Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold227
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: 617646
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 5
Found at i:3603 original size:20 final size:20
Alignment explanation
Indices: 3580--3653 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
3570 ACAATTCAAA
3580 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
** *
3600 GTATCGATACATGAAAAG-ATTT
1 GTATCGATACATG--TTGCA-AT
3622 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
3642 GTATCGATACAT
1 GTATCGATACAT
3654 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
20 27 0.61
21 2 0.05
22 15 0.34
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:3632 original size:42 final size:42
Alignment explanation
Indices: 3580--3675 Score: 156
Period size: 42 Copynumber: 2.3 Consensus size: 42
3570 ACAATTCAAA
* * **
3580 GTATCGATACATGTTGCAATGTATCGATACATGAAAAGATTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
3622 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
3664 GTATCGATACAT
1 GTATCGATACAT
3676 TTCTTGGCAG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:3732 original size:13 final size:13
Alignment explanation
Indices: 3714--3739 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3704 TACAGCAAGT
3714 ATGTATCGATACA
1 ATGTATCGATACA
3727 ATGTATCGATACA
1 ATGTATCGATACA
3740 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:7822 original size:15 final size:15
Alignment explanation
Indices: 7802--7832 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7792 TAAAAATGTC
*
7802 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
7817 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
7832 C
1 C
7833 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:9925 original size:20 final size:21
Alignment explanation
Indices: 9846--9924 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
9836 AATGTCCAAA
*
9846 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
9866 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
9891 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
9911 TTGTATCGATACAT
1 ATGTATCGATACAT
9925 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:9929 original size:13 final size:13
Alignment explanation
Indices: 9911--9949 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
9901 ACATTTTTCT
9911 TTGTATCGATACA
1 TTGTATCGATACA
9924 TTGTATCGATACA
1 TTGTATCGATACA
*
9937 CTGTATCGATACA
1 TTGTATCGATACA
9950 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:12396 original size:20 final size:20
Alignment explanation
Indices: 12373--12445 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
12363 ACAATTCAAA
12373 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
12393 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
12414 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
12434 GTATCGATACAT
1 GTATCGATACAT
12446 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:12424 original size:41 final size:42
Alignment explanation
Indices: 12373--12467 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
12363 ACAATTCAAA
*
12373 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
12414 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
12456 GTATCGATACAT
1 GTATCGATACAT
12468 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:12524 original size:13 final size:13
Alignment explanation
Indices: 12506--12531 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12496 TACAGCAAGT
12506 ATGTATCGATACA
1 ATGTATCGATACA
12519 ATGTATCGATACA
1 ATGTATCGATACA
12532 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:20416 original size:23 final size:24
Alignment explanation
Indices: 20390--20447 Score: 109
Period size: 23 Copynumber: 2.5 Consensus size: 24
20380 TGGACATGTT
20390 AAAAATGCATGAAACATAAT-AAA
1 AAAAATGCATGAAACATAATAAAA
20413 AAAAATGCATGAAACATAATAAAA
1 AAAAATGCATGAAACATAATAAAA
20437 AAAAATGCATG
1 AAAAATGCATG
20448 GTCAAAGGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 20 0.59
24 14 0.41
ACGTcount: A:0.64, C:0.09, G:0.10, T:0.17
Consensus pattern (24 bp):
AAAAATGCATGAAACATAATAAAA
Found at i:21405 original size:20 final size:20
Alignment explanation
Indices: 21358--21432 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 20
21348 AAAAAGACAT
* ** *
21358 AATGTATCGATACAGTGTAG
1 AATGTATCGATACATTCAAA
* *
21378 AATATATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
21398 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCAAA
*
21418 AATGCATCGATACAT
1 AATGTATCGATACAT
21433 CAGGGTATGA
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:23314 original size:13 final size:14
Alignment explanation
Indices: 23290--23318 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
23280 AAAAATATTA
23290 TAAATATTAAAATT
1 TAAATATTAAAATT
23304 TAAAT-TTAAAATT
1 TAAATATTAAAATT
23317 TA
1 TA
23319 TAGATATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAATATTAAAATT
Found at i:27495 original size:20 final size:20
Alignment explanation
Indices: 27470--27535 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
27460 GTTGGGCTCA
27470 ATGTATCGATACATTTTACC
1 ATGTATCGATACATTTTACC
27490 ATGTATCGATAC-----A--
1 ATGTATCGATACATTTTACC
*
27503 ATGTATCGATATATTTTACC
1 ATGTATCGATACATTTTACC
27523 ATGTATCGATACA
1 ATGTATCGATACA
27536 ATGTATCGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 11 0.30
15 1 0.03
18 1 0.03
20 24 0.65
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTTACC
Found at i:27508 original size:13 final size:13
Alignment explanation
Indices: 27490--27549 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
27480 ACATTTTACC
27490 ATGTATCGATACA
1 ATGTATCGATACA
*
27503 ATGTATCGATA-T
1 ATGTATCGATACA
*
27515 AT-T-T---TACC
1 ATGTATCGATACA
27523 ATGTATCGATACA
1 ATGTATCGATACA
27536 ATGTATCGATACA
1 ATGTATCGATACA
27549 A
1 A
27550 AGTGAGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
7 2 0.05
8 2 0.05
9 1 0.03
10 2 0.05
11 1 0.03
12 2 0.05
13 28 0.74
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:27510 original size:33 final size:33
Alignment explanation
Indices: 27468--27548 Score: 153
Period size: 33 Copynumber: 2.5 Consensus size: 33
27458 CCGTTGGGCT
27468 CAATGTATCGATACATTTTACCATGTATCGATA
1 CAATGTATCGATACATTTTACCATGTATCGATA
*
27501 CAATGTATCGATATATTTTACCATGTATCGATA
1 CAATGTATCGATACATTTTACCATGTATCGATA
27534 CAATGTATCGATACA
1 CAATGTATCGATACA
27549 AAGTGAGTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (33 bp):
CAATGTATCGATACATTTTACCATGTATCGATA
Found at i:27657 original size:33 final size:32
Alignment explanation
Indices: 27597--27660 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
27587 CTTTTCAAGG
* *
27597 TGTATCGATACTATGAACATGTATCGATACAA
1 TGTATCGATAATAAGAACATGTATCGATACAA
*
27629 TGTATCGATAATAAGCAATATGTATCGATACA
1 TGTATCGATAATAAG-AACATGTATCGATACA
27661 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (32 bp):
TGTATCGATAATAAGAACATGTATCGATACAA
Found at i:27783 original size:20 final size:21
Alignment explanation
Indices: 27758--27798 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
27748 TTCTTTGAAT
27758 TATTTTTA-CTTGAAAAACAC
1 TATTTTTAGCTTGAAAAACAC
27778 TATTTTTATGCTTGAAAAACA
1 TATTTTTA-GCTTGAAAAACA
27799 TCTAACTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (21 bp):
TATTTTTAGCTTGAAAAACAC
Found at i:34840 original size:40 final size:41
Alignment explanation
Indices: 34736--34880 Score: 140
Period size: 40 Copynumber: 3.7 Consensus size: 41
34726 TTTCAAATTT
* * * *
34736 ATTAATTGTTGAATTTT--AACTATATTTCTAACCAATTAAA
1 ATTAATTGTTGAATTTTCAAAC-ATGTTTCCAAACAATTAGA
* * *
34776 ATTAA-GGTTGAATTTTCAATCATGTTTCCAATCAATTAGA
1 ATTAATTGTTGAATTTTCAAACATGTTTCCAAACAATTAGA
* * *
34816 ATTAATT-TTGAATTTTTAAACATGTTGCCAAAC-ATT-GG
1 ATTAATTGTTGAATTTTCAAACATGTTTCCAAACAATTAGA
*
34854 ATTAATTGTTGACTTTTCAAACATGTT
1 ATTAATTGTTGAATTTTCAAACATGTT
34881 AGCAACCATT
Statistics
Matches: 87, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
38 8 0.09
39 30 0.34
40 47 0.54
41 2 0.02
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.43
Consensus pattern (41 bp):
ATTAATTGTTGAATTTTCAAACATGTTTCCAAACAATTAGA
Found at i:35071 original size:3 final size:3
Alignment explanation
Indices: 35063--35139 Score: 91
Period size: 3 Copynumber: 25.7 Consensus size: 3
35053 ATGTTATTGG
* *
35063 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT CAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
35111 AAC AAC AAC AAT AAT AGT AAT AGT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
35140 AAAAAATGGT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:35589 original size:22 final size:21
Alignment explanation
Indices: 35561--35612 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
35551 GCTTATCATT
35561 TAAAGCTTAATAATCCTAAGC
1 TAAAGCTTAATAATCCTAAGC
* * *
35582 TTTAAGCTTGATAGTCCTAAGC
1 -TAAAGCTTAATAATCCTAAGC
35604 TAAAGCTTA
1 TAAAGCTTA
35613 GGTAATGTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (21 bp):
TAAAGCTTAATAATCCTAAGC
Found at i:40796 original size:28 final size:30
Alignment explanation
Indices: 40746--40801 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
40736 AATATTATTG
40746 TTTAATTTATATTAAATCAGTTTTAAAAAA
1 TTTAATTTATATTAAATCAGTTTTAAAAAA
* *
40776 TTTAATTTAT-TT-TATGAGTTTTAAAA
1 TTTAATTTATATTAAATCAGTTTTAAAA
40802 TTTTTTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.50
29 2 0.08
30 10 0.42
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (30 bp):
TTTAATTTATATTAAATCAGTTTTAAAAAA
Found at i:41097 original size:152 final size:147
Alignment explanation
Indices: 40642--41110 Score: 511
Period size: 149 Copynumber: 3.1 Consensus size: 147
40632 ATTTCACATT
* * * *
40642 TTTTAG-ATTTTTTTGTTTTCAAAATATGGAGTTTTTAACTCCGTAAATTTCTCT-GTTAGTATT
1 TTTTAGAATTTTTTTGTTTTC-AAATATGAAGTTTTT-ACTCTGTAAATTTTTCTGGTT-GGATT
* * * * *
40705 TTTCTAAGTTTATAATTTTTTAAAATTTTCAAATATTATTGTTTAATTTATATTAAATCAGTTTT
63 TTTCTAAG-TTA-AA-ATTTT-AAATTATCAAATATTATTATTTAATTCATATTAAATCAATTTT
40770 AAAAAATTTAATTTATTTTATGAG
124 AAAAAATTTAATTTATTTTATGAG
* * * *
40794 TTTTAAAATTTTTTTGTTATTGAAATATGAAGTTTTATACT-TCGTAAATTTTT-TCGATAGGAT
1 TTTTAGAATTTTTTTGTT-TTCAAATATGAAGTTTT-TACTCT-GTAAATTTTTCT-GGTTGGAT
* * *
40857 TTTTCTAAGCTTATAATTTTAAA-AATCAAATATTATTATTTAATTCATATTATATCAATTTTAA
62 TTTTCTAAG-TTAAAATTTTAAATTATCAAATATTATTATTTAATTCATATTAAATCAATTTTAA
*
40921 AAAATTTAGTTTATTTTATGAG
126 AAAATTTAATTTATTTTATGAG
*
40943 TTTTAGAATTTTTTTGTTTTCAAAGTATAAAGTTTTCTACTCTGTAAATTTTTCTGGTTGGATTT
1 TTTTAGAATTTTTTTGTTTTCAAA-TATGAAGTTTT-TACTCTGTAAATTTTTCTGGTTGGATTT
* * *
41008 TTCTCAA-TTCAAAATTTTGAAATTCATCAAATATTTTTATTAAATTCATATTAAATCAATTTGA
64 TTCT-AAGTT-AAAATTTT-AAATT-ATCAAATATTATTATTTAATTCATATTAAATCAATTTTA
* *
41072 TAAAATTTAATTTATTTTATAAG
125 AAAAATTTAATTTATTTTATGAG
*
41095 TTTT-GAATCTTTTTGT
1 TTTTAGAATTTTTTTGT
41111 ATATATCAAT
Statistics
Matches: 269, Mismatches: 34, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
148 7 0.03
149 116 0.43
150 10 0.04
151 15 0.06
152 66 0.25
153 51 0.19
154 4 0.01
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.52
Consensus pattern (147 bp):
TTTTAGAATTTTTTTGTTTTCAAATATGAAGTTTTTACTCTGTAAATTTTTCTGGTTGGATTTTT
CTAAGTTAAAATTTTAAATTATCAAATATTATTATTTAATTCATATTAAATCAATTTTAAAAAAT
TTAATTTATTTTATGAG
Found at i:42675 original size:165 final size:166
Alignment explanation
Indices: 42352--42705 Score: 425
Period size: 165 Copynumber: 2.1 Consensus size: 166
42342 CATTTTAAAG
* * * *
42352 ATTTTTATTATTCCTATGGCCTTTCGTAGGCGTATAGAAATTTTCAAAACATTTCATATCCTTTT
1 ATTTCTATTATTCCTATAGCCTTTCGTAGGCGTATAGAAATTTTCAAAACATTTCATATCCTCTC
* ** * * *
42417 GGTTTTTCATCGGGTATTAAATAAAATTTTCAAAATTTTAAGGGCTAAATAGCAAATTTAGTTTT
66 GGTTTTTAATCGGAAATGAAATAAAATTTTCAAAAGTTTAAGGGCTAAATAGCAAATTTAGATTT
* *
42482 TAGAAGAAAAATAGCTATCTTAGTCATTTTATTTAA
131 TACAAGAAAAATAACTATCTTAGTCATTTTATTTAA
* *
42518 ATTTCTATTATTTCTATAG-CTTTCTGTAAGG-GTATAGAAAATTTT-AAAACTTTTCATATCCT
1 ATTTCTATTATTCCTATAGCCTTTC-GT-AGGCGTATAG-AAATTTTCAAAACATTTCATATCCT
* *
42580 CTCGGTTTTTAAT-TGAAACTGAAAT-AAATTTTCAAAAGTTT-AGGGACTAAATAGCAAATTTG
63 CTCGGTTTTTAATCGGAAA-TGAAATAAAATTTTCAAAAGTTTAAGGG-CTAAATAGCAAATTTA
* * *
42642 GATTTTACAAGAAAAATCAAC-ATCTTGGTCATTTTCTTTAG
126 GATTTTACAAGAAAAAT-AACTATCTTAGTCATTTTATTTAA
*
42683 ATTTCTATTATTCCTATGGCCTT
1 ATTTCTATTATTCCTATAGCCTT
42706 CCATAGAAAT
Statistics
Matches: 160, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
164 4 0.03
165 86 0.54
166 60 0.38
167 10 0.06
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (166 bp):
ATTTCTATTATTCCTATAGCCTTTCGTAGGCGTATAGAAATTTTCAAAACATTTCATATCCTCTC
GGTTTTTAATCGGAAATGAAATAAAATTTTCAAAAGTTTAAGGGCTAAATAGCAAATTTAGATTT
TACAAGAAAAATAACTATCTTAGTCATTTTATTTAA
Found at i:43158 original size:157 final size:158
Alignment explanation
Indices: 42872--44117 Score: 1042
Period size: 157 Copynumber: 8.0 Consensus size: 158
42862 ATTATTTTTA
* * * * * * *
42872 TCTTTTAGGGTTACTGAAATATTTTCGTGTCAAAGGTAGACCTATAAGGGCATTTTCATAA-TTT
1 TCTTTTAGGGTTACTGAGATACTTTCATGTCAAAAGTATACCTATAAGGGTATTTTCGTAATTTT
* * * * **
42936 TTTAAAA-CGAGTCCTATGTTGTCACCAAGATGCTTTTATGCCAAAGGTGGAAATTTAGGATAGG
66 TTTAAAATCGAGTCCTAGGTTGTCATCGAGATGCTTTTATGCCAAