
1 ATTTTGTATTTTGTATTCAGC
*
45268216 GTTTT
1 ATTTT
45268221 AATAACATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.04, G:0.15, T:0.66
Consensus pattern (21 bp):
ATTTTGTATTTTGTATTCAGC
Found at i:45268734 original size:17 final size:17
Alignment explanation
Indices: 45268705--45268746 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
45268695 TTGAACTAGA
45268705 TTTTATAATTTTAT-ATT
1 TTTTA-AATTTTATAATT
45268722 TTTTAAATGTTTATGAATT
1 TTTTAAAT-TTTAT-AATT
45268741 TTTTAA
1 TTTTAA
45268747 TAATTGACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.14
17 10 0.45
19 9 0.41
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (17 bp):
TTTTAAATTTTATAATT
Found at i:45270696 original size:25 final size:25
Alignment explanation
Indices: 45270641--45270698 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
45270631 TGGCTCTTAC
** *
45270641 GAGCTTCCCGATTGATGGCTCTTTT
1 GAGCTTCCCGATTGATGGCTAGTAT
* * *
45270666 GTGCTTCTCGATTTATGGCTAGTAT
1 GAGCTTCCCGATTGATGGCTAGTAT
45270691 GAGCTTCC
1 GAGCTTCC
45270699 TGATATACAG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.14, C:0.22, G:0.24, T:0.40
Consensus pattern (25 bp):
GAGCTTCCCGATTGATGGCTAGTAT
Found at i:45270761 original size:25 final size:25
Alignment explanation
Indices: 45270717--45270777 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
45270707 AGCTCGATAA
*
45270717 AGCTTCCCGTTACTTAGCTCACATG
1 AGCTTCCCGTTACTTAGCTCACAAG
* *
45270742 AGCTTCCCGTTA-TATGGCTCAGAAG
1 AGCTTCCCGTTACT-TAGCTCACAAG
45270767 AGCTTCCCGTT
1 AGCTTCCCGTT
45270778 CACATCCTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 1 0.03
25 31 0.97
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.31
Consensus pattern (25 bp):
AGCTTCCCGTTACTTAGCTCACAAG
Found at i:45279661 original size:18 final size:18
Alignment explanation
Indices: 45279638--45279672 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45279628 CGGTAGGTGC
*
45279638 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
45279656 GTATCCTAACCCTTATA
1 GTATCCTAACCCTTATA
45279673 CGTTTCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.09, T:0.37
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:45279955 original size:21 final size:21
Alignment explanation
Indices: 45279931--45279971 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
45279921 ACAACCAGAA
45279931 CAACCACAACCCCCGCCGGAG
1 CAACCACAACCCCCGCCGGAG
45279952 CAACCACAACCCCCGCCGGA
1 CAACCACAACCCCCGCCGGA
45279972 AGCTGAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.54, G:0.17, T:0.00
Consensus pattern (21 bp):
CAACCACAACCCCCGCCGGAG
Found at i:45283458 original size:126 final size:125
Alignment explanation
Indices: 45283226--45283620 Score: 569
Period size: 126 Copynumber: 3.1 Consensus size: 125
45283216 GGCCAAACAA
*
45283226 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
45283291 CTGCTTAAAGCGTTTTTGACACTATTTTTTCAGAATTGTCTTCTCAAAATTATTTTTTCAG
66 CTACTTAAAGCGTTTTTGACACTATTTTTT-AGAATCGTCTTCTCAAAATTATTTTTTCAG
* * * * *
45283352 GAACCACTGTAGAAAAAGAGTGTTCATGTGGTAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * * * *
45283417 CTACTTGAAGTGTTTTTGAAACTACTTTTTTAGAACCGTCTTCTCAAAATTATTTTTTCAA
66 CTACTTAAAGCGTTTTTGACACTA-TTTTTTAGAATCGTCTTCTCAAAATTATTTTTTCAG
* *
45283478 GAACTATTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTAGTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
45283543 CTACTTCAAGCGTTTTTGACATTATCTTTTTAGAATCGTCTTCTCAAAATTAAATTTTTT--G
66 CTACTTAAAGCGTTTTTGACACTAT-TTTTTAGAATCGTCTTCTCAAAATT--ATTTTTTCAG
*
45283604 AAACTACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
45283621 AAACAAAATT
Statistics
Matches: 237, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
125 1 0.00
126 223 0.94
127 6 0.03
128 7 0.03
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.38
Consensus pattern (125 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTACTTAAAGCGTTTTTGACACTATTTTTTAGAATCGTCTTCTCAAAATTATTTTTTCAG
Found at i:45283807 original size:35 final size:34
Alignment explanation
Indices: 45283676--45283810 Score: 155
Period size: 34 Copynumber: 3.9 Consensus size: 34
45283666 CTAAACACAA
**
45283676 AATTATTTTTAAAAAAACTAAACCCTAATTTAATT
1 AATT-TTTTTAAAAACTCTAAACCCTAATTTAATT
* * *
45283711 AATTTTCTTAAAAATTCTAAACCCTCATTTAATT
1 AATTTTTTTAAAAACTCTAAACCCTAATTTAATT
** *
45283745 AATTTATTTTAAATCCT-TAAAACCTAATTTAATT
1 AATTT-TTTTAAAAACTCTAAACCCTAATTTAATT
*
45283779 AAATTTTTTTAAAAACTCTAAACTCTAATTTA
1 -AATTTTTTTAAAAACTCTAAACCCTAATTTA
45283811 TTTTTTAAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
34 55 0.66
35 28 0.34
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.44
Consensus pattern (34 bp):
AATTTTTTTAAAAACTCTAAACCCTAATTTAATT
Found at i:45283901 original size:22 final size:23
Alignment explanation
Indices: 45283862--45283907 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
45283852 TTATTTTAAC
*
45283862 AAAACCCTAACACTAC-AACCCT
1 AAAACCCTAACACCACAAACCCT
45283884 AAAACCCTAA-ACCCACAAACCCT
1 AAAACCCTAACA-CCACAAACCCT
45283907 A
1 A
45283908 GGGACTAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 13 0.62
23 7 0.33
ACGTcount: A:0.48, C:0.41, G:0.00, T:0.11
Consensus pattern (23 bp):
AAAACCCTAACACCACAAACCCT
Found at i:45285902 original size:42 final size:42
Alignment explanation
Indices: 45285843--45285924 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
45285833 TTTTTTTATG
45285843 TATTGTTGGAAAATAATTATTGAGTGAAGAATGATAATTGAA
1 TATTGTTGGAAAATAATTATTGAGTGAAGAATGATAATTGAA
*
45285885 TATTGTTGGAAAATAATTATTGAGTGATGAATGATAATTG
1 TATTGTTGGAAAATAATTATTGAGTGAAGAATGATAATTG
45285925 TATCTCTTGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.40, C:0.00, G:0.22, T:0.38
Consensus pattern (42 bp):
TATTGTTGGAAAATAATTATTGAGTGAAGAATGATAATTGAA
Found at i:45285921 original size:21 final size:21
Alignment explanation
Indices: 45285855--45285923 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
45285845 TTGTTGGAAA
*
45285855 ATAATTATTGAGTGAAGAATG
1 ATAATTATTGAGTGATGAATG
* * * *
45285876 ATAATTGAAT-ATTGTTGGAA-A
1 ATAATT-ATTGAGTGAT-GAATG
45285897 ATAATTATTGAGTGATGAATG
1 ATAATTATTGAGTGATGAATG
45285918 ATAATT
1 ATAATT
45285924 GTATCTCTTG
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
20 5 0.14
21 25 0.71
22 5 0.14
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (21 bp):
ATAATTATTGAGTGATGAATG
Found at i:45286120 original size:14 final size:15
Alignment explanation
Indices: 45286096--45286136 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
45286086 CCAAGTTAGG
45286096 ATATT-TCAAAAAC-
1 ATATTATCAAAAACT
45286109 ATATTATCAAAAACT
1 ATATTATCAAAAACT
*
45286124 ATCAATATCAAAA
1 AT-ATTATCAAAA
45286137 CTTCCTTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 5 0.21
14 8 0.33
15 2 0.08
16 9 0.38
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (15 bp):
ATATTATCAAAAACT
Found at i:45290405 original size:15 final size:15
Alignment explanation
Indices: 45290385--45290420 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
45290375 GGTAAGTCGA
*
45290385 GACACATGCGTCGTC
1 GACACATGCGTCATC
45290400 GACACATGCGTCATC
1 GACACATGCGTCATC
45290415 GACACA
1 GACACA
45290421 ATACCATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.22, T:0.17
Consensus pattern (15 bp):
GACACATGCGTCATC
Found at i:45294724 original size:20 final size:19
Alignment explanation
Indices: 45294688--45294734 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
45294678 ATAAAAAAAC
*
45294688 TTAAAAAATATATTTATTAA
1 TTAAAAAATATAGTTA-TAA
*
45294708 TTAAAAACAT-TAGTTATAT
1 TTAAAAA-ATATAGTTATAA
45294727 TTAAAAAA
1 TTAAAAAA
45294735 AATCTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 1 0.04
19 9 0.38
20 12 0.50
21 2 0.08
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TTAAAAAATATAGTTATAA
Found at i:45296280 original size:18 final size:16
Alignment explanation
Indices: 45296259--45296311 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 16
45296249 TACCAACTTC
45296259 ATTTATTTAAAAAATATT
1 ATTTATTT--AAAATATT
*
45296277 ATTTATTTTAAATATT
1 ATTTATTTAAAATATT
*
45296293 ATTTACATTAAATATATT
1 ATTTA-TTTAAA-ATATT
45296311 A
1 A
45296312 AATTATATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 12 0.40
17 4 0.13
18 14 0.47
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTATTTAAAATATT
Found at i:45296291 original size:16 final size:16
Alignment explanation
Indices: 45296270--45296307 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
45296260 TTTATTTAAA
**
45296270 AAATATTATTTATTTT
1 AAATATTATTTACATT
45296286 AAATATTATTTACATT
1 AAATATTATTTACATT
45296302 AAATAT
1 AAATAT
45296308 ATTAAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATATTATTTACATT
Found at i:45296295 original size:19 final size:18
Alignment explanation
Indices: 45296259--45296297 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
45296249 TACCAACTTC
45296259 ATTTATTTAAAAAATATT
1 ATTTATTTAAAAAATATT
*
45296277 ATTTATTT--TAAATATT
1 ATTTATTTAAAAAATATT
45296293 ATTTA
1 ATTTA
45296298 CATTAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
18 8 0.40
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTATTTAAAAAATATT
Found at i:45297415 original size:31 final size:31
Alignment explanation
Indices: 45297377--45297451 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
45297367 TGGCTATTAC
* *
45297377 TCCCTTTACTTTATGAAAATTGTGGACTTAG
1 TCCCTTTACTTTATGAAAACTGTAGACTTAG
* * *
45297408 TCCCTTTACTTTGTGGAAACTGTAGATTTAG
1 TCCCTTTACTTTATGAAAACTGTAGACTTAG
45297439 T-CCTTGTACTTTA
1 TCCCTT-TACTTTA
45297452 ATTTGATCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
30 4 0.11
31 33 0.89
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.44
Consensus pattern (31 bp):
TCCCTTTACTTTATGAAAACTGTAGACTTAG
Found at i:45300483 original size:90 final size:89
Alignment explanation
Indices: 45300274--45300494 Score: 286
Period size: 89 Copynumber: 2.5 Consensus size: 89
45300264 AGGCTTAAGG
* * * *
45300274 GTAT-AAAAAGCCCTTAAACTTTTTCAAAAAAAGCAATTAAGCCCTTCCTTTTTTTTTGTATTCA
1 GTATCAAAAAGCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTCCTTTTTTTTTGCACTCA
45300338 ATTGAGCACTTAAACTTTCAAAAT
66 ATTGAGCACTTAAACTTTCAAAAT
** * *
45300362 ACATCAAAAATGCCCTCAAACTTCTTCAAAAAAAGCAATTAAGCCCCTGCTTTTTTTTT-CACTC
1 GTATCAAAAA-GCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTCCTTTTTTTTTGCACTC
* * *
45300426 AATTGCGTACTTGAACTTTCAAAAT
65 AATTGAGCACTTAAACTTTCAAAAT
* *
45300451 GTATCAAAAAGACCCTCAAAATTTTTCAAAAAATG-AATTAAGCC
1 GTATCAAAAAG-CCCTCAAACTTTTTCAAAAAAAGCAATTAAGCC
45300495 TCTGTTCTTA
Statistics
Matches: 114, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
88 12 0.11
89 58 0.51
90 44 0.39
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (89 bp):
GTATCAAAAAGCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTCCTTTTTTTTTGCACTCA
ATTGAGCACTTAAACTTTCAAAAT
Found at i:45300527 original size:11 final size:11
Alignment explanation
Indices: 45300507--45300536 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
45300497 TGTTCTTATT
45300507 AAAA-ATTAGA
1 AAAATATTAGA
45300517 AAAATATTAGA
1 AAAATATTAGA
45300528 AAAATATTA
1 AAAATATTA
45300537 AATTTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (11 bp):
AAAATATTAGA
Found at i:45300549 original size:19 final size:19
Alignment explanation
Indices: 45300518--45300573 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
45300508 AAAATTAGAA
*
45300518 AAATATTAG-AAAAATATT
1 AAATTTTAGAAAAAATATT
45300536 AAATTTTAGAAAAAAATATT
1 AAATTTTAG-AAAAAATATT
45300556 AAATTTTA-ATAAAAATAT
1 AAATTTTAGA-AAAAATAT
45300574 AAAAAATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 9 0.26
19 8 0.24
20 17 0.50
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (19 bp):
AAATTTTAGAAAAAATATT
Found at i:45300550 original size:20 final size:19
Alignment explanation
Indices: 45300527--45300573 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
45300517 AAAATATTAG
45300527 AAAAATATTAAATTTTAGAA
1 AAAAATATTAAATTTTA-AA
*
45300547 AAAAATATTAAATTTTAAT
1 AAAAATATTAAATTTTAAA
45300566 AAAAATAT
1 AAAAATAT
45300574 AAAAAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
AAAAATATTAAATTTTAAA
Found at i:45300613 original size:45 final size:44
Alignment explanation
Indices: 45300559--45300674 Score: 110
Period size: 45 Copynumber: 2.6 Consensus size: 44
45300549 AAATATTAAA
* * ***
45300559 TTTTAATAAAAATATAAAAAATTATAATTGATTAAAAACTATAA-T
1 TTTTTATAAAAATATAAAAAATTAAAAAAAATT-AAAACTA-AATT
* *
45300604 TTTTTATAAAAATCTTTAAAAAA-TAAAAAAAATTAAAATTAAATT
1 TTTTTATAAAAA--TATAAAAAATTAAAAAAAATTAAAACTAAATT
45300649 TTTTTATAAAAATCATAAAAAATTAA
1 TTTTTATAAAAAT-ATAAAAAATTAA
45300675 TGACCCTAGT
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
43 1 0.02
44 9 0.16
45 33 0.57
46 7 0.12
47 8 0.14
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.38
Consensus pattern (44 bp):
TTTTTATAAAAATATAAAAAATTAAAAAAAATTAAAACTAAATT
Found at i:45303334 original size:18 final size:19
Alignment explanation
Indices: 45303311--45303346 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
45303301 ATAATACAAC
*
45303311 ATATTATTTA-ATTTAAAA
1 ATATTATATATATTTAAAA
45303329 ATATTATATATATTTAAA
1 ATATTATATATATTTAAA
45303347 CAATGCATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATTATATATATTTAAAA
Found at i:45303676 original size:19 final size:19
Alignment explanation
Indices: 45303641--45303678 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
45303631 AATATAAAAC
*
45303641 TTTTAACAATAACATATTA
1 TTTTAACAAGAACATATTA
45303660 TTTTAACACAGAA-ATATTA
1 TTTTAACA-AGAACATATTA
45303679 AACTAATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (19 bp):
TTTTAACAAGAACATATTA
Found at i:45313095 original size:22 final size:21
Alignment explanation
Indices: 45313036--45313100 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
45313026 TGCTAGTAAC
45313036 CAGAATGGCTAAGAGCCATAAA
1 CAGAATGGCTAA-AGCCATAAA
* ** *
45313058 CAGGATAACTATAAGCTATAAA
1 CAGAATGGCTA-AAGCCATAAA
45313080 CAGAATGGCTACAAGCCATAA
1 CAGAATGGCTA-AAGCCATAA
45313101 GTACAGTAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.46, C:0.18, G:0.18, T:0.17
Consensus pattern (21 bp):
CAGAATGGCTAAAGCCATAAA
Found at i:45313147 original size:32 final size:32
Alignment explanation
Indices: 45313092--45313230 Score: 172
Period size: 32 Copynumber: 4.4 Consensus size: 32
45313082 GAATGGCTAC
* *
45313092 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
45313123 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
45313155 CAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * * * *
45313187 GAGCCATTAGTAACGGTAATATGACCGACACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
45313219 AAGCCATCAGTA
1 AAGCCATCAGTA
45313231 GTATCGCAAC
Statistics
Matches: 93, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
31 10 0.11
32 83 0.89
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:45313415 original size:24 final size:24
Alignment explanation
Indices: 45313384--45313451 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
45313374 GTCGTGTATG
45313384 CAGA-AAATCAGTCATACTA-ATCA
1 CAGACAAATCAGTCAT-CTACATCA
* *
45313407 CAGACAAATTAGTCATTTACATCA
1 CAGACAAATCAGTCATCTACATCA
* * *
45313431 CGGACAAATCAATCATTTACA
1 CAGACAAATCAGTCATCTACA
45313452 CTCGAGGGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
23 6 0.16
24 32 0.84
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25
Consensus pattern (24 bp):
CAGACAAATCAGTCATCTACATCA
Found at i:45313502 original size:27 final size:27
Alignment explanation
Indices: 45313471--45313584 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
45313461 AAAATAGTTA
*
45313471 TTTACCCTCCAGGGGCATTACGGTCAT
1 TTTACCCTACAGGGGCATTACGGTCAT
* * *
45313498 TTTACCTTACAGGGGTATTTCGGTCAT
1 TTTACCCTACAGGGGCATTACGGTCAT
* * * * * *
45313525 TTAACCTTATAGAGGTATTACGGTTAT
1 TTTACCCTACAGGGGCATTACGGTCAT
* *
45313552 TTTACCCTACAGGGGCATTAGGGTCGT
1 TTTACCCTACAGGGGCATTACGGTCAT
45313579 TTTACC
1 TTTACC
45313585 ATATGATTTT
Statistics
Matches: 70, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
TTTACCCTACAGGGGCATTACGGTCAT
Found at i:45315400 original size:102 final size:102
Alignment explanation
Indices: 45315224--45315565 Score: 363
Period size: 102 Copynumber: 3.4 Consensus size: 102
45315214 TGTCGATGAA
* ** * * *
45315224 CACATGTGTAGTACTGTGTGGCGGCTACTACGTGTATTGATAAATAATGGTCACATGTGTAGTAC
1 CACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAATTATGGTCACATGTGTAGTAC
*
45315289 AAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGAG
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGAG
* * * *
45315326 CACATGTGTAGTACTGTGTGAATGCTACTATGTGTATCGGTAAATTATGGTTACATGTGTAGTAC
1 CACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAATTATGGTCACATGTGTAGTAC
* *
45315391 TAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTG-G
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGAG
* * * * * * * * *
45315427 TCACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACT-TGATCGCGTGTGTAAT
1 -CACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGT-AAATTATGGTCACATGTGTAGT
* * * * *
45315490 ACTATGTGAAGGCTACTACGTGAACTGTAAAA-C--TGAT
64 ACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGAG
*
45315527 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 CACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
45315566 AATGATAAAA
Statistics
Matches: 201, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
99 35 0.17
100 2 0.01
101 38 0.19
102 126 0.63
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (102 bp):
CACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAATTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGAG
Found at i:45315499 original size:50 final size:49
Alignment explanation
Indices: 45315228--45315560 Score: 231
Period size: 51 Copynumber: 6.6 Consensus size: 49
45315218 GATGAACACA
* ** * ** * * *
45315228 TGTGTAGTACTGTGTGGCGGCTACTACGTGTATTGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTGATCACG
* * * * * *
45315279 TGTGTAGTACAAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGAGCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C--TGATCACG
* * * * * * * *
45315330 TGTGTAGTACTGTGTGAATGCTACTATGTGTATCGGTAAATTA-TGGTTACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTG-AACCGTAAA--ACTGATCACG
* * * * * *
45315381 TGTGTAGTACTAAGTGAAGGCTACAATGGGTACCG-AAAAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C--TGATCACG
* * *
45315432 TATGTAGTACTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGATCGCG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAC-TGATCACG
* *
45315482 TGTGTAATACTATGTGAAGGCTACTACGTGAACTGTAAAACTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTGATCACG
45315531 TGTGTAGTACTATGTGAAGGCTACTACGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
45315561 TATCGAATGA
Statistics
Matches: 224, Mismatches: 46, Indels: 26
0.76 0.16 0.09
Matches are distributed among these distances:
47 1 0.00
48 1 0.00
49 42 0.19
50 46 0.21
51 124 0.55
52 6 0.03
53 3 0.01
55 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTGATCACG
Found at i:45320773 original size:164 final size:164
Alignment explanation
Indices: 45320502--45320863 Score: 670
Period size: 164 Copynumber: 2.2 Consensus size: 164
45320492 CCTCTGCCGA
45320502 TTTCCTTGTTGGTAAGTTAATCCCCTTCAGATTTCCTTGTTGCTGAAGCCTTAGCTGCAGCTTCT
1 TTTCCTTGTTGGTAAGTTAATCCCCTTCAGATTTCCTTGTTGCTGAAGCCTTAGCTGCAGCTTCT
* *
45320567 TGAAGCTTTCGAACTGTACTTTCTGATTTCCTTGTTGGTAAGTTAATAGGTTCATCAAGTTTTCT
66 TCAAGCTTTCAAACTGTACTTTCTGATTTCCTTGTTGGTAAGTTAATAGGTTCATCAAGTTTTCT
*
45320632 TCTTTTATGATATTATTGGCTTAACTGAGTAGTT
131 TCTTTTATGATATTATTGGCATAACTGAGTAGTT
*
45320666 TTTCCTTGTCGGTAAGTTAATCCCCTTCAGATTTCCTTGTTGCTGAAGCCTTAGCTGCAGCTTCT
1 TTTCCTTGTTGGTAAGTTAATCCCCTTCAGATTTCCTTGTTGCTGAAGCCTTAGCTGCAGCTTCT
* *
45320731 TCAAGCTTTCAAACTGTACTTTCTGATTTCCTTGTTGGTAAGTTAATGGGTTCTTCAAGTTTTCT
66 TCAAGCTTTCAAACTGTACTTTCTGATTTCCTTGTTGGTAAGTTAATAGGTTCATCAAGTTTTCT
45320796 TCTTTTATGATATTATTGGCATAACTGAGTAGTT
131 TCTTTTATGATATTATTGGCATAACTGAGTAGTT
45320830 TTTCCTTGTTGGTAAGTTAATCCCCTTCAGATTT
1 TTTCCTTGTTGGTAAGTTAATCCCCTTCAGATTT
45320864 GTTTCACTCT
Statistics
Matches: 191, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
164 191 1.00
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (164 bp):
TTTCCTTGTTGGTAAGTTAATCCCCTTCAGATTTCCTTGTTGCTGAAGCCTTAGCTGCAGCTTCT
TCAAGCTTTCAAACTGTACTTTCTGATTTCCTTGTTGGTAAGTTAATAGGTTCATCAAGTTTTCT
TCTTTTATGATATTATTGGCATAACTGAGTAGTT
Found at i:45323847 original size:25 final size:26
Alignment explanation
Indices: 45323815--45323869 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
45323805 TTATTAAATT
*
45323815 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
45323840 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
45323865 A-ATAT
1 ATATAT
45323870 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:45324036 original size:39 final size:40
Alignment explanation
Indices: 45323993--45324097 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
45323983 TTCCATTATG
45323993 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
45324032 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
45324077 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
45324098 ACACCTCTAA
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:45324091 original size:45 final size:44
Alignment explanation
Indices: 45323991--45324100 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
45323981 TTTTCCATTA
45323991 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
45324030 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
45324075 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
45324101 CCTCTAATCC
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:45324100 original size:16 final size:16
Alignment explanation
Indices: 45324079--45324116 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
45324069 TTGATTTGCT
*
45324079 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
45324095 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
45324111 AATACA
1 ATTACA
45324117 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:45326805 original size:36 final size:36
Alignment explanation
Indices: 45326731--45326964 Score: 217
Period size: 35 Copynumber: 6.5 Consensus size: 36
45326721 CTTAGACGTA
* *
45326731 TCTATTCCAATTTTTTTAAGGTTGCCTTAG--AAGTG
1 TCTATCCCAACTTTTTTAAGGTTGCCTTAGATAAG-G
*
45326766 TCTATCCCAACTTTTTTAAGGTTGTCTTAGATAAGG
1 TCTATCCCAACTTTTTTAAGGTTGCCTTAGATAAGG
* **
45326802 TCTATCTCAACTTTTTTAAGGTTGCCTTAGACGA-G
1 TCTATCCCAACTTTTTTAAGGTTGCCTTAGATAAGG
* *
45326837 TCTATCCCAAACTTTTTTAAAGGTTGCTTTAGACAAGG
1 TCTATCCC-AACTTTTTT-AAGGTTGCCTTAGATAAGG
* * * *
45326875 TCTATCCCAACCTTTTTAAGTTTGTCTTAGAT-GGG
1 TCTATCCCAACTTTTTTAAGGTTGCCTTAGATAAGG
* ** * * *
45326910 CCTATATCAACCTTTTTAAGATTGCCTTAGATGA-G
1 TCTATCCCAACTTTTTTAAGGTTGCCTTAGATAAGG
* *
45326945 TTTATCCAAATCTTTTTTAA
1 TCTATCCCAA-CTTTTTTAA
45326965 ATGTCGGTAT
Statistics
Matches: 164, Mismatches: 28, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
35 70 0.43
36 59 0.36
37 26 0.16
38 9 0.05
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (36 bp):
TCTATCCCAACTTTTTTAAGGTTGCCTTAGATAAGG
Done.