Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005189.1 Hibiscus syriacus cultivar Beakdansim tig00011718_pilon, whole genome shotgun sequence
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: 1183632
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:630449 original size:15 final size:15
Alignment explanation
Indices: 630409--630449 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
630399 TTTCTACTTC
*
630409 TCTTCTATTTTCTTT
1 TCTTATATTTTCTTT
* *
630424 TCTTTTCTTTTCTTT
1 TCTTATATTTTCTTT
630439 TCTTATATTTT
1 TCTTATATTTT
630450 TGAGTTCCTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (15 bp):
TCTTATATTTTCTTT
Found at i:633293 original size:31 final size:31
Alignment explanation
Indices: 633216--633286 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
633206 ACTTTTAAAA
633216 TTTGCAATACAGTCCCCAATCATTTAGTTCG
1 TTTGCAATACAGTCCCCAATCATTTAGTTCG
633247 TTTGCAATACAGTCCCTCAA-CATTTAGTTCG
1 TTTGCAATACAGTCCC-CAATCATTTAGTTCG
633278 TTTGCAATA
1 TTTGCAATA
633287 TGGTCCCCGA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 36 0.92
32 3 0.08
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.37
Consensus pattern (31 bp):
TTTGCAATACAGTCCCCAATCATTTAGTTCG
Found at i:634098 original size:30 final size:31
Alignment explanation
Indices: 634044--634127 Score: 98
Period size: 30 Copynumber: 2.7 Consensus size: 31
634034 ATATTAAAAA
* *
634044 TAATTATATATATATATATAATATTAATAAATT
1 TAATT-TAAATATAAATAT-ATATTAATAAATT
* *
634077 TAATTTAAATA-AAATATATATTTATATATT
1 TAATTTAAATATAAATATATATTAATAAATT
*
634107 TAATTTAAATATATATATATA
1 TAATTTAAATATAAATATATA
634128 CCCGGCCCGA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
30 22 0.49
31 13 0.29
32 5 0.11
33 5 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (31 bp):
TAATTTAAATATAAATATATATTAATAAATT
Found at i:634108 original size:25 final size:25
Alignment explanation
Indices: 634079--634127 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
634069 AATAAATTTA
*
634079 ATTTAAATAAAATATATATTTATAT
1 ATTTAAATAAAATATATATATATAT
* *
634104 ATTTAATTTAAATATATATATATA
1 ATTTAAATAAAATATATATATATA
634128 CCCGGCCCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTTAAATAAAATATATATATATAT
Found at i:634120 original size:15 final size:14
Alignment explanation
Indices: 634055--634123 Score: 50
Period size: 15 Copynumber: 4.6 Consensus size: 14
634045 AATTATATAT
634055 ATATATATAATATTA
1 ATATATATAAT-TTA
* *
634070 ATAAATTTAATTTAA
1 ATATATATAATTT-A
*
634085 ATAAAATATATATTT-
1 AT-ATATATA-ATTTA
*
634100 ATATATTTAATTTAA
1 ATATATATAATTT-A
634115 ATATATATA
1 ATATATATA
634124 TATACCCGGC
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
13 4 0.09
14 7 0.16
15 22 0.51
16 6 0.14
17 4 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATATATATAATTTA
Found at i:638381 original size:4 final size:4
Alignment explanation
Indices: 638374--638406 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
638364 ATATATATAA
638374 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
638407 GACCATTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:651879 original size:48 final size:48
Alignment explanation
Indices: 651821--651983 Score: 281
Period size: 48 Copynumber: 3.4 Consensus size: 48
651811 CTTTCCTTAT
*
651821 TTTCAGCAAAGGATGCACCGTCAATTGGGTTGTTGGCTTGGCAACCAA
1 TTTCAACAAAGGATGCACCGTCAATTGGGTTGTTGGCTTGGCAACCAA
*
651869 TTTCAACAAAGGATGCACTGTCAATTGGGTTGTTGGCTTGGCAACCAA
1 TTTCAACAAAGGATGCACCGTCAATTGGGTTGTTGGCTTGGCAACCAA
* *
651917 TTTCAACAAATGATGCACCGTCAATTGGTTTGTTGGCTTGGCAACCAA
1 TTTCAACAAAGGATGCACCGTCAATTGGGTTGTTGGCTTGGCAACCAA
*
651965 TTTCAATAAAGGATGCACC
1 TTTCAACAAAGGATGCACC
651984 TGCAAATTTG
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 108 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (48 bp):
TTTCAACAAAGGATGCACCGTCAATTGGGTTGTTGGCTTGGCAACCAA
Found at i:656007 original size:42 final size:42
Alignment explanation
Indices: 655948--656047 Score: 173
Period size: 42 Copynumber: 2.4 Consensus size: 42
655938 CCAAACTCAT
*
655948 CACCCGCCCACTACCCGCGACGAGTATAACTTTTTAAATTTA
1 CACCCGCCCACTACCCGCGACGAGTACAACTTTTTAAATTTA
*
655990 CACCCGCCCACTACCCGCGACGGGTACAACTTTTTAAATTTA
1 CACCCGCCCACTACCCGCGACGAGTACAACTTTTTAAATTTA
*
656032 CACCCGTCCACTACCC
1 CACCCGCCCACTACCC
656048 ACTAAAGTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.26, C:0.39, G:0.12, T:0.23
Consensus pattern (42 bp):
CACCCGCCCACTACCCGCGACGAGTACAACTTTTTAAATTTA
Found at i:658347 original size:5 final size:5
Alignment explanation
Indices: 658334--658363 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
658324 TCTAATTCAC
*
658334 TTTCC TTTCT TTTCT TTTCT TTTCT TTTCT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT
658364 ATTTTTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTCT
Found at i:669152 original size:38 final size:39
Alignment explanation
Indices: 669066--669168 Score: 136
Period size: 38 Copynumber: 2.7 Consensus size: 39
669056 ATACTTAAAG
* ***
669066 TTTAGTTTTTGTTTTATTTTAGTATCTGTTGTTAAAAAT
1 TTTAGTTTTTGTTTCATTTTAGTATCTACCGTTAAAAAT
* *
669105 TTTAATTTTTATTTCATTTTAGTATCTACCGTT-AAAAT
1 TTTAGTTTTTGTTTCATTTTAGTATCTACCGTTAAAAAT
*
669143 TTTAGTTTTTGTTTCAATTTAGTATC
1 TTTAGTTTTTGTTTCATTTTAGTATC
669169 CGTTTCAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
38 28 0.51
39 27 0.49
ACGTcount: A:0.24, C:0.07, G:0.10, T:0.59
Consensus pattern (39 bp):
TTTAGTTTTTGTTTCATTTTAGTATCTACCGTTAAAAAT
Found at i:669188 original size:38 final size:36
Alignment explanation
Indices: 669066--669180 Score: 115
Period size: 38 Copynumber: 3.0 Consensus size: 36
669056 ATACTTAAAG
* *
669066 TTTAGTTTTTGTTTTATTTTAGTATCTGTTGTTAAAAAT
1 TTTAGTTTTTGTTTCATTTTAGTATCCG-T-TT-AAAAT
* *
669105 TTTAATTTTTATTTCATTTTAGTATCTACCG-TTAAAAT
1 TTTAGTTTTTGTTTCATTTTAGTA--T-CCGTTTAAAAT
*
669143 TTTAGTTTTTGTTTCAATTTAGTATCCGTTTCAAAAT
1 TTTAGTTTTTGTTTCATTTTAGTATCCGTTT-AAAAT
669180 T
1 T
669181 AATAGTTTAG
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
35 3 0.05
36 3 0.05
37 6 0.09
38 26 0.41
39 23 0.36
41 1 0.02
42 2 0.03
ACGTcount: A:0.25, C:0.08, G:0.10, T:0.57
Consensus pattern (36 bp):
TTTAGTTTTTGTTTCATTTTAGTATCCGTTTAAAAT
Found at i:670339 original size:60 final size:60
Alignment explanation
Indices: 670227--670361 Score: 175
Period size: 60 Copynumber: 2.2 Consensus size: 60
670217 AACATAATGA
* * * *
670227 ATAGTCAAGCGACCATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGCAAC-TCCTT
1 ATAGTCGAGGGACCATTTTGTAACATTTAATAGTCAAGGGACTCAACAAAGCAACATCC-T
** *
670287 ATAGTCG-GTGGACCATTTTGTAACATTTAATAGTCAAGGGACTCAATTAAGCATCATCCT
1 ATAGTCGAG-GGACCATTTTGTAACATTTAATAGTCAAGGGACTCAACAAAGCAACATCCT
670347 ATAGTCGAGGGACCA
1 ATAGTCGAGGGACCA
670362 ATTGTGTACT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
59 1 0.02
60 60 0.92
61 4 0.06
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (60 bp):
ATAGTCGAGGGACCATTTTGTAACATTTAATAGTCAAGGGACTCAACAAAGCAACATCCT
Found at i:670740 original size:6 final size:7
Alignment explanation
Indices: 670713--670737 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
670703 ATAAAATGCG
670713 ATTTTAT
1 ATTTTAT
670720 ATTTTAT
1 ATTTTAT
670727 ATTTTAT
1 ATTTTAT
670734 ATTT
1 ATTT
670738 ATAATGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTAT
Found at i:673467 original size:53 final size:53
Alignment explanation
Indices: 673387--673497 Score: 222
Period size: 53 Copynumber: 2.1 Consensus size: 53
673377 AGTTGGGTCA
673387 GGTTCAGGTGAAGGGAATATACTTCCAAGTCGGGTGGAGAATGTATGTTTCTT
1 GGTTCAGGTGAAGGGAATATACTTCCAAGTCGGGTGGAGAATGTATGTTTCTT
673440 GGTTCAGGTGAAGGGAATATACTTCCAAGTCGGGTGGAGAATGTATGTTTCTT
1 GGTTCAGGTGAAGGGAATATACTTCCAAGTCGGGTGGAGAATGTATGTTTCTT
673493 GGTTC
1 GGTTC
673498 CAGTTGGATC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 58 1.00
ACGTcount: A:0.23, C:0.12, G:0.32, T:0.32
Consensus pattern (53 bp):
GGTTCAGGTGAAGGGAATATACTTCCAAGTCGGGTGGAGAATGTATGTTTCTT
Found at i:673475 original size:26 final size:26
Alignment explanation
Indices: 673393--673475 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
673383 GTCAGGTTCA
673393 GGTGAAGGGAATATACTTCCAAGTCG
1 GGTGAAGGGAATATACTTCCAAGTCG
* ** *** *
673419 GGTG--GAGAATGTATGTTTCTTGGTTCA
1 GGTGAAGGGAA--TATACTTCCAAG-TCG
673446 GGTGAAGGGAATATACTTCCAAGTCG
1 GGTGAAGGGAATATACTTCCAAGTCG
673472 GGTG
1 GGTG
673476 GAGAATGTAT
Statistics
Matches: 38, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
24 4 0.11
26 17 0.45
27 13 0.34
29 4 0.11
ACGTcount: A:0.25, C:0.12, G:0.34, T:0.29
Consensus pattern (26 bp):
GGTGAAGGGAATATACTTCCAAGTCG
Found at i:675665 original size:2 final size:2
Alignment explanation
Indices: 675660--675685 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
675650 GCACGCACAC
675660 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
675686 TATTACTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:676330 original size:8 final size:8
Alignment explanation
Indices: 676304--676362 Score: 56
Period size: 8 Copynumber: 7.8 Consensus size: 8
676294 TGTTAGTATT
676304 TTATTTAA
1 TTATTTAA
676312 TTATTGT-A
1 TTATT-TAA
676320 TTATTTAA
1 TTATTTAA
676328 TTATTTAAA
1 TTATTT-AA
*
676337 TT-TTTTA
1 TTATTTAA
676344 TTA-TT--
1 TTATTTAA
676349 TTATTTAA
1 TTATTTAA
676357 TTATTT
1 TTATTT
676363 TATTTTTTAC
Statistics
Matches: 43, Mismatches: 1, Indels: 14
0.74 0.02 0.24
Matches are distributed among these distances:
5 3 0.07
6 2 0.05
7 6 0.14
8 27 0.63
9 5 0.12
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (8 bp):
TTATTTAA
Found at i:676369 original size:29 final size:29
Alignment explanation
Indices: 676300--676370 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
676290 ATTTTGTTAG
** *
676300 TATTTTATTTAATTATTGTATTATTTAAT
1 TATTTTATTTTTTTATTATATTATTTAAT
* * *
676329 TATTTAAATTTTTTATTATTTTATTTAAT
1 TATTTTATTTTTTTATTATATTATTTAAT
676358 TATTTTATTTTTT
1 TATTTTATTTTTT
676371 ACAGTTATAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.70
Consensus pattern (29 bp):
TATTTTATTTTTTTATTATATTATTTAAT
Found at i:676371 original size:16 final size:16
Alignment explanation
Indices: 676307--676371 Score: 66
Period size: 16 Copynumber: 4.2 Consensus size: 16
676297 TAGTATTTTA
* *
676307 TTTAATTATTGTATTA
1 TTTAATTATTTTATTT
*
676323 TTTAATTATTTAAATTT
1 TTTAATTATTT-TATTT
676340 TTT-ATTATTTTA---
1 TTTAATTATTTTATTT
676352 TTTAATTATTTTATTT
1 TTTAATTATTTTATTT
676368 TTTA
1 TTTA
676372 CAGTTATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
12 3 0.08
13 9 0.22
15 1 0.03
16 21 0.52
17 6 0.15
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TTTAATTATTTTATTT
Found at i:676637 original size:13 final size:13
Alignment explanation
Indices: 676619--676678 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
676609 AACTGTAAAA
676619 AAATAAAATAATT
1 AAATAAAATAATT
676632 AAATAAAATAA-T
1 AAATAAAATAATT
*
676644 AAA-AAAATTAAAT
1 AAATAAAA-TAATT
*
676657 -AATACAATAATT
1 AAATAAAATAATT
676669 AAATAAAATA
1 AAATAAAATA
676679 CTAACAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 4 0.10
12 13 0.32
13 23 0.57
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.27
Consensus pattern (13 bp):
AAATAAAATAATT
Found at i:676638 original size:21 final size:21
Alignment explanation
Indices: 676614--676658 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
676604 TTTATAACTG
*
676614 TAAAAAAATAAAATAATTAAA
1 TAAAAAAATAAAAAAATTAAA
*
676635 TAAAATAATAAAAAAATTAAA
1 TAAAAAAATAAAAAAATTAAA
676656 TAA
1 TAA
676659 TACAATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAAAAAATAAAAAAATTAAA
Found at i:676651 original size:16 final size:16
Alignment explanation
Indices: 676614--676674 Score: 56
Period size: 16 Copynumber: 4.0 Consensus size: 16
676604 TTTATAACTG
676614 TAAAAAAATAAAATAA
1 TAAAAAAATAAAATAA
*
676630 T---TAAATAAAATAA
1 TAAAAAAATAAAATAA
*
676643 TAAAAAAATTAAATAA
1 TAAAAAAATAAAATAA
* * *
676659 TACAATAATTAAATAA
1 TAAAAAAATAAAATAA
676675 AATACTAACA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
13 12 0.32
16 25 0.68
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAAAAATAAAATAA
Found at i:676672 original size:21 final size:21
Alignment explanation
Indices: 676614--676666 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
676604 TTTATAACTG
* *
676614 TAAAAAAATAAAATAATTAAA
1 TAAAACAATAAAAAAATTAAA
*
676635 TAAAATAATAAAAAAATTAAA
1 TAAAACAATAAAAAAATTAAA
*
676656 TAATACAATAA
1 TAAAACAATAA
676667 TTAAATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAAACAATAAAAAAATTAAA
Found at i:676677 original size:21 final size:20
Alignment explanation
Indices: 676614--676678 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
676604 TTTATAACTG
*
676614 TAAAAAAATAAAATAATTAAA
1 TAAAATAAT-AAATAATTAAA
676635 TAAAATAAT-AA-AA--AAA
1 TAAAATAATAAATAATTAAA
*
676651 TTAAATAATACAATAATTAAA
1 TAAAATAATA-AATAATTAAA
676672 TAAAATA
1 TAAAATA
676679 CTAACAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
16 11 0.31
18 4 0.11
19 4 0.11
21 17 0.47
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAAATAATAAATAATTAAA
Found at i:677240 original size:29 final size:28
Alignment explanation
Indices: 677185--677262 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 28
677175 TTTAAATGAT
*
677185 CTTTC-AAAT-GTTATAAAATAGTTATTAA
1 CTTTCTAAATAGTTAT-AAA-AGTCATTAA
677213 CCTTTCTAAATAGTTATAAAAGTCATTAA
1 -CTTTCTAAATAGTTATAAAAGTCATTAA
* *
677242 ATTTCTTAAATAGTTACAAAA
1 CTTTC-TAAATAGTTATAAAA
677263 TGGTCTTCTA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
28 4 0.09
29 27 0.63
30 7 0.16
31 5 0.12
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (28 bp):
CTTTCTAAATAGTTATAAAAGTCATTAA
Found at i:677644 original size:2 final size:2
Alignment explanation
Indices: 677639--677683 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
677629 ACCTAATTGA
677639 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
677680 AT AT
1 AT AT
677684 GAATTATTAC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:683135 original size:94 final size:98
Alignment explanation
Indices: 683010--683187 Score: 265
Period size: 95 Copynumber: 1.8 Consensus size: 98
683000 CTTTGGCTAC
*
683010 TTGCTTTATATTGTTTGTTTTTGCTTCCTTAAATTGTTCATTTGT-TACAAAGAAAAAGAAAATC
1 TTGCTTTATATTG-TTGTTTTTGATTCCTTAAATTGTTCATTTGTGTACAAAGAAAAAGAAAATC
683074 GTAGAAATGAGGATAATTTATACTAGTTTCTTCT
65 GTAGAAATGAGGATAATTTATACTAGTTTCTTCT
* * ** *
683108 TTGCTTTATATTG-T-TTTTT-ATTCCTTAAGTTGTTCATTTGTGTATAAAGCGAAAGCAAATCG
1 TTGCTTTATATTGTTGTTTTTGATTCCTTAAATTGTTCATTTGTGTACAAAGAAAAAGAAAATCG
683170 TAGAAATGAGGATAATTT
66 TAGAAATGAGGATAATTT
683188 GGACTAAAGA
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
94 20 0.27
95 39 0.53
96 1 0.01
98 13 0.18
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (98 bp):
TTGCTTTATATTGTTGTTTTTGATTCCTTAAATTGTTCATTTGTGTACAAAGAAAAAGAAAATCG
TAGAAATGAGGATAATTTATACTAGTTTCTTCT
Found at i:686326 original size:42 final size:43
Alignment explanation
Indices: 686267--686381 Score: 198
Period size: 42 Copynumber: 2.7 Consensus size: 43
686257 CGAATTCTCA
*
686267 TGTTTGTTTCACGTAATTCGTTTTCCGGAAAATG-TTTTCCCG
1 TGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTTCCCG
686309 TGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTTCCCG
1 TGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTTCCCG
686352 TGTTTTGTTTCACGTAATTCG-TTTCCGGAA
1 TG-TTTGTTTCACGTAATTCGTTTTCCGGAA
686382 TGTAATTCAT
Statistics
Matches: 70, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
42 33 0.47
43 19 0.27
44 18 0.26
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (43 bp):
TGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTTCCCG
Found at i:686581 original size:22 final size:21
Alignment explanation
Indices: 686550--686601 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
686540 TTTCATCAAA
*
686550 ATATTAATTAAAATATTAAAAT
1 ATATTTATTAAAAT-TTAAAAT
* *
686572 ATATTTATTAATATTTATAAT
1 ATATTTATTAAAATTTAAAAT
686593 ATATATTAT
1 ATAT-TTAT
686602 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATTTATTAAAATTTAAAAT
Found at i:686924 original size:20 final size:20
Alignment explanation
Indices: 686899--686968 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
686889 TTTCCAGATG
686899 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
686919 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
686939 TTTTACAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
686959 TTTTTCAGAA
1 TTTTCCAGAA
686969 TTCAAATTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:686972 original size:14 final size:15
Alignment explanation
Indices: 686951--687037 Score: 86
Period size: 15 Copynumber: 5.9 Consensus size: 15
686941 TTACAGAAAT
*
686951 GTAATTCATTTTTCA
1 GTAATTCATTTTCCA
**
686966 G-AATTCAAATTCCA
1 GTAATTCATTTTCCA
*
686980 GTAATTCATTTTCTA
1 GTAATTCATTTTCCA
**
686995 GTAATTCAAATTCCA
1 GTAATTCATTTTCCA
* **
687010 ATAATTCAAATTCCA
1 GTAATTCATTTTCCA
687025 GTAATTCATTTTC
1 GTAATTCATTTTC
687038 TGGAAAACCA
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
14 11 0.19
15 47 0.81
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:686977 original size:40 final size:40
Alignment explanation
Indices: 686899--686977 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
686889 TTTCCAGATG
* **
686899 TTTTCCAGAAATGTAATTCATTTTCCAGAAATGTAATTCA
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
* *
686939 TTTTACAGAAATGTAATTCATTTTTCAGAATTCAAATTC
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTC
686978 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (40 bp):
TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
Found at i:686987 original size:15 final size:15
Alignment explanation
Indices: 686967--687032 Score: 96
Period size: 15 Copynumber: 4.4 Consensus size: 15
686957 CATTTTTCAG
686967 AATTCAAATTCCAGT
1 AATTCAAATTCCAGT
** *
686982 AATTCATTTTCTAGT
1 AATTCAAATTCCAGT
*
686997 AATTCAAATTCCAAT
1 AATTCAAATTCCAGT
687012 AATTCAAATTCCAGT
1 AATTCAAATTCCAGT
687027 AATTCA
1 AATTCA
687033 TTTTCTGGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.38
Consensus pattern (15 bp):
AATTCAAATTCCAGT
Found at i:687003 original size:30 final size:30
Alignment explanation
Indices: 686951--687032 Score: 105
Period size: 30 Copynumber: 2.8 Consensus size: 30
686941 TTACAGAAAT
686951 GTAATTCATTTT-TCAG-AATTCAAATTCCA
1 GTAATTCATTTTCT-AGTAATTCAAATTCCA
686980 GTAATTCATTTTCTAGTAATTCAAATTCCA
1 GTAATTCATTTTCTAGTAATTCAAATTCCA
* ** *
687010 ATAATTCAAATTCCAGTAATTCA
1 GTAATTCATTTTCTAGTAATTCA
687033 TTTTCTGGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
29 14 0.30
30 33 0.70
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (30 bp):
GTAATTCATTTTCTAGTAATTCAAATTCCA
Found at i:697759 original size:16 final size:15
Alignment explanation
Indices: 697734--697763 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
697724 ATTTATGATA
697734 TTTTTTAAGTTTTAT
1 TTTTTTAAGTTTTAT
697749 TTTTATTAAGTTTTA
1 TTTT-TTAAGTTTTA
697764 GATGTTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (15 bp):
TTTTTTAAGTTTTAT
Found at i:703132 original size:20 final size:21
Alignment explanation
Indices: 703088--703131 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
703078 ATTGGAATTT
703088 AAATTAAACGTTTGATATAAA
1 AAATTAAACGTTTGATATAAA
*
703109 AAATTAAA-GTTTAGATATTAA
1 AAATTAAACGTTT-GATATAAA
703130 AA
1 AA
703132 TGGAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (21 bp):
AAATTAAACGTTTGATATAAA
Found at i:703408 original size:14 final size:15
Alignment explanation
Indices: 703385--703417 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
703375 CCGATACCCG
*
703385 ATTTTTAATTT-TTA
1 ATTTTCAATTTATTA
703399 ATTTTCAATTTATTA
1 ATTTTCAATTTATTA
703414 ATTT
1 ATTT
703418 AAAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTTCAATTTATTA
Found at i:710938 original size:27 final size:28
Alignment explanation
Indices: 710908--710965 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 28
710898 AATTTGAAAG
*
710908 TTAATTAATTAAATTAAAAAAATAAA-T
1 TTAAGTAATTAAATTAAAAAAATAAACT
*
710935 TTAAGTATTTAAATTAAAAAAATAAACT
1 TTAAGTAATTAAATTAAAAAAATAAACT
710963 TTA
1 TTA
710966 GTGACCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (28 bp):
TTAAGTAATTAAATTAAAAAAATAAACT
Found at i:710976 original size:28 final size:27
Alignment explanation
Indices: 710918--710976 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
710908 TTAATTAATT
***
710918 AAATTAAAAAAATAAATTTAAGTATTT
1 AAATTAAAAAAATAAATTTAAGTACCA
710945 AAATTAAAAAAATAAACTTT-AGTGACCA
1 AAATTAAAAAAATAAA-TTTAAGT-ACCA
710973 AAAT
1 AAAT
710977 AGGATTGAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (27 bp):
AAATTAAAAAAATAAATTTAAGTACCA
Found at i:711681 original size:13 final size:12
Alignment explanation
Indices: 711655--711688 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
711645 CCCAGCAAAC
711655 AAAAGGAAAAGG
1 AAAAGGAAAAGG
*
711667 AAAAAGAAAAGGG
1 AAAAGGAAAA-GG
711680 AAAAGGAAA
1 AAAAGGAAA
711689 TACACCATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (12 bp):
AAAAGGAAAAGG
Found at i:711682 original size:7 final size:6
Alignment explanation
Indices: 711655--711688 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
711645 CCCAGCAAAC
*
711655 AAAAGG AAAAGG AAAAAG AAAAGGG AAAAGG AAA
1 AAAAGG AAAAGG AAAAGG AAAA-GG AAAAGG AAA
711689 TACACCATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (6 bp):
AAAAGG
Found at i:712414 original size:2 final size:2
Alignment explanation
Indices: 712409--712446 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
712399 ATTTTTTACA
712409 AT AT 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 AT AT
712447 TAATAACTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:713976 original size:20 final size:21
Alignment explanation
Indices: 713943--713988 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
713933 GTTAAATCCC
713943 TATTTTATTGAATAAAAATAA
1 TATTTTATTGAATAAAAATAA
* * *
713964 TATTTT-TTTAATAAATATAT
1 TATTTTATTGAATAAAAATAA
713984 TATTT
1 TATTT
713989 CAGGTCGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TATTTTATTGAATAAAAATAA
Found at i:719507 original size:28 final size:28
Alignment explanation
Indices: 719467--719536 Score: 140
Period size: 28 Copynumber: 2.5 Consensus size: 28
719457 GTTCCTACCT
719467 ATGAATGGTCACATTTTTTTTAACAAAG
1 ATGAATGGTCACATTTTTTTTAACAAAG
719495 ATGAATGGTCACATTTTTTTTAACAAAG
1 ATGAATGGTCACATTTTTTTTAACAAAG
719523 ATGAATGGTCACAT
1 ATGAATGGTCACAT
719537 ATAGATGATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (28 bp):
ATGAATGGTCACATTTTTTTTAACAAAG
Found at i:719623 original size:35 final size:35
Alignment explanation
Indices: 719577--719707 Score: 235
Period size: 35 Copynumber: 3.7 Consensus size: 35
719567 ACCTTTCACA
* *
719577 TATCAATGACCCAAAGGGTATTATTTACGGCATGT
1 TATCAAGGACCCAAAGGGTATTATTTAAGGCATGT
*
719612 TATCAAGGACCCATAGGGTATTATTTAAGGCATGT
1 TATCAAGGACCCAAAGGGTATTATTTAAGGCATGT
719647 TATCAAGGACCCAAAGGGTATTATTTAAGGCATGT
1 TATCAAGGACCCAAAGGGTATTATTTAAGGCATGT
719682 TATCAAGGACCCAAAGGGTATTATTT
1 TATCAAGGACCCAAAGGGTATTATTT
719708 CGTCTCGTAC
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 92 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (35 bp):
TATCAAGGACCCAAAGGGTATTATTTAAGGCATGT
Found at i:721416 original size:29 final size:29
Alignment explanation
Indices: 721374--721440 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
721364 ACCAGCCTTA
* * *
721374 GAAAAATTGGGGATCATTTCGTAAGTTTT
1 GAAAAATTGGGGATAAATTCGTAAATTTT
* *
721403 GAAAAGTTTGGGATAAATTCGTAAATTTT
1 GAAAAATTGGGGATAAATTCGTAAATTTT
721432 GAAAAATTG
1 GAAAAATTG
721441 ATGAAGAATC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.36
Consensus pattern (29 bp):
GAAAAATTGGGGATAAATTCGTAAATTTT
Found at i:722771 original size:40 final size:40
Alignment explanation
Indices: 722716--722837 Score: 235
Period size: 40 Copynumber: 3.0 Consensus size: 40
722706 TGCAGGTTTT
722716 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
722756 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
722796 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
722836 TA
1 TA
722838 GCACTACGGT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:723048 original size:51 final size:48
Alignment explanation
Indices: 722976--723106 Score: 165
Period size: 51 Copynumber: 2.7 Consensus size: 48
722966 TAATGGCAAA
* * *
722976 TATATGGGTAAAATAAGCTTACGAGCTTATGGAA-TTTAAATGGTAAG
1 TATATTGGAAAAATAAGCTTACGAGCTTATGGAATTTTAAACGGTAAG
723023 TATATTGGAAAAAAATATAAGCTTACGAGCTTATGGAATTTTAAACGGTAAG
1 TATATTGG---AAAA-ATAAGCTTACGAGCTTATGGAATTTTAAACGGTAAG
* * *
723075 TATTTTGGTAAAATAAGCTTACAAGCTTATGG
1 TATATTGGAAAAATAAGCTTACGAGCTTATGG
723107 GATAAATCGT
Statistics
Matches: 73, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
47 7 0.10
48 19 0.26
49 3 0.04
50 3 0.04
51 22 0.30
52 19 0.26
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.33
Consensus pattern (48 bp):
TATATTGGAAAAATAAGCTTACGAGCTTATGGAATTTTAAACGGTAAG
Found at i:723533 original size:30 final size:30
Alignment explanation
Indices: 723499--723557 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
723489 TTTCGGAAGT
* *
723499 ACTGTAGTAGTTACTGTAGTGTATCGATGC
1 ACTGTAGCAGTTACTGTAGCGTATCGATGC
*
723529 ACTGTAGCAGTTGCTGTAGCGTATCGATG
1 ACTGTAGCAGTTACTGTAGCGTATCGATG
723558 TATAATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (30 bp):
ACTGTAGCAGTTACTGTAGCGTATCGATGC
Found at i:725274 original size:18 final size:19
Alignment explanation
Indices: 725248--725285 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
725238 TTGTAATGTG
*
725248 ATATGTTGT-ATTCGGAAA
1 ATATATTGTCATTCGGAAA
725266 ATATATTGTGCATTCGGAAA
1 ATATATTGT-CATTCGGAAA
725286 TATTTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (19 bp):
ATATATTGTCATTCGGAAA
Found at i:726625 original size:31 final size:32
Alignment explanation
Indices: 726587--726654 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 32
726577 TTTGAGGATT
** *
726587 ATTTTATAATAGTTTGATAACTTTTAA-GATC
1 ATTTTATAATAACTTGATAAATTTTAATGATC
726618 ATTTTATAATAACTTGATAAATTTTAATGATC
1 ATTTTATAATAACTTGATAAATTTTAATGATC
726650 ATTTT
1 ATTTT
726655 GTTATTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 24 0.73
32 9 0.27
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.50
Consensus pattern (32 bp):
ATTTTATAATAACTTGATAAATTTTAATGATC
Found at i:727846 original size:48 final size:48
Alignment explanation
Indices: 727779--727971 Score: 208
Period size: 48 Copynumber: 4.0 Consensus size: 48
727769 ACCGAAGCCT
* * * * * *
727779 GAAGCACTCGCGCCACCACTTCCGCCAACACTAGCATGGCCACTACCA
1 GAAGCACTGGCACCACCACTTCCACCAACATTAGCATGACCACTTCCA
* * * ** *
727827 AAAGCACTAGCACCGCCACTTCCACCAACATTAGTTTTACCACTTCCA
1 GAAGCACTGGCACCACCACTTCCACCAACATTAGCATGACCACTTCCA
* *
727875 GAAGCGCTGGCACCACCACCTCCACCAACATTAGCATGACCACTTCCA
1 GAAGCACTGGCACCACCACTTCCACCAACATTAGCATGACCACTTCCA
* * * *
727923 GAAGCACTGGCTCCGCCACTTCCAGCAACATTAGCTTCG-CCACTTCCA
1 GAAGCACTGGCACCACCACTTCCACCAACATTAGCAT-GACCACTTCCA
727971 G
1 G
727972 CAACATTAGC
Statistics
Matches: 119, Mismatches: 25, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
48 118 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.40, G:0.15, T:0.18
Consensus pattern (48 bp):
GAAGCACTGGCACCACCACTTCCACCAACATTAGCATGACCACTTCCA
Found at i:727892 original size:24 final size:24
Alignment explanation
Indices: 727865--727947 Score: 69
Period size: 24 Copynumber: 3.5 Consensus size: 24
727855 CATTAGTTTT
*
727865 ACCACTTCCAGAAGCGCTGGCACC
1 ACCACTTCCAGAAGCACTGGCACC
* * * * **
727889 ACCACCTCCACCAA-CATTAGCATG
1 ACCACTTCCA-GAAGCACTGGCACC
*
727913 ACCACTTCCAGAAGCACTGGCTCC
1 ACCACTTCCAGAAGCACTGGCACC
*
727937 GCCACTTCCAG
1 ACCACTTCCAG
727948 CAACATTAGC
Statistics
Matches: 42, Mismatches: 15, Indels: 4
0.69 0.25 0.07
Matches are distributed among these distances:
23 2 0.05
24 38 0.90
25 2 0.05
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (24 bp):
ACCACTTCCAGAAGCACTGGCACC
Found at i:727943 original size:96 final size:96
Alignment explanation
Indices: 727791--727971 Score: 254
Period size: 96 Copynumber: 1.9 Consensus size: 96
727781 AGCACTCGCG
* * *
727791 CCACCACTTCCGCCAACACTAGCATGGCCACTACCAAAAGCACTAGCACCGCCACTTCCACCAAC
1 CCACCACCTCCACCAACACTAGCATGACCACTACCAAAAGCACTAGCACCGCCACTTCCACCAAC
* *
727856 ATTAGTTTTACCACTTCCAGAAGCGCTGGCA
66 ATTAGCTTCACCACTTCCAGAAGCGCTGGCA
* * * * * *
727887 CCACCACCTCCACCAACATTAGCATGACCACTTCCAGAAGCACTGGCTCCGCCACTTCCAGCAAC
1 CCACCACCTCCACCAACACTAGCATGACCACTACCAAAAGCACTAGCACCGCCACTTCCACCAAC
*
727952 ATTAGCTTCGCCACTTCCAG
66 ATTAGCTTCACCACTTCCAG
727972 CAACATTAGC
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 73 1.00
ACGTcount: A:0.28, C:0.41, G:0.13, T:0.18
Consensus pattern (96 bp):
CCACCACCTCCACCAACACTAGCATGACCACTACCAAAAGCACTAGCACCGCCACTTCCACCAAC
ATTAGCTTCACCACTTCCAGAAGCGCTGGCA
Found at i:728797 original size:24 final size:23
Alignment explanation
Indices: 728770--728845 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 23
728760 CCTGAAGCAC
728770 TAGCACTGCCACTTCCACCAACAT
1 TAGC-CTGCCACTTCCACCAACAT
* * *
728794 TAGCTTGACCACTTCCA-GAAGCAC
1 TAGCCTG-CCACTTCCACCAA-CAT
* *
728818 TAGCGCCGCCATTTCCACCAACAT
1 TAGC-CTGCCACTTCCACCAACAT
728842 TAGC
1 TAGC
728846 TTCACCCTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
23 4 0.10
24 33 0.82
25 3 0.08
ACGTcount: A:0.28, C:0.38, G:0.13, T:0.21
Consensus pattern (23 bp):
TAGCCTGCCACTTCCACCAACAT
Found at i:729475 original size:24 final size:24
Alignment explanation
Indices: 729448--729523 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
729438 GCACTTCCTC
729448 CACCATGTCCACCAACATTAGCTT
1 CACCATGTCCACCAACATTAGCTT
* **
729472 CACCACT-TCCA-AAAGCATTAGCAC
1 CACCA-TGTCCACCAA-CATTAGCTT
*
729496 CACCATGTCCACCAACATTGGCTT
1 CACCATGTCCACCAACATTAGCTT
729520 CACC
1 CACC
729524 TTTTCCAGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
23 3 0.07
24 35 0.85
25 3 0.07
ACGTcount: A:0.30, C:0.39, G:0.09, T:0.21
Consensus pattern (24 bp):
CACCATGTCCACCAACATTAGCTT
Found at i:729520 original size:48 final size:48
Alignment explanation
Indices: 727938--729569 Score: 1525
Period size: 48 Copynumber: 34.0 Consensus size: 48
727928 ACTGGCTCCG
* ** * *
727938 CCACTTCCAGCAA-CATTAGCTTCGCCACTTCCAGCAACATTAGCTTGG
1 CCACTTCCAG-AAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
* * * * * * *
727986 CCACTTCCAAAAACACTAGCTCCTCCATTTCCAGCAACATTAGCATGA
1 CCACTTCCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
* * *
728034 CCACTTCCAGAAGCACTAGCTCCGCCACTTCCAGCAACATTAGCTTGG
1 CCACTTCCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
* * *
728082 CCACTTCCAGAAGCACTAGCTCCGCCACTTCCAGCAACATTAGCATGA
1 CCACTTCCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
* * *
728130 CCACTTCCAGAAGCACTAGCTCCGCCACTTCCAGCAACATTAGCTTGG
1 CCACTTCCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
* * *
728178 CCACTTCCAGAAGCACTAGCTA-TGCCACTTCCAGCAACATTAGCATGA
1 CCACTTCCAGAAGCACTAGC-ACCGCCACTTCCACCAACATTAGCTTGA
* * * * *
728226 CTATTTCCAGAAGCACTAGCTCTGCCACTTCCACCAACATTAGCTTGG
1 CCACTTCCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
* * * *
728274 CCACTTCCAGAAGCACTAGCTCTGCCACTGCCACCAACATTAGCATGA
1 CCACTTCCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
* *
728322 CCACTTCCAGAAGCACTAGCTCCGCCACTTCCACCAACATTAGCTTGG
1 CCACTTCCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
* *
728370 CCACTTCCAGAAGCACTAGCTCCGCCACTTCCACCAACATTAGCTTGG
1 CCACTTCCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
* * *
728418 CCACTTCCAGAAGCACTAGCTCCGCCACTTCCACCAATATTAGCTTCA
1 CCACTTCCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
* * * *
728466 CC-TTTACCGGAAGCACTGGCACCGCCACTTCCACCAACATTAGCATGA
1 CCACTT-CCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
* * ** * *
728514 CCTCTACCAGAAGCACTAGCACTACCACTTCCATCAGCATTAGCTTGA
1 CCACTTCCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
* * * * *
728562 CCACTGCCAAAAGTACTAGCATCGCCACTTCCACCAACATTAGCTTCA
1 CCACTTCCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
* *
728610 CC-CTTGCCAGAAGCACTAGCACCGCCACTTCCACCAATATTAGCTTCA
1 CCACTT-CCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
* * *
728658 CC-CTTACCGGAAGCACTAGCGCCGCCACTTCCACCAACATTAGCTTCA
1 CCACTT-CCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
* * * * * *
728706 CCACTACCATAAGCACTGGCACCACCA--T-CACCATCACTTTTAGCTTCA
1 CCACTTCCAGAAGCACTAGCACCGCCACTTCCACCA--AC-ATTAGCTTGA
** * *
728754 CCTTTTCCTGAAGCACTAGCACTGCCACTTCCACCAACATTAGCTTGA
1 CCACTTCCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
* * *
728802 CCACTTCCAGAAGCACTAGCGCCGCCATTTCCACCAACATTAGCTTCA
1 CCACTTCCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
* * * * * *
728850 CC-CTTTCCGGAAGCACTAGCGCCGACATTTCCACCAATATTAGCTTCA
1 CCAC-TTCCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
* * * *
728898 CC-CTTTCCAGAAACACTAGCACTGCCACTTCCACCAACATTAGTTTCA
1 CCAC-TTCCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
* * *
728946 CC-CTTGCCAGAAGCACTAGCGCCGCCAGTTCCACCAACATTAGCTTCA
1 CCACTT-CCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
* *
728994 CC-CTTGCC-GAAAGCGCTAGCACCGCCACTTCCACCAACATTAGCTTCA
1 CCACTT-CCAG-AAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
* * * *
729042 CC-CTTTCCAAAAGCACTAGCGCCGCCACTTCCACCAATATTAGCTTCA
1 CCAC-TTCCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
** *
729090 CCTTTTCCAGAAGCACT-G-ACTCTTCCACTTCCACCAACATTAGCTTGA
1 CCACTTCCAGAAGCACTAGCAC-C-GCCACTTCCACCAACATTAGCTTGA
* *
729138 CCACTTCCAGAAGCACTTGCGCCGCCACTTCCACCAATC-TTAGCTTGA
1 CCACTTCCAGAAGCACTAGCACCGCCACTTCCACCAA-CATTAGCTTGA
* * ** * *
729186 CCACTGCCAGAAGCACTAACACTTCCA-TGTCCACCTACATTGGCTTGA
1 CCACTTCCAGAAGCACTAGCACCGCCACT-TCCACCAACATTAGCTTGA
* * * * *
729234 CCACTACCAGAAGCACTGGCACCACCA-TGTCTACCAACATTGGCTTGA
1 CCACTTCCAGAAGCACTAGCACCGCCACT-TCCACCAACATTAGCTTGA
* * * * *
729282 CCGA-TGCCAAAAGCACTAGCACCACCACTTCCACC-ACTTTTAGCTTCA
1 CC-ACTTCCAGAAGCACTAGCACCGCCACTTCCACCAAC-ATTAGCTTGA
* * * * ** * *
729330 CC-CTTACCGGAAGCACTGGCGCTGCCA-TGTCCATAAACATTGGCTTCA
1 CCACTT-CCAGAAGCACTAGCACCGCCACT-TCCACCAACATTAGCTTGA
** * * * * *
729378 CTTCTACCAGAAGCACTGGCCCCACCA-TGTCCAGCAACATTAGCTTGA
1 CCACTTCCAGAAGCACTAGCACCGCCACT-TCCACCAACATTAGCTTGA
* ** * * *
729426 CCACTTCCGGAAGCACTTCCTCCACCA-TGTCCACCAACATTAGCTTCA
1 CCACTTCCAGAAGCACTAGCACCGCCACT-TCCACCAACATTAGCTTGA
* * * * *
729474 CCACTTCCAAAAGCATTAGCACCACCA-TGTCCACCAACATTGGCTTCA
1 CCACTTCCAGAAGCACTAGCACCGCCACT-TCCACCAACATTAGCTTGA
** * * ** * *
729522 CCTTTTCCAGTAGCACTAGCACCACCTTTTCTACCAATATTAGCTTGA
1 CCACTTCCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
729570 GCATCAGCAC
Statistics
Matches: 1349, Mismatches: 200, Indels: 70
0.83 0.12 0.04
Matches are distributed among these distances:
45 5 0.00
46 2 0.00
47 20 0.01
48 1298 0.96
49 17 0.01
50 2 0.00
51 5 0.00
ACGTcount: A:0.27, C:0.37, G:0.13, T:0.22
Consensus pattern (48 bp):
CCACTTCCAGAAGCACTAGCACCGCCACTTCCACCAACATTAGCTTGA
Found at i:729873 original size:18 final size:18
Alignment explanation
Indices: 729845--729887 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
729835 AATTATATCC
*
729845 ACCACCCCCACCACCATA
1 ACCACCACCACCACCATA
*
729863 AGCACCACCACCACCATA
1 ACCACCACCACCACCATA
729881 ACCACCA
1 ACCACCA
729888 TGATGACCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.37, C:0.56, G:0.02, T:0.05
Consensus pattern (18 bp):
ACCACCACCACCACCATA
Found at i:731136 original size:24 final size:24
Alignment explanation
Indices: 731088--731134 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
731078 CAAAAATAAT
731088 TGAGTAATAATAATTTTATCAAAA
1 TGAGTAATAATAATTTTATCAAAA
*
731112 TGAGTAAT-ATTATTTTATCAAAA
1 TGAGTAATAATAATTTTATCAAAA
731135 ATAATATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (24 bp):
TGAGTAATAATAATTTTATCAAAA
Found at i:731141 original size:20 final size:22
Alignment explanation
Indices: 731089--731151 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
731079 AAAAATAATT
*
731089 GAGTAATAATAATTTTATCAAAA
1 GAGTAAT-ATTATTTTATCAAAA
731112 TGAGTAATATTATTTTATCAAAA
1 -GAGTAATATTATTTTATCAAAA
731135 -A-TAATATTGATTATTAT
1 GAGTAATATT-ATT-TTAT
731152 GTTACTATCT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
20 7 0.19
21 4 0.11
22 4 0.11
23 14 0.39
24 7 0.19
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (22 bp):
GAGTAATATTATTTTATCAAAA
Found at i:731248 original size:18 final size:18
Alignment explanation
Indices: 731225--731262 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
731215 ATGAATTATA
731225 TGTTGATATTTATATAAT
1 TGTTGATATTTATATAAT
731243 TGTTGATATTTATATAAT
1 TGTTGATATTTATATAAT
731261 TG
1 TG
731263 AGTGACCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (18 bp):
TGTTGATATTTATATAAT
Found at i:732004 original size:22 final size:21
Alignment explanation
Indices: 731946--731996 Score: 88
Period size: 20 Copynumber: 2.5 Consensus size: 21
731936 TCTAGCATGT
731946 AAGTTTATAGTTTACGTAGAG
1 AAGTTTATAGTTTACGTAGAG
731967 AA-TTTATAGTTTACGTAGAG
1 AAGTTTATAGTTTACGTAGAG
731987 AAGTTT-TAGT
1 AAGTTTATAGT
731997 GTTGACGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 24 0.83
21 5 0.17
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (21 bp):
AAGTTTATAGTTTACGTAGAG
Found at i:733167 original size:48 final size:48
Alignment explanation
Indices: 733084--733207 Score: 130
Period size: 48 Copynumber: 2.6 Consensus size: 48
733074 AGTATTGTGA
*
733084 ACTTCTCACCAACATTAGCATGTCCACTGCTAGAAGCGA-TAGCGCCT-CC
1 ACTTC-CACCAACATTAGCATGTCCACTGCCAGAAGC-ACTAGCG-CTACC
* * *
733133 ACTTCCACCAACATTAG-TTTTACCTCTGCCAGAAGCACTAGCGCTACC
1 ACTTCCACCAACATTAGCATGT-CCACTGCCAGAAGCACTAGCGCTACC
*
733181 ACCTCCACCAACATTAG-ATGTTCCACT
1 ACTTCCACCAACATTAGCATG-TCCACT
733208 ACCAACAACA
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
47 5 0.08
48 52 0.83
49 6 0.10
ACGTcount: A:0.27, C:0.35, G:0.13, T:0.24
Consensus pattern (48 bp):
ACTTCCACCAACATTAGCATGTCCACTGCCAGAAGCACTAGCGCTACC
Found at i:733393 original size:48 final size:48
Alignment explanation
Indices: 733341--733579 Score: 232
Period size: 48 Copynumber: 5.0 Consensus size: 48
733331 ACCTACAATG
* * *
733341 GCTTGACCACTACCAGAAGCACTAGCACCGCTACTTCCACCGACATTA
1 GCTTGACCACTACCAGAAGCACTAGCACCACCACTTCCACCAACATTA
* ** * *
733389 GCTTGGCCACTTTCGGAAGCACTAGCACCTCCACTTCCACCAACATT-
1 GCTTGACCACTACCAGAAGCACTAGCACCACCACTTCCACCAACATTA
*
733436 GACTTGACCACTACCAGAAGCACTAGCGCCACCACTTCCACCAACATTA
1 G-CTTGACCACTACCAGAAGCACTAGCACCACCACTTCCACCAACATTA
* * *** * * *
733485 GCTTGACCACTACCGGAAGCAC-CGACATTGCCACCTCCACTATCATTA
1 GCTTGACCACTACCAGAAGCACTAG-CACCACCACTTCCACCAACATTA
** * * *
733533 GCTTCTCC-CTTTCCAAAAGCACTAGCACCACCACTTCCACCTACATT
1 GCTTGACCAC-TACCAGAAGCACTAGCACCACCACTTCCACCAACATT
733580 TAGCGCGTGA
Statistics
Matches: 151, Mismatches: 35, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
47 3 0.02
48 146 0.97
49 2 0.01
ACGTcount: A:0.28, C:0.39, G:0.13, T:0.21
Consensus pattern (48 bp):
GCTTGACCACTACCAGAAGCACTAGCACCACCACTTCCACCAACATTA
Found at i:733429 original size:96 final size:96
Alignment explanation
Indices: 733329--733506 Score: 266
Period size: 96 Copynumber: 1.9 Consensus size: 96
733319 AGCACTAGTG
* * * * *
733329 CCACCTACAATGGCTTGACCACTACCAGAAGCACTAGCACCGCTACTTCCACCGACATTAGCTTG
1 CCACCAACAATGACTTGACCACTACCAGAAGCACTAGCACCACCACTTCCACCAACATTAGCTTG
* **
733394 GCCACTTTCGGAAGCACTAGCACCTCCACTT
66 ACCACTACCGGAAGCACTAGCACCTCCACTT
* *
733425 CCACCAACATTGACTTGACCACTACCAGAAGCACTAGCGCCACCACTTCCACCAACATTAGCTTG
1 CCACCAACAATGACTTGACCACTACCAGAAGCACTAGCACCACCACTTCCACCAACATTAGCTTG
733490 ACCACTACCGGAAGCAC
66 ACCACTACCGGAAGCAC
733507 CGACATTGCC
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 72 1.00
ACGTcount: A:0.29, C:0.38, G:0.15, T:0.19
Consensus pattern (96 bp):
CCACCAACAATGACTTGACCACTACCAGAAGCACTAGCACCACCACTTCCACCAACATTAGCTTG
ACCACTACCGGAAGCACTAGCACCTCCACTT
Found at i:733493 original size:24 final size:24
Alignment explanation
Indices: 733419--733495 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
733409 ACTAGCACCT
733419 CCACTTCCACCAACATT-GACTTGA
1 CCACTTCCACCAACATTAG-CTTGA
* * * ***
733443 CCACTACCA-GAAGCACTAGCGCCA
1 CCACTTCCACCAA-CATTAGCTTGA
733467 CCACTTCCACCAACATTAGCTTGA
1 CCACTTCCACCAACATTAGCTTGA
733491 CCACT
1 CCACT
733496 ACCGGAAGCA
Statistics
Matches: 38, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
23 2 0.05
24 33 0.87
25 3 0.08
ACGTcount: A:0.30, C:0.40, G:0.10, T:0.19
Consensus pattern (24 bp):
CCACTTCCACCAACATTAGCTTGA
Found at i:733524 original size:96 final size:96
Alignment explanation
Indices: 733341--733579 Score: 261
Period size: 96 Copynumber: 2.5 Consensus size: 96
733331 ACCTACAATG
* * * * **
733341 GCTTGACCACTACCAGAAGCACTAGCACCGCTACTTCCACCGACATTAGCTTGGCCACTTTCGGA
1 GCTTGACCACTACCAGAAGCACTAGCACCACCACTTCCACCAACATTAGCTTGACCACTACCGGA
* *
733406 AGCACTAGCACCTCCACTTCCACCAACATT-
66 AGCACGAGCACCTCCACCTCCACCAACATTA
*
733436 GACTTGACCACTACCAGAAGCACTAGCGCCACCACTTCCACCAACATTAGCTTGACCACTACCGG
1 G-CTTGACCACTACCAGAAGCACTAGCACCACCACTTCCACCAACATTAGCTTGACCACTACCGG
* * *
733501 AAGCACCGA-CA-TTGCCACCTCCACTATCATTA
65 AAGCA-CGAGCACCT-CCACCTCCACCAACATTA
** * * *
733533 GCTTCTCC-CTTTCCAAAAGCACTAGCACCACCACTTCCACCTACATT
1 GCTTGACCAC-TACCAGAAGCACTAGCACCACCACTTCCACCAACATT
733580 TAGCGCGTGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
95 3 0.02
96 115 0.95
97 3 0.02
ACGTcount: A:0.28, C:0.39, G:0.13, T:0.21
Consensus pattern (96 bp):
GCTTGACCACTACCAGAAGCACTAGCACCACCACTTCCACCAACATTAGCTTGACCACTACCGGA
AGCACGAGCACCTCCACCTCCACCAACATTA
Found at i:737289 original size:17 final size:17
Alignment explanation
Indices: 737251--737328 Score: 111
Period size: 17 Copynumber: 4.4 Consensus size: 17
737241 CCAAATAGTA
737251 AGAGGGTATCTTGCACCACC
1 AGAGGGTATCTTG---CACC
737271 AGAGGGTATCTTGCACC
1 AGAGGGTATCTTGCACC
737288 AGAGGGTATCTTGCACC
1 AGAGGGTATCTTGCACC
**
737305 AGCTGGTATCTTGCACC
1 AGAGGGTATCTTGCACC
737322 AGAGGGT
1 AGAGGGT
737329 TCTGGAGCAA
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
17 41 0.76
20 13 0.24
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (17 bp):
AGAGGGTATCTTGCACC
Found at i:744668 original size:207 final size:204
Alignment explanation
Indices: 744310--744691 Score: 629
Period size: 207 Copynumber: 1.9 Consensus size: 204
744300 TCGGTGACAA
* * **
744310 AGTTTCCGATAAAATTAGTTGCGGAATTGGTGAAGGTAGTAATGAAATTGGTGAGAAATGCACTG
1 AGTTTCCGATAAAATTAGTGGCGGAATTGGTGAAGGTAGTAACGAAATTCATGAGAAATGCACTG
*
744375 ACAAGATCAGTGACAAAAGAGTTACTGACAGAGTCAGTCATAAGGTTTGTGGCACCACTAGCTGC
66 ACAAGATCAGTGACAAAAGAGTTACTGACAGAGTCAGTCATAAGGTTTGTGGCACCACTACCTGC
744440 ATATTTGGTGAAATGGTTTGTGGCAGATTTGGTCGAATGGTTCGTGACAAAGTTAATGACAAAAT
131 ATATTTGGTGAAATGGTTTGTGGCAGATTTGGTCGAATGGTTCGTGACAAAGTTAATGACAAAAT
744505 TAGTGGCAG
196 TAGTGGCAG
* *
744514 AGTTTGCGATAAAATTAGTGGCGGAATTGGTGAAGAAGGTAGTAACGAAGTTCATGAGAAATGCA
1 AGTTTCCGATAAAATTAGTGGCGGAATTGGT---GAAGGTAGTAACGAAATTCATGAGAAATGCA
* * * * *
744579 CTGATAAGATCAGTGGCAATAGAGTTACTGACGGAGTCGGTCATAAGGTTTGTGGCACCACTACC
63 CTGACAAGATCAGTGACAAAAGAGTTACTGACAGAGTCAGTCATAAGGTTTGTGGCACCACTACC
744644 TGCATATTTGGTGAAATGGTTTGTGGCAGATTTGGTCGAATGGTTCGT
128 TGCATATTTGGTGAAATGGTTTGTGGCAGATTTGGTCGAATGGTTCGT
744692 TACATATTTG
Statistics
Matches: 163, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
204 29 0.18
207 134 0.82
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.28
Consensus pattern (204 bp):
AGTTTCCGATAAAATTAGTGGCGGAATTGGTGAAGGTAGTAACGAAATTCATGAGAAATGCACTG
ACAAGATCAGTGACAAAAGAGTTACTGACAGAGTCAGTCATAAGGTTTGTGGCACCACTACCTGC
ATATTTGGTGAAATGGTTTGTGGCAGATTTGGTCGAATGGTTCGTGACAAAGTTAATGACAAAAT
TAGTGGCAG
Found at i:744685 original size:24 final size:23
Alignment explanation
Indices: 744649--744712 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
744639 CTACCTGCAT
* *
744649 ATTTGGTGAAATGGTTTGTGGCAG
1 ATTTGGTG-AATGGTTCGTGACAG
* *
744673 ATTTGGTCGAATGGTTCGTTACAT
1 ATTTGGT-GAATGGTTCGTGACAG
744697 ATTTGGTGGAATGGTT
1 ATTTGGT-GAATGGTT
744713 AATGGCGACG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 33 0.97
25 1 0.03
ACGTcount: A:0.20, C:0.06, G:0.33, T:0.41
Consensus pattern (23 bp):
ATTTGGTGAATGGTTCGTGACAG
Found at i:747935 original size:15 final size:15
Alignment explanation
Indices: 747911--747943 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
747901 TGTATAGTTT
747911 AAATTAAAAT-TTTA
1 AAATTAAAATATTTA
747925 AAATATAAAATATTTA
1 AAAT-TAAAATATTTA
747941 AAA
1 AAA
747944 AAATCAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 6 0.35
16 7 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATTAAAATATTTA
Found at i:750649 original size:12 final size:11
Alignment explanation
Indices: 750632--750672 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
750622 TGACATAAAT
750632 TTTGTCATCTAA
1 TTTGTCA-CTAA
750644 TTTGTCACTAA
1 TTTGTCACTAA
750655 CTTTGTCACTAAA
1 -TTTGTCACT-AA
750668 TTTGT
1 TTTGT
750673 AGTCTTCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.15
12 21 0.78
13 2 0.07
ACGTcount: A:0.24, C:0.17, G:0.10, T:0.49
Consensus pattern (11 bp):
TTTGTCACTAA
Found at i:752741 original size:16 final size:16
Alignment explanation
Indices: 752720--752753 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
752710 TTACTATTCA
*
752720 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
752736 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
752752 CG
1 CG
752754 GTCGACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:754459 original size:12 final size:12
Alignment explanation
Indices: 754442--754467 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
754432 GTTGAGGTTT
754442 GACAATGGAGGA
1 GACAATGGAGGA
754454 GACAATGGAGGA
1 GACAATGGAGGA
754466 GA
1 GA
754468 GTACAGAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.42, T:0.08
Consensus pattern (12 bp):
GACAATGGAGGA
Found at i:758491 original size:20 final size:20
Alignment explanation
Indices: 758466--758503 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
758456 AATAGTTTCT
758466 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
758486 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
758504 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:758792 original size:22 final size:22
Alignment explanation
Indices: 758767--758810 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
758757 GATTTAGATA
758767 GACGGATTTCGCCGAAGATGGG
1 GACGGATTTCGCCGAAGATGGG
* *
758789 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGAAGATGGG
758811 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGAAGATGGG
Found at i:759027 original size:20 final size:20
Alignment explanation
Indices: 759002--759050 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
758992 ATGTATTATT
759002 GCGTTGCGAAAG-ACAGTATC
1 GCGTTGCGAAAGTA-AGTATC
759022 GCGTTGCGAAAGTAAGTATC
1 GCGTTGCGAAAGTAAGTATC
*
759042 TCGTTGCGA
1 GCGTTGCGA
759051 TTTTTTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (20 bp):
GCGTTGCGAAAGTAAGTATC
Found at i:759069 original size:21 final size:21
Alignment explanation
Indices: 759036--759136 Score: 59
Period size: 20 Copynumber: 4.9 Consensus size: 21
759026 TGCGAAAGTA
* * *
759036 AGTATCTCGTTGCGATTTTTT
1 AGTATCGCATTGCGATTTTTC
* **
759057 ATTATCGCATTGCGA-TAGTC
1 AGTATCGCATTGCGATTTTTC
*
759077 AGTATCGCATTGCGATTTTCCC
1 AGTATCGCATTGCGATTTT-TC
* *
759099 AAT-TCGCGTTGCGATTTACTT-
1 AGTATCGCATTGCGATTT--TTC
759120 A-T-TCGCATTGCGATTTT
1 AGTATCGCATTGCGATTTT
759137 CCCAATTCGC
Statistics
Matches: 62, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
18 1 0.02
20 30 0.48
21 27 0.44
22 3 0.05
23 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.43
Consensus pattern (21 bp):
AGTATCGCATTGCGATTTTTC
Found at i:759084 original size:20 final size:20
Alignment explanation
Indices: 758978--759092 Score: 70
Period size: 20 Copynumber: 5.7 Consensus size: 20
758968 CGCTTTGAAA
*
758978 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * * *
758999 ATTGCGTTGCGAAAGACAGT
1 ATCGCATTGCGATAGTCAGT
* * *
759019 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
759039 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
759060 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
759080 ATCGCATTGCGAT
1 ATCGCATTGCGAT
759093 TTTCCCAATT
Statistics
Matches: 72, Mismatches: 20, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
19 1 0.01
20 48 0.67
21 23 0.32
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:759111 original size:41 final size:41
Alignment explanation
Indices: 759020--759154 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
759010 AAAGACAGTA
* * * ** *
759020 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
759060 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
759102 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
759143 TCGCGTTGCGAT
1 TCGCGTTGCGAT
759155 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:759146 original size:21 final size:20
Alignment explanation
Indices: 759081--759173 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
759071 ATAGTCAGTA
*
759081 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACCAAT
* **
759102 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
*
759122 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACCAAT
* **
759143 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
759163 TCGCATTGCGA
1 TCGCATTGCGA
759174 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACCAAT
Found at i:759155 original size:41 final size:41
Alignment explanation
Indices: 759081--759173 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
759071 ATAGTCAGTA
759081 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
759122 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
759163 TCGCATTGCGA
1 TCGCATTGCGA
759174 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:763918 original size:24 final size:24
Alignment explanation
Indices: 763868--763919 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
763858 TTTGGGAATA
* **
763868 GAGAAAGGAGGGTTAGGGATTTTG
1 GAGAAAGAAGGGTTAGGGATTCGG
763892 GAGAAAGAAGGGTTAGGGATTCGG
1 GAGAAAGAAGGGTTAGGGATTCGG
763916 GAGA
1 GAGA
763920 GTAAATTGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.46, T:0.19
Consensus pattern (24 bp):
GAGAAAGAAGGGTTAGGGATTCGG
Found at i:768488 original size:150 final size:148
Alignment explanation
Indices: 768197--768494 Score: 569
Period size: 150 Copynumber: 2.0 Consensus size: 148
768187 TCGTCAATCA
768197 GTGTTTAGAGCAATATTTAAGGGGCATTTGTTTTTATCAGCCTAGATATGGGCTAAATGGCTACC
1 GTGTTTAGAGCAATATTTAAGGGGCATTTGTTTTTATCAGCCTAGATATGGGCTAAATGGCTACC
768262 TCTGGCAGAGTGGTGGTACAACACACTTACCATACGAATTTAAAATTAACTCCTTTCCAGGCTTT
66 TCTGGCAGAGTGGTGGTACAACACACTTACCATACGAATTTAAAATTAACTCCTTTCCAGGCTTT
*
768327 ATATGGTTACAAATCACC
131 ATATGGGTACAAATCACC
768345 GTGTTTAGAGCAATATTTAAGGGGCATTTGTTTTTATCAGCCTAGATATTGGGCTAAATGGCTAC
1 GTGTTTAGAGCAATATTTAAGGGGCATTTGTTTTTATCAGCCTAGATA-TGGGCTAAATGGCTAC
768410 CTCTGGCAGAGTGGTGGTACAACACCACTTACCATACGAATTTAAAATTAACTCCTTTCCAGGCT
65 CTCTGGCAGAGTGGTGGTACAACA-CACTTACCATACGAATTTAAAATTAACTCCTTTCCAGGCT
768475 TTATATGGGTACAAATCACC
129 TTATATGGGTACAAATCACC
768495 TACTATGGTT
Statistics
Matches: 147, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
148 48 0.33
149 40 0.27
150 59 0.40
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (148 bp):
GTGTTTAGAGCAATATTTAAGGGGCATTTGTTTTTATCAGCCTAGATATGGGCTAAATGGCTACC
TCTGGCAGAGTGGTGGTACAACACACTTACCATACGAATTTAAAATTAACTCCTTTCCAGGCTTT
ATATGGGTACAAATCACC
Found at i:769176 original size:23 final size:24
Alignment explanation
Indices: 769150--769195 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
769140 TTGGGAATGA
*
769150 AGAAAGGA-GGTTAGGGATTTGGG
1 AGAAAGAAGGGTTAGGGATTTGGG
769173 AGAAAGAAGGGTTAGGGATTTGG
1 AGAAAGAAGGGTTAGGGATTTGG
769196 AGAGTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.33, C:0.00, G:0.46, T:0.22
Consensus pattern (24 bp):
AGAAAGAAGGGTTAGGGATTTGGG
Found at i:770991 original size:110 final size:108
Alignment explanation
Indices: 770679--772384 Score: 2027
Period size: 110 Copynumber: 15.7 Consensus size: 108
770669 GACAGGTAGT
* * *
770679 TACTGTTATTTTTTCCCACAGTTTTAACGGCATTTGT-TTAAAAATGCGT-AGCTGCACAG-TTA
1 TACTGTTGTTTTTTCCCACAGTTTTAATGGCATTTTTATTAAAAATGCGTAAGCTGCACAGTTTA
*
770741 CTTGTCAAATGCTATG-ATTTGAACT-ATTTGTTGTCA-GTTGG
66 CTTGTCAAATGCTATGAATTTGAACTCA-TTGTTGTAAGGTTGG
* **
770782 TACTGTTATTTTTTCCCCACAGTTTTAGCGGCATTTTT-TTAAAAATGCGTAAGCTGCACAGTTT
1 TACTGTTGTTTTTT-CCCACAGTTTTAATGGCATTTTTATTAAAAATGCGTAAGCTGCACAGTTT
* *
770846 ACTTGTC-AATGCTATGAATTTGAACTCTTTATTGTAAGGTTGG
65 ACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
* * * * **
770889 CACTATTGTTTTTTCCCAAAATTTTAATGGCATTTGTTAAAAAAAATGGCGTAAGCTGCACAGTT
1 TACTGTTGTTTTTTCCCACAGTTTTAATGGCATTT-TTATTAAAAAT-GCGTAAGCTGCACAGTT
*
770954 TACTTGTCAAATGCTATGAATTTGAACTCTTTGTTGTAAGGTTGG
64 TACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
* * * * * *
770999 CACTATTTTTTTTTCCCATAG-TTTAATGACATTTTGT-TTAGAAAATATGCGTAAGCTACACAG
1 TACTGTTGTTTTTTCCCACAGTTTTAATGGCATTTT-TATT--AAAA-ATGCGTAAGCTGCACAG
* *
771062 -----TTGTCAAATGATATGAATTTGAACTCATTGTTGCAAGGTTGG
62 TTTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
* * * **
771104 CACTATTG-TTCTTCCCATGGTTTTAATGGCATTTTGT-TTAGAAAATATGCGTAAGCTGCACAG
1 TACTGTTGTTTTTTCCCACAGTTTTAATGGCATTTT-TATT--AAAA-ATGCGTAAGCTGCACAG
*
771167 TTTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTCAGGTTGG
62 TTTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
*
771214 TACTGTTGTTTTTTCCCACAGTTTTAATGGCATCGTTTT-TTTAAAA-GCGTAAGCTGCACAGTT
1 TACTGTTGTTTTTTCCCACAGTTTTAATGGCAT--TTTTATTAAAAATGCGTAAGCTGCACAGTT
* *
771277 TACTTGTC-AATGCTATGAA-TTGAACTCGTTGTTGTAAGATTGG
64 TACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
* *
771320 TACTGTTGTTTTTTCCCACAGTTTTAATGGCATCGTTTTTTTTAAAATGCGTAAGCTGCACAGTT
1 TACTGTTGTTTTTTCCCACAGTTTTAATGGCAT--TTTTATTAAAAATGCGTAAGCTGCACAGTT
* *
771385 TACTTGTCAAATGCTATGAATTTGAACTCTTTGTTTTAAGGTTGG
64 TACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
* * * * * *
771430 CACTATTATTTTTTCTCACAGTTTTAATGACATTTTGT-TTAGAAAAAATGCGTAAGCTGCACTG
1 TACTGTTGTTTTTTCCCACAGTTTTAATGGCATTTT-TATT---AAAAATGCGTAAGCTGCACAG
* **
771494 TTCACTTGTCAAATGCTATGAATTTGAACTCAAAGTTGTAAGGTTGG
62 TTTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
* ** **
771541 TATTGTTGTTTTTTCCCACAGTTTTAATGGCATCGTTTT-TTTTAAATGATTAAGCTGCACAGTT
1 TACTGTTGTTTTTTCCCACAGTTTTAATGGCAT--TTTTATTAAAAATGCGTAAGCTGCACAGTT
* * * * *
771605 TATTTGTGAAATGCTATGAATTCGAACTCTTTGTTGTAAGTTTGG
64 TACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
* * *
771650 CACTATTG-TTTTTCCCATAGTTTTAATGGCA-TTTTATTTAGAAAATATGCGTAAGCTGCACAG
1 TACTGTTGTTTTTTCCCACAGTTTTAATGGCATTTTTA-TT--AAAA-ATGCGTAAGCTGCACAG
*
771713 TTTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTCGG
62 TTTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
*
771760 TACTGTTGTTTTTTCCCACAGTTTTAATGGCATCGTATTT-TTTAAAATGCGTAAGCTGCACAGT
1 TACTGTTGTTTTTTCCCACAGTTTTAATGGCAT--T-TTTATTAAAAATGCGTAAGCTGCACAGT
* *
771824 TTACTTGTCAAATGCTATGAATTTGAACACATTGTTGTAAGGATGG
63 TTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
* * * *
771870 TACTGTTGTTTCTTCCCACAGTTTTAATAGCATCATTTTTTTAAAAATGCGTAAGCTGCACTGTT
1 TACTGTTGTTTTTTCCCACAGTTTTAATGGCAT--TTTTATTAAAAATGCGTAAGCTGCACAGTT
*
771935 TACTTGTCAAATGCTATGAATTTGAACTC--TGTTGGAAGGTTGG
64 TACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
* * * * *
771978 CACTATTATTTTTTTCCACAGTTTTAAT-GCATTTTGTTATAAAGAAATGCGTAAGCTGCACAGT
1 TACTGTTGTTTTTTCCCACAGTTTTAATGGCA-TTT-TTATTAA-AAATGCGTAAGCTGCACAGT
*
772042 TTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTAG
63 TTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
* * * *
772088 TACTGTTGTTTTTTCCTACAGTTTTAATGGCATCATTTTTTTAAAAATGCGTACGCTGCACTGTT
1 TACTGTTGTTTTTTCCCACAGTTTTAATGGCAT--TTTTATTAAAAATGCGTAAGCTGCACAGTT
* *
772153 TACTTATCAAATGCTATGAATTTGAAGTCATTGTTGTAAGGTTGG
64 TACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
* * * * * *
772198 CACTATTATTTTTTCTCACAGTTTTAATGGCATTTTGT-TTAGAAAAAATGCCTAAGCTGCACAA
1 TACTGTTGTTTTTTCCCACAGTTTTAATGGCATTTT-TATT---AAAAATGCGTAAGCTGCACAG
772262 TTTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
62 TTTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
** *
772309 TACTGTTGTTTTTTCCCACAGTTTT-ATGGCATTTTT-TTTCAAATGCGTAAGCTGCATAGTTTA
1 TACTGTTGTTTTTTCCCACAGTTTTAATGGCATTTTTATTAAAAATGCGTAAGCTGCACAGTTTA
772372 CTTGTCAAATGCT
66 CTTGTCAAATGCT
772385 TTTTCCCACA
Statistics
Matches: 1400, Mismatches: 147, Indels: 109
0.85 0.09 0.07
Matches are distributed among these distances:
103 14 0.01
104 43 0.03
105 109 0.08
106 137 0.10
107 46 0.03
108 174 0.12
109 120 0.09
110 510 0.36
111 227 0.16
112 8 0.01
113 8 0.01
114 1 0.00
115 3 0.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (108 bp):
TACTGTTGTTTTTTCCCACAGTTTTAATGGCATTTTTATTAAAAATGCGTAAGCTGCACAGTTTA
CTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
Found at i:772428 original size:71 final size:66
Alignment explanation
Indices: 772318--772455 Score: 213
Period size: 71 Copynumber: 2.0 Consensus size: 66
772308 GTACTGTTGT
* *
772318 TTTTTCCCACAGTTTTATGGCATTTTTTTTCAAATGCGTAAGCTGCATAGTTTACTTGTCAAATG
1 TTTTTCCCACAGTTTTATGGCATTTTTTTTAAAATGCGTAAGCTGCACAGTTTACTTGTCAAATG
772383 C
66 C
772384 TTTTTCCCACAGTTTTAATGGCATCGTTTTTTTTTAAAATGCGTAAGCTGCACAGTTTACTTGTC
1 TTTTTCCCACAGTTTT-ATGGCA----TTTTTTTTAAAATGCGTAAGCTGCACAGTTTACTTGTC
772449 AAATGC
61 AAATGC
772455 T
1 T
772456 ATGAATTTGA
Statistics
Matches: 65, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
66 16 0.25
67 6 0.09
71 43 0.66
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.43
Consensus pattern (66 bp):
TTTTTCCCACAGTTTTATGGCATTTTTTTTAAAATGCGTAAGCTGCACAGTTTACTTGTCAAATG
C
Found at i:772510 original size:177 final size:181
Alignment explanation
Indices: 772207--772565 Score: 523
Period size: 177 Copynumber: 2.0 Consensus size: 181
772197 GCACTATTAT
*
772207 TTTTTCTCACAGTTTTAATGGCATTTTGTTTAGAAAAAATGCCTAAGCTGCACAATTTACTTGTC
1 TTTTTCCCACAGTTTTAATGGCATTTTGTTTAGAAAAAATGCCTAAGCTGCACAATTTACTTGTC
* * * *
772272 AAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGTACTGTTGTTTTTTCCCACAGTTTTA-T
66 AAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGCACTATTATTTTTTCCCACAGTTTTAGC
** *
772336 GGCATTTT-TTT-TCAAA-TGCGTAAGCTGCATAGTTTACTTGTCAAATGC
131 GGCATTTTGTTTAAAAAATTGCGTAAGCTGCACAGTTTACTTGTCAAATGC
*** * *
772384 TTTTTCCCACAGTTTTAATGGCATCGTTT-TTT-TTTAAAATGCGTAAGCTGCACAGTTTACTTG
1 TTTTTCCCACAGTTTTAATGGCAT--TTTGTTTAGAAAAAATGCCTAAGCTGCACAATTTACTTG
* *
772447 TCAAATGCTATGAATTTGAACTCTTTGTTGTAAGGTTGGCACTATTATTTTTTCTCACAGTTTTA
64 TCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGCACTATTATTTTTTCCCACAGTTTTA
772512 GCGGCATTTTGTTTAAAAAATTGCGTAAGCTGCACAGTTTACTTGTCAAATGC
129 GCGGCATTTTGTTTAAAAAATTGCGTAAGCTGCACAGTTTACTTGTCAAATGC
772565 T
1 T
772566 ATGAATTTGA
Statistics
Matches: 161, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
177 109 0.68
178 11 0.07
179 6 0.04
180 3 0.02
181 32 0.20
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (181 bp):
TTTTTCCCACAGTTTTAATGGCATTTTGTTTAGAAAAAATGCCTAAGCTGCACAATTTACTTGTC
AAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGCACTATTATTTTTTCCCACAGTTTTAGC
GGCATTTTGTTTAAAAAATTGCGTAAGCTGCACAGTTTACTTGTCAAATGC
Found at i:772548 original size:110 final size:109
Alignment explanation
Indices: 772384--773832 Score: 2029
Period size: 109 Copynumber: 13.3 Consensus size: 109
772374 TGTCAAATGC
* **
772384 TTTTTCCCACAGTTTTAATGGCATCGTTTTTTTTTAAAATGCGTAAGCTGCACAGTTTACTTGTC
1 TTTTTCCCACAGTTTTAATGGCAT--TTTGTTTAAAAAATGCGTAAGCTGCACAGTTTACTTGTC
* *
772449 AAATGCTATGAATTTGAACTCTTTGTTGTAAGGTTGGCACTATTAT
64 AAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGCACTATTGT
* **
772495 TTTTTCTCACAGTTTTAGCGGCATTTTGTTTAAAAAATTGCGTAAGCTGCACAGTTTACTTGTCA
1 TTTTTCCCACAGTTTTAATGGCATTTTGTTTAAAAAA-TGCGTAAGCTGCACAGTTTACTTGTCA
* *
772560 AATGCTATGAATTTGAACTCTTTGTTGCAAGGTTGGCACTATTGT
65 AATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGCACTATTGT
* *
772605 TTTTTCCCAAAG-TTTAATGGCATTTTGTTAGAAAAAATGGCGTAAGCTGCACAGTTTA-TTGTC
1 TTTTTCCCACAGTTTTAATGGCATTTTGTT-TAAAAAAT-GCGTAAGCTGCACAGTTTACTTGTC
*
772668 AAATGCTATGAATTTGAACTCTTTGTTGTAAGGTTGGCACTATTGT
64 AAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGCACTATTGT
* *
772714 TTTTTCCCACAGTTTTAATGGCATTTTGTTAAAAAAATGCGTAAGCTGCACAATTTACTTGTCAA
1 TTTTTCCCACAGTTTTAATGGCATTTTGTTTAAAAAATGCGTAAGCTGCACAGTTTACTTGTCAA
*
772779 ATGCTATGAATTTGAACTCATTGTTGCAAGGTTGGCACTATTG-
66 ATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGCACTATTGT
* *
772822 TTCTTCCCATAGTTTTAATGGCATTTTGTTTAGAAAAATTGCGTAAGCTGCACAGTTTACTTGTC
1 TTTTTCCCACAGTTTTAATGGCATTTTGTTTA-AAAAA-TGCGTAAGCTGCACAGTTTACTTGTC
*
772887 AAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG---TAATGT
64 AAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGCACTATTGT
**
772930 TTTTTCCCACAGTTTTAATGGCATCGTTT-TTT--TCAATGCGTAAGCTGCACAGTTTACTTGTC
1 TTTTTCCCACAGTTTTAATGGCAT--TTTGTTTAAAAAATGCGTAAGCTGCACAGTTTACTTGTC
* * *
772992 AAATGCTATGAATTTGAACTCATTGTTGTAAAGTTGGTACTGTTG-
64 AAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGCACTATTGT
* *** * *
773037 TTTTTCCCACAGTTTTAATTGCATCGTTT-TTTTTTAAATGCGTAAGCTGCATAATTTACTTGTC
1 TTTTTCCCACAGTTTTAATGGCAT--TTTGTTTAAAAAATGCGTAAGCTGCACAGTTTACTTGTC
* *
773101 AAATGCTATGAATTTGAACTCTTTGTTGTATGGTTGGCACTATTG-
64 AAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGCACTATTGT
*
773146 TTTTTCCCACAGTTTTAATGGCATTTTGTTAAAAAAATGCGTAAGCTGCACAGTTTACTTGTCAA
1 TTTTTCCCACAGTTTTAATGGCATTTTGTTTAAAAAATGCGTAAGCTGCACAGTTTACTTGTCAA
* *
773211 ATGATATGAATTTGAACTCATTGTTGTCAGGTTGGCACTATTG-
66 ATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGCACTATTGT
*
773254 TTCTTCCCACAGTTTTAATGGCATTTTGTTTAGAAAATATGCGTAAGCTGCACAGTTTACTTGTC
1 TTTTTCCCACAGTTTTAATGGCATTTTGTTTA-AAAA-ATGCGTAAGCTGCACAGTTTACTTGTC
*
773319 AAATGCTATGAATTTGAACTCATTGTTGCAAGGTTGGCACTATTG-
64 AAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGCACTATTGT
* * *
773364 TTCTTCCCATAGTTTTAATTGCATTTTGTTTAGAAAAAATGCGTAAGCTGCACAG-TTACTTGTC
1 TTTTTCCCACAGTTTTAATGGCATTTTGTTT--AAAAAATGCGTAAGCTGCACAGTTTACTTGTC
* * *
773428 AAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGTAGTGTTGT
64 AAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGCACTATTGT
* **
773474 TTTATCCCACAGTTTTAATGGCATCGTTT-TTT-TTAAATGCGTAAGCTGCACAGTTTACTTGTC
1 TTTTTCCCACAGTTTTAATGGCAT--TTTGTTTAAAAAATGCGTAAGCTGCACAGTTTACTTGTC
* * *
773537 AAATGCTATGAATTTGAACTCATTGTTGTAAAGTTGGTACTGTTGT
64 AAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGCACTATTGT
* ** *
773583 TTTTTCCCACAGTTTTAATTGCATCGTTT-TTT-TTAAATGCGTAAGCTGCACAATTTACTTGTC
1 TTTTTCCCACAGTTTTAATGGCAT--TTTGTTTAAAAAATGCGTAAGCTGCACAGTTTACTTGTC
*
773646 AAATGCTATGAATTTGAACTCTTTGTTGTAAGGTTGGCACTATTGT
64 AAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGCACTATTGT
*
773692 TTTTTCCCACAGTTTTAATGGCATTTTGTTAAAAAAAATGCGTAAGCTGCACAGTTTACTTGTCA
1 TTTTTCCCACAGTTTTAATGGCATTTTGTT-TAAAAAATGCGTAAGCTGCACAGTTTACTTGTCA
* * *
773757 AAAGCTATGAATTTGAACTCATTGTTGCAAGGTTGGGACTATTG-
65 AATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGCACTATTGT
* * *
773801 TTCTTCCCATAGTTTTAATGGCATTTTTTTTA
1 TTTTTCCCACAGTTTTAATGGCATTTTGTTTA
773833 TAAGAATTTC
Statistics
Matches: 1220, Mismatches: 91, Indels: 57
0.89 0.07 0.04
Matches are distributed among these distances:
105 62 0.05
106 2 0.00
107 41 0.03
108 194 0.16
109 499 0.41
110 390 0.32
111 28 0.02
112 4 0.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (109 bp):
TTTTTCCCACAGTTTTAATGGCATTTTGTTTAAAAAATGCGTAAGCTGCACAGTTTACTTGTCAA
ATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGCACTATTGT
Found at i:779306 original size:110 final size:110
Alignment explanation
Indices: 778886--780106 Score: 1612
Period size: 110 Copynumber: 11.1 Consensus size: 110
778876 TGAAGCGCTA
* *
778886 CACTATTGTTTTTTCCCACAGTTTTAATGGCATTTTGTTTAGAAAAATTGCATAAGCTGCACAGT
1 CACTATTGTTTTTTCCCACAGTTTTAATGGCATTTTG-TTAGAAAAAATGCGTAAGCTGCACAGT
778951 TTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
65 TTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
* * **
778997 TACTGTTGTTTTTTCCCACAGTTTTAATGGCATCGTTT-TT---TTAAATGCGTAAGCTGCACAG
1 CACTATTGTTTTTTCCCACAGTTTTAATGGCAT--TTTGTTAGAAAAAATGCGTAAGCTGCACAG
*
779058 TTTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAAGTTGG
64 TTTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
* * * *** *
779105 TACTGTTGTTTTTTCCCACAGTTTTAATTGCATCGTTT-TT--TTTAAATGCGTAAGCTGCACAA
1 CACTATTGTTTTTTCCCACAGTTTTAATGGCAT--TTTGTTAGAAAAAATGCGTAAGCTGCACAG
* *
779167 TTTACTTGTCAAATGCTATGAATTTGAACTCTTTGTTGTATGGTTGG
64 TTTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
*
779214 CACTATTGTTTTTTCCCACAGTTTTAATGGCATTTTGTTAAAAAAAATGCGTAAGCTGCACAGTT
1 CACTATTGTTTTTTCCCACAGTTTTAATGGCATTTTGTTAGAAAAAATGCGTAAGCTGCACAGTT
* *
779279 TACTTGTCAAATGATATGAATTTGAACTCATTGTTGTCAGGTTGG
66 TACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
* *
779324 CACTATTG-TTCTTCCCACAGTTTTAATGGCATTTTGTTTAGAAAATATGCGTAAGCTGCACAGT
1 CACTATTGTTTTTTCCCACAGTTTTAATGGCATTTTG-TTAGAAAAAATGCGTAAGCTGCACAGT
*
779388 TTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGCAAGGTTGG
65 TTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
* * * *
779434 CACTATTG-TTCTTCCCATAGTTTTAATGGCATTTTGTTTAGAAAAATTGCGTAAGCTGCACGGT
1 CACTATTGTTTTTTCCCACAGTTTTAATGGCATTTTG-TTAGAAAAAATGCGTAAGCTGCACAGT
779498 TTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
65 TTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
* * *** *
779544 TACTGTTGTTTTTTCCCACAGTTTTAATGGCATCTTT-TT--TTTAAATGCTTAAGCTGCACAGT
1 CACTATTGTTTTTTCCCACAGTTTTAATGGCAT-TTTGTTAGAAAAAATGCGTAAGCTGCACAGT
*
779606 TTACTTGTCAAATTCTATGAATTTGAACTCATTGTTGTAAGGTTGG
65 TTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
* * ***
779652 TACTGTTGTTTTTTCCCACAGTTTTAATGGCATCGTTT-TT-TTTAAAATGCGTAAGCTGCACAG
1 CACTATTGTTTTTTCCCACAGTTTTAATGGCAT--TTTGTTAGAAAAAATGCGTAAGCTGCACAG
* *
779715 TTTACTTGTCAAATGCTATGAATTTGAACTCTTTGTTTTAAGGTTGG
64 TTTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
* * * *
779762 CACTATTATTTTTTCTCACAGTTTTAATGACATTTTGTTTAGAAAAAATGCGTAAGCTGCACTGT
1 CACTATTGTTTTTTCCCACAGTTTTAATGGCATTTTG-TTAGAAAAAATGCGTAAGCTGCACAGT
* **
779827 TCACTTGTCAAATGCTATGAATTTGAACTCAAAGTTGTAAGGTTGG
65 TTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
* * * **** **
779873 TATTGTTGTTTTTTTCCCACAGTTTTAATGGCATCGTTT-TT-TTTTAAATGATTAAGCTGCACA
1 CACTATTG-TTTTTTCCCACAGTTTTAATGGCAT--TTTGTTAGAAAAAATGCGTAAGCTGCACA
* * * *
779936 GTTTACTTGTGAAATGCTATGAATTCGAACTCTTTGTTGTAAGTTTGG
63 GTTTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
* *
779984 CACTATTG-TTTTTCCCATAGTTTTAATGGCATTTTGTTTAGAAAATATGCGTAAGCTGCACAGT
1 CACTATTGTTTTTTCCCACAGTTTTAATGGCATTTTG-TTAGAAAAAATGCGTAAGCTGCACAGT
* *
780048 TTACTTGTCAAATGCTATGAATTTGAACTCTTTGTTGTAAAGTTGG
65 TTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
780094 CACTATTGTTTTT
1 CACTATTGTTTTT
780107 AAAAAAATGC
Statistics
Matches: 989, Mismatches: 100, Indels: 42
0.87 0.09 0.04
Matches are distributed among these distances:
107 6 0.01
108 202 0.20
109 151 0.15
110 411 0.42
111 185 0.19
112 28 0.03
113 3 0.00
114 3 0.00
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.42
Consensus pattern (110 bp):
CACTATTGTTTTTTCCCACAGTTTTAATGGCATTTTGTTAGAAAAAATGCGTAAGCTGCACAGTT
TACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGG
Found at i:779843 original size:439 final size:435
Alignment explanation
Indices: 778886--780106 Score: 1806
Period size: 439 Copynumber: 2.8 Consensus size: 435
778876 TGAAGCGCTA
* *
778886 CACTATTGTTTTTTCCCACAGTTTTAATGGCATTTTGTTTAGAAAAATTGCATAAGCTGCACAGT
1 CACTATT-TTTTTTCCCACAGTTTTAATGGCATTTTGTTTAGAAAAAATGCGTAAGCTGCACAGT
778951 TTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGTACTGTTGTTTTTTCCCAC
65 TTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGTACTGTTGTTTTTTCCCAC
779016 AGTTTTAATGGCATCGTTTTTTTAAATGCGTAAGCTGCACAGTTTACTTGTCAAATGCTATGAAT
130 AGTTTTAATGGCATC-TTTTTTTAAATGCGTAAGCTGCACAGTTTACTTGTCAAATGCTATGAAT
* *
779081 TTGAACTCATTGTTGTAAAGTTGGTACTGTTGTTTTTTCCCACAGTTTTAATTGCATCGTTTTTT
194 TTGAACTCATTGTTGTAAGGTTGGTACTGTTGTTTTTTCCCACAGTTTTAATGGCATC-TTTTTT
* *
779146 TTAAATGCGTAAGCTGCACAATTTACTTGTCAAATGCTATGAATTTGAACTCTTTGTTGTATGGT
258 TTAAATGCGTAAGCTGCACAGTTTACTTGTCAAATGCTATGAATTTGAACTCTTTGTTGTAAGGT
779211 TGGCACTATTGTTTTTTCCCACAGTTTTAATGGCATTTTGTTAAAAAAAATGCGTAAGCTGCACA
323 TGGCACTATTGTTTTTTCCCACAGTTTTAATGGCATTTTGTTAAAAAAAATGCGTAAGCTGCACA
*
779276 GTTTACTTGTCAAATGATATGAATTTGAACTCATTGTTGTCAGGTTGG
388 GTTTACTTGTCAAATGATATGAATTTGAACTCATTGTTGTAAGGTTGG
* * *
779324 CACTATTGTTCTTCCCACAGTTTTAATGGCATTTTGTTTAGAAAATATGCGTAAGCTGCACAGTT
1 CACTATTTTTTTTCCCACAGTTTTAATGGCATTTTGTTTAGAAAAAATGCGTAAGCTGCACAGTT
* * * * *
779389 TACTTGTCAAATGCTATGAATTTGAACTCATTGTTGCAAGGTTGGCACTATTG-TTCTTCCCATA
66 TACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGTACTGTTGTTTTTTCCCACA
* *
779453 GTTTTAATGGCAT-TTTGTTTAGAAAAATTGCGTAAGCTGCACGGTTTACTTGTCAAATGCTATG
131 GTTTTAATGGCATCTTT-TTT---TAAA-TGCGTAAGCTGCACAGTTTACTTGTCAAATGCTATG
779517 AATTTGAACTCATTGTTGTAAGGTTGGTACTGTTGTTTTTTCCCACAGTTTTAATGGCATCTTTT
191 AATTTGAACTCATTGTTGTAAGGTTGGTACTGTTGTTTTTTCCCACAGTTTTAATGGCATCTTTT
* * *
779582 TTTTAAATGCTTAAGCTGCACAGTTTACTTGTCAAATTCTATGAATTTGAACTCATTGTTGTAAG
256 TTTTAAATGCGTAAGCTGCACAGTTTACTTGTCAAATGCTATGAATTTGAACTCTTTGTTGTAAG
* * ***
779647 GTTGGTACTGTTGTTTTTTCCCACAGTTTTAATGGCATCGTTT-TT-TTTAAAATGCGTAAGCTG
321 GTTGGCACTATTGTTTTTTCCCACAGTTTTAATGGCAT--TTTGTTAAAAAAAATGCGTAAGCTG
* * *
779710 CACAGTTTACTTGTCAAATGCTATGAATTTGAACTCTTTGTTTTAAGGTTGG
384 CACAGTTTACTTGTCAAATGATATGAATTTGAACTCATTGTTGTAAGGTTGG
* * *
779762 CACTATTATTTTTTCTCACAGTTTTAATGACATTTTGTTTAGAAAAAATGCGTAAGCTGCACTGT
1 CACTATT-TTTTTTCCCACAGTTTTAATGGCATTTTGTTTAGAAAAAATGCGTAAGCTGCACAGT
* ** *
779827 TCACTTGTCAAATGCTATGAATTTGAACTCAAAGTTGTAAGGTTGGTATTGTTGTTTTTTTCCCA
65 TTACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGTACTGTTG-TTTTTTCCCA
** *
779892 CAGTTTTAATGGCATCGTTTTTTTTTAAATGATTAAGCTGCACAGTTTACTTGTGAAATGCTATG
129 CAGTTTTAATGGCATC---TTTTTTTAAATGCGTAAGCTGCACAGTTTACTTGTCAAATGCTATG
* * * * * *
779957 AATTCGAACTCTTTGTTGTAAGTTTGGCACTATTG-TTTTTCCCATAGTTTTAATGGCAT-TTTG
191 AATTTGAACTCATTGTTGTAAGGTTGGTACTGTTGTTTTTTCCCACAGTTTTAATGGCATCTTT-
**
780020 TTTAGAAAATATGCGTAAGCTGCACAGTTTACTTGTCAAATGCTATGAATTTGAACTCTTTGTTG
255 TTT--TTAA-ATGCGTAAGCTGCACAGTTTACTTGTCAAATGCTATGAATTTGAACTCTTTGTTG
*
780085 TAAAGTTGGCACTATTGTTTTT
317 TAAGGTTGGCACTATTGTTTTT
780107 AAAAAAATGC
Statistics
Matches: 703, Mismatches: 62, Indels: 32
0.88 0.08 0.04
Matches are distributed among these distances:
434 3 0.00
435 3 0.00
436 22 0.03
437 103 0.15
438 183 0.26
439 220 0.31
440 65 0.09
441 27 0.04
442 71 0.10
444 3 0.00
445 3 0.00
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.42
Consensus pattern (435 bp):
CACTATTTTTTTTCCCACAGTTTTAATGGCATTTTGTTTAGAAAAAATGCGTAAGCTGCACAGTT
TACTTGTCAAATGCTATGAATTTGAACTCATTGTTGTAAGGTTGGTACTGTTGTTTTTTCCCACA
GTTTTAATGGCATCTTTTTTTAAATGCGTAAGCTGCACAGTTTACTTGTCAAATGCTATGAATTT
GAACTCATTGTTGTAAGGTTGGTACTGTTGTTTTTTCCCACAGTTTTAATGGCATCTTTTTTTTA
AATGCGTAAGCTGCACAGTTTACTTGTCAAATGCTATGAATTTGAACTCTTTGTTGTAAGGTTGG
CACTATTGTTTTTTCCCACAGTTTTAATGGCATTTTGTTAAAAAAAATGCGTAAGCTGCACAGTT
TACTTGTCAAATGATATGAATTTGAACTCATTGTTGTAAGGTTGG
Found at i:780552 original size:24 final size:24
Alignment explanation
Indices: 780493--780595 Score: 154
Period size: 24 Copynumber: 4.3 Consensus size: 24
780483 GTATCATGCG
* *
780493 GCGAAGTTCATGCCGATGTGGGCA
1 GCGAAGTTCATGCCGAAGTTGGCA
*
780517 GCG-AGTTCATGCCGATGTTGGCA
1 GCGAAGTTCATGCCGAAGTTGGCA
*
780540 GCGAAGTTCATGCTGAAGTTGGCA
1 GCGAAGTTCATGCCGAAGTTGGCA
*
780564 GCGAAGTTCATGCTGAAGTTGGCA
1 GCGAAGTTCATGCCGAAGTTGGCA
780588 GCGAAGTT
1 GCGAAGTT
780596 GGTGGTGTGG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
23 22 0.29
24 53 0.71
ACGTcount: A:0.22, C:0.18, G:0.35, T:0.24
Consensus pattern (24 bp):
GCGAAGTTCATGCCGAAGTTGGCA
Found at i:780593 original size:12 final size:12
Alignment explanation
Indices: 780533--780597 Score: 66
Period size: 12 Copynumber: 5.4 Consensus size: 12
780523 TCATGCCGAT
780533 GTTGGCAGCGAA
1 GTTGGCAGCGAA
780545 GTT--CATGCTGAA
1 GTTGGCA-GC-GAA
780557 GTTGGCAGCGAA
1 GTTGGCAGCGAA
780569 GTT--CATGCTGAA
1 GTTGGCA-GC-GAA
780581 GTTGGCAGCGAA
1 GTTGGCAGCGAA
780593 GTTGG
1 GTTGG
780598 TGGTGTGGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
10 4 0.09
11 4 0.09
12 29 0.64
13 4 0.09
14 4 0.09
ACGTcount: A:0.23, C:0.15, G:0.37, T:0.25
Consensus pattern (12 bp):
GTTGGCAGCGAA
Found at i:780771 original size:24 final size:24
Alignment explanation
Indices: 780744--780789 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
780734 ACCGTTAGCG
*
780744 GCAGTTTTGGTGGACAGGTTTGCC
1 GCAGGTTTGGTGGACAGGTTTGCC
*
780768 GCAGGTTTGGTGGACCGGTTTG
1 GCAGGTTTGGTGGACAGGTTTG
780790 TGACAAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.11, C:0.15, G:0.41, T:0.33
Consensus pattern (24 bp):
GCAGGTTTGGTGGACAGGTTTGCC
Found at i:780910 original size:24 final size:24
Alignment explanation
Indices: 780872--780917 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
780862 TTGTGGCGCC
*
780872 GGCGTATCTGGTGGAATGGTTGGT
1 GGCGTATCTGATGGAATGGTTGGT
* *
780896 GGCGTATTTGATGGAATTGTTG
1 GGCGTATCTGATGGAATGGTTG
780918 ATGGTGAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.15, C:0.07, G:0.41, T:0.37
Consensus pattern (24 bp):
GGCGTATCTGATGGAATGGTTGGT
Found at i:783254 original size:24 final size:24
Alignment explanation
Indices: 783221--783271 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
783211 GTAGTGACCG
*
783221 TCACCGCCAATACCAACGGCTTCT
1 TCACCACCAATACCAACGGCTTCT
783245 TCACCACCAATACCAACGGCTTCT
1 TCACCACCAATACCAACGGCTTCT
783269 TCA
1 TCA
783272 TCATCGTACG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.27, C:0.41, G:0.10, T:0.22
Consensus pattern (24 bp):
TCACCACCAATACCAACGGCTTCT
Found at i:784259 original size:25 final size:26
Alignment explanation
Indices: 784211--784261 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
784201 TAGGGTTTTG
*
784211 AGTTTTTTTGTAATTTAATAAACATT
1 AGTTTTTTTGTAATTAAATAAACATT
784237 AGTTTTTTT-TAA-TAAATATAACATT
1 AGTTTTTTTGTAATTAAATA-AACATT
784262 TTCTTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 5 0.22
25 9 0.39
26 9 0.39
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (26 bp):
AGTTTTTTTGTAATTAAATAAACATT
Found at i:786417 original size:12 final size:12
Alignment explanation
Indices: 786402--786426 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
786392 TTTGTTATTT
786402 ACTTTGTCACTA
1 ACTTTGTCACTA
786414 ACTTTGTCACTA
1 ACTTTGTCACTA
786426 A
1 A
786427 ATTTATAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (12 bp):
ACTTTGTCACTA
Found at i:791874 original size:31 final size:30
Alignment explanation
Indices: 791839--791897 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
791829 ACTTAATGCG
*
791839 TTTAGT-ACTTAAACTATTAGTTTTGTTTTGT
1 TTTAGTAAC-TAAACTATTAATTTT-TTTTGT
*
791870 TTTAGTAACTAAACTTTTAATTTTTTTT
1 TTTAGTAACTAAACTATTAATTTTTTTT
791898 AAACTTAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 4 0.16
31 19 0.76
32 2 0.08
ACGTcount: A:0.25, C:0.07, G:0.08, T:0.59
Consensus pattern (30 bp):
TTTAGTAACTAAACTATTAATTTTTTTTGT
Found at i:805106 original size:11 final size:11
Alignment explanation
Indices: 805090--805114 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
805080 GAGCGCAGTC
805090 TTCATTCTTCA
1 TTCATTCTTCA
805101 TTCATTCTTCA
1 TTCATTCTTCA
805112 TTC
1 TTC
805115 TTCATGCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.28, G:0.00, T:0.56
Consensus pattern (11 bp):
TTCATTCTTCA
Found at i:806602 original size:159 final size:159
Alignment explanation
Indices: 806313--806633 Score: 642
Period size: 159 Copynumber: 2.0 Consensus size: 159
806303 GATCCAAACG
806313 TAAAATCCTCTGAAGGGATTTAGAGGATATGCGCAAGTCTGATGATAGCCCCTGGATTCTTATCG
1 TAAAATCCTCTGAAGGGATTTAGAGGATATGCGCAAGTCTGATGATAGCCCCTGGATTCTTATCG
806378 GCGATTTCAATGCGATCCTCTCCATTGATGAAAAGCGTGGAGGTGCACATCATGGAAAAGGATGC
66 GCGATTTCAATGCGATCCTCTCCATTGATGAAAAGCGTGGAGGTGCACATCATGGAAAAGGATGC
806443 GGCCTTTTTGCTGACTTCTTTCATTCTCA
131 GGCCTTTTTGCTGACTTCTTTCATTCTCA
806472 TAAAATCCTCTGAAGGGATTTAGAGGATATGCGCAAGTCTGATGATAGCCCCTGGATTCTTATCG
1 TAAAATCCTCTGAAGGGATTTAGAGGATATGCGCAAGTCTGATGATAGCCCCTGGATTCTTATCG
806537 GCGATTTCAATGCGATCCTCTCCATTGATGAAAAGCGTGGAGGTGCACATCATGGAAAAGGATGC
66 GCGATTTCAATGCGATCCTCTCCATTGATGAAAAGCGTGGAGGTGCACATCATGGAAAAGGATGC
806602 GGCCTTTTTGCTGACTTCTTTCATTCTCA
131 GGCCTTTTTGCTGACTTCTTTCATTCTCA
806631 TAA
1 TAA
806634 CATGGTGGAT
Statistics
Matches: 162, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
159 162 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.30
Consensus pattern (159 bp):
TAAAATCCTCTGAAGGGATTTAGAGGATATGCGCAAGTCTGATGATAGCCCCTGGATTCTTATCG
GCGATTTCAATGCGATCCTCTCCATTGATGAAAAGCGTGGAGGTGCACATCATGGAAAAGGATGC
GGCCTTTTTGCTGACTTCTTTCATTCTCA
Found at i:809742 original size:19 final size:19
Alignment explanation
Indices: 809720--809763 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
809710 AAAAAATTAC
809720 TATTATAATTGT-AAATATT
1 TATTATAATT-TAAAATATT
809739 TATTATAATTTAAAATATT
1 TATTATAATTTAAAATATT
809758 TATTAT
1 TATTAT
809764 TTTTAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 1 0.04
19 23 0.96
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TATTATAATTTAAAATATT
Found at i:811396 original size:35 final size:35
Alignment explanation
Indices: 811350--811421 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
811340 AAAATGGTCA
* *
811350 CCCGACTATTCAATGTGTTCTAAACTCATCTTTTT
1 CCCGACTATTCAATGTGTTCCAAACTCATCCTTTT
811385 CCCGACTATTCAATGTGTTCCAAACTCATCCTTTT
1 CCCGACTATTCAATGTGTTCCAAACTCATCCTTTT
811420 CC
1 CC
811422 GTTAAAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.22, C:0.31, G:0.08, T:0.39
Consensus pattern (35 bp):
CCCGACTATTCAATGTGTTCCAAACTCATCCTTTT
Found at i:818855 original size:105 final size:105
Alignment explanation
Indices: 818673--818891 Score: 350
Period size: 105 Copynumber: 2.1 Consensus size: 105
818663 GTGTTGCTCT
* * * *
818673 TTTAGAGAGAAATTCTAGGAGTGACAATCAATTCTCATCATGCATATATTTGATTGAAAAGGGAA
1 TTTAGACATAAATTCTAGGAGAGACAACCAATTCTCATCATGCATATATTTGATTGAAAAGGGAA
*
818738 GGATGAAAAGAGGGGACTGGAAAAGTAGGAAGACAATAAA
66 GGATGAAAAGAGGGGACTGAAAAAGTAGGAAGACAATAAA
* *
818778 TTTAGACATAAATTCTAGGAGAGAGAACCAATTCTCATCATGCATATATTT-ATTTGAAAAGTGA
1 TTTAGACATAAATTCTAGGAGAGACAACCAATTCTCATCATGCATATATTTGA-TTGAAAAGGGA
*
818842 AGGATGAAAAGAGGGGACTGAAAAAGTAGGAAGGCAATAAA
65 AGGATGAAAAGAGGGGACTGAAAAAGTAGGAAGACAATAAA
818883 TTTAGACAT
1 TTTAGACAT
818892 TCTCTAAGCA
Statistics
Matches: 105, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
104 1 0.01
105 104 0.99
ACGTcount: A:0.43, C:0.09, G:0.24, T:0.24
Consensus pattern (105 bp):
TTTAGACATAAATTCTAGGAGAGACAACCAATTCTCATCATGCATATATTTGATTGAAAAGGGAA
GGATGAAAAGAGGGGACTGAAAAAGTAGGAAGACAATAAA
Found at i:831361 original size:30 final size:30
Alignment explanation
Indices: 831299--831388 Score: 78
Period size: 28 Copynumber: 3.1 Consensus size: 30
831289 CCAAAAATAT
* ** *
831299 TTTTTTTTATAAAAATAAGT-TTTCAAGTTA
1 TTTTTTTTATCAAAATAAGTACCTAAAG-TA
831329 TTTTTTTTATCAAAATAAGTACCTAAAGTA
1 TTTTTTTTATCAAAATAAGTACCTAAAGTA
* * * *
831359 --TTTTATATCAAAACAGGTACCTAAACTA
1 TTTTTTTTATCAAAATAAGTACCTAAAGTA
831387 TT
1 TT
831389 CAAATTTTTC
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
28 24 0.49
30 21 0.43
31 4 0.08
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (30 bp):
TTTTTTTTATCAAAATAAGTACCTAAAGTA
Found at i:831371 original size:28 final size:28
Alignment explanation
Indices: 831331--831388 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
831321 TCAAGTTATT
* * *
831331 TTTTTTATCAAAATAAGTACCTAAAGTA
1 TTTTATATCAAAACAAGTACCTAAACTA
*
831359 TTTTATATCAAAACAGGTACCTAAACTA
1 TTTTATATCAAAACAAGTACCTAAACTA
831387 TT
1 TT
831389 CAAATTTTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (28 bp):
TTTTATATCAAAACAAGTACCTAAACTA
Found at i:834223 original size:25 final size:25
Alignment explanation
Indices: 834192--834242 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
834182 ATTACCTCTA
834192 ATCCATAAACCTTAAACACTAACTT
1 ATCCATAAACCTTAAACACTAACTT
834217 ATCCATAAACCTTAAACACTAACTT
1 ATCCATAAACCTTAAACACTAACTT
834242 A
1 A
834243 AGTTTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (25 bp):
ATCCATAAACCTTAAACACTAACTT
Found at i:835714 original size:3 final size:3
Alignment explanation
Indices: 835706--835740 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
835696 GCTAGCTTAA
*
835706 AAT AAT AAT AAT AAT AAT AAT AAT ATT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
835741 GGCAAGACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:842187 original size:23 final size:23
Alignment explanation
Indices: 842161--842218 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
842151 TAAACTACCA
*
842161 AAAGACAGAGAAAAACGTGTCAC
1 AAAGACAGAGAAAAACGTGCCAC
** * * *
842184 AAAGGTAAAGATAAACGTGCCAT
1 AAAGACAGAGAAAAACGTGCCAC
842207 AAAGACAGAGAA
1 AAAGACAGAGAA
842219 CATGTAACAA
Statistics
Matches: 25, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.53, C:0.14, G:0.22, T:0.10
Consensus pattern (23 bp):
AAAGACAGAGAAAAACGTGCCAC
Found at i:843338 original size:43 final size:43
Alignment explanation
Indices: 843277--843371 Score: 174
Period size: 43 Copynumber: 2.2 Consensus size: 43
843267 CCTCCAACCG
843277 AACACACCATAATGTGTAGGTTTCCC-AGAACCATACACCCACC
1 AACACACCATAATGTGTAGG-TTCCCTAGAACCATACACCCACC
843320 AACACACCATAATGTGTAGGTTCCCTAGAACCATACACCCACC
1 AACACACCATAATGTGTAGGTTCCCTAGAACCATACACCCACC
843363 AACACACCA
1 AACACACCA
843372 AGTAAGGCCC
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 5 0.10
43 46 0.90
ACGTcount: A:0.37, C:0.36, G:0.11, T:0.17
Consensus pattern (43 bp):
AACACACCATAATGTGTAGGTTCCCTAGAACCATACACCCACC
Found at i:843518 original size:24 final size:24
Alignment explanation
Indices: 843491--843606 Score: 126
Period size: 24 Copynumber: 4.8 Consensus size: 24
843481 CATAATTCAT
* * *
843491 GTCAAGCATCATATCAAAATCCAG
1 GTCAAGTATCATATCAGAATCCAA
843515 GTCAAGTATCATATCAGAATCCAA
1 GTCAAGTATCATATCAGAATCCAA
* *
843539 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAA
* * *
843563 GTC-AGATATCAGATCAGAATACAT
1 GTCAAG-TATCATATCAGAATCCAA
* *
843587 GTCAAGAATCAGATCAGAAT
1 GTCAAGTATCATATCAGAAT
843607 TCAAATCGAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
23 2 0.02
24 79 0.95
25 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (24 bp):
GTCAAGTATCATATCAGAATCCAA
Found at i:843573 original size:48 final size:48
Alignment explanation
Indices: 843491--843606 Score: 144
Period size: 48 Copynumber: 2.4 Consensus size: 48
843481 CATAATTCAT
* * * * *
843491 GTCAAGCATCATATCAAAATCCAGGTCAAGTATCATATCAGAATCCAA
1 GTCAAGAATCAGATCAGAATCCAGGTCAAGTATCAGATCAGAATACAA
* * *
843539 GTCAAGTATCAGATCAGAATCCATGTC-AGATATCAGATCAGAATACAT
1 GTCAAGAATCAGATCAGAATCCAGGTCAAG-TATCAGATCAGAATACAA
843587 GTCAAGAATCAGATCAGAAT
1 GTCAAGAATCAGATCAGAAT
843607 TCAAATCGAA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
47 2 0.03
48 57 0.97
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (48 bp):
GTCAAGAATCAGATCAGAATCCAGGTCAAGTATCAGATCAGAATACAA
Found at i:843620 original size:24 final size:24
Alignment explanation
Indices: 843516--843624 Score: 87
Period size: 24 Copynumber: 4.5 Consensus size: 24
843506 AAAATCCAGG
* * * *
843516 TCAAGTATCATATCAGAATCCAAG
1 TCAAGAATCAGATCAGAATACAAA
* * **
843540 TCAAGTATCAGATCAGAATCCATG
1 TCAAGAATCAGATCAGAATACAAA
**
843564 TC-AGATATCAGATCAGAATACATG
1 TCAAGA-ATCAGATCAGAATACAAA
*
843588 TCAAGAATCAGATCAGAATTCAAA
1 TCAAGAATCAGATCAGAATACAAA
843612 TCGAA-AATCAGAT
1 TC-AAGAATCAGAT
843625 AAAATATTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
23 2 0.03
24 68 0.91
25 5 0.07
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (24 bp):
TCAAGAATCAGATCAGAATACAAA
Found at i:843622 original size:48 final size:48
Alignment explanation
Indices: 843522--843624 Score: 118
Period size: 48 Copynumber: 2.1 Consensus size: 48
843512 CAGGTCAAGT
* * * ** *
843522 ATCATATCAGAATCCAAGTCAAGTATCAGATCAGAATCCATGTCAGAT
1 ATCAGATCAGAATACAAGTCAAGAATCAGATCAGAATCCAAATCAGAA
* *
843570 ATCAGATCAGAATACATGTCAAGAATCAGATCAGAATTCAAATC-GAAA
1 ATCAGATCAGAATACAAGTCAAGAATCAGATCAGAATCCAAATCAG-AA
843618 ATCAGAT
1 ATCAGAT
843625 AAAATATTCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
47 1 0.02
48 45 0.98
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.23
Consensus pattern (48 bp):
ATCAGATCAGAATACAAGTCAAGAATCAGATCAGAATCCAAATCAGAA
Found at i:848472 original size:43 final size:43
Alignment explanation
Indices: 848409--848503 Score: 172
Period size: 43 Copynumber: 2.2 Consensus size: 43
848399 CCTCCAACCG
*
848409 AACACACCATAATGTATAGGTTTCCCAGAACCATACACCCACC
1 AACACACCATAATGTATAGGTTCCCCAGAACCATACACCCACC
*
848452 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
1 AACACACCATAATGTATAGGTTCCCCAGAACCATACACCCACC
848495 AACACACCA
1 AACACACCA
848504 AGTAAGGCCC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.38, C:0.37, G:0.09, T:0.16
Consensus pattern (43 bp):
AACACACCATAATGTATAGGTTCCCCAGAACCATACACCCACC
Found at i:848632 original size:24 final size:24
Alignment explanation
Indices: 848605--848680 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
848595 TATATCAAAA
* * *
848605 ATCAAAACATAATTTATGTCAAGT
1 ATCAAAACAAAATTCAGGTCAAGT
* *
848629 ATCATATCAAAATTCAGGTCAAGT
1 ATCAAAACAAAATTCAGGTCAAGT
* * * * *
848653 ATCATATCAGAATCCAAGTCAAGT
1 ATCAAAACAAAATTCAGGTCAAGT
848677 ATCA
1 ATCA
848681 GATCAGAATC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (24 bp):
ATCAAAACAAAATTCAGGTCAAGT
Found at i:848685 original size:24 final size:24
Alignment explanation
Indices: 848620--848737 Score: 157
Period size: 24 Copynumber: 4.9 Consensus size: 24
848610 AACATAATTT
* * *
848620 ATGTCAAGTATCATATCAAAATTC
1 ATGTCAAGTATCAGATCAGAATCC
* *
848644 AGGTCAAGTATCATATCAGAATCC
1 ATGTCAAGTATCAGATCAGAATCC
*
848668 AAGTCAAGTATCAGATCAGAATCC
1 ATGTCAAGTATCAGATCAGAATCC
*
848692 ATGTC-AGATATCAAATCAGAATCC
1 ATGTCAAG-TATCAGATCAGAATCC
848716 ATGTCAAGTATCAGATCAGAAT
1 ATGTCAAGTATCAGATCAGAAT
848738 TCAAATCGAA
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 2 0.02
24 80 0.95
25 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (24 bp):
ATGTCAAGTATCAGATCAGAATCC
Found at i:848753 original size:72 final size:72
Alignment explanation
Indices: 848620--848755 Score: 168
Period size: 72 Copynumber: 1.9 Consensus size: 72
848610 AACATAATTT
* * * * *
848620 ATGTCAAGTATCATATCAAAATTCAGGTCAAGTATCATATCAGAATCCAAGTCAAGTATCAGATC
1 ATGTCAAGTATCAAATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAATCAAGAATCAGATC
848685 AGAATCC
66 AGAATCC
* * *
848692 ATGTC-AGATATCAAATCAGAATCCATGTCAAGTATCAGATCAGAATTCAAATCGAA-AATCAGA
1 ATGTCAAG-TATCAAATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAATC-AAGAATCAGA
848755 T
64 T
848756 AAAATATTCA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
71 2 0.04
72 50 0.93
73 2 0.04
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (72 bp):
ATGTCAAGTATCAAATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAATCAAGAATCAGATC
AGAATCC
Found at i:856712 original size:39 final size:39
Alignment explanation
Indices: 856651--856731 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 39
856641 GTGCTCCACG
* * *
856651 CGTCTTCAAGTTAAATATGAAGACTT-CACCACTGCATGA
1 CGTCTTCAAGGTAAATAAGAAGA-TTACACAACTGCATGA
*
856690 CGTCTTC-AGGTAAATGAAGAAGATTACACAACTGTATGA
1 CGTCTTCAAGGTAAAT-AAGAAGATTACACAACTGCATGA
856729 CGT
1 CGT
856732 TTTTAGGCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
38 9 0.25
39 27 0.75
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (39 bp):
CGTCTTCAAGGTAAATAAGAAGATTACACAACTGCATGA
Found at i:859573 original size:21 final size:21
Alignment explanation
Indices: 859541--859585 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
859531 GTTTACCACG
* *
859541 ATTGCTGTCATAGCGGGTGCT
1 ATTGCTGTCATAACGGGCGCT
859562 ATTGC-GTACATAACGGGCGCT
1 ATTGCTGT-CATAACGGGCGCT
859583 ATT
1 ATT
859586 ACGAGTATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (21 bp):
ATTGCTGTCATAACGGGCGCT
Done.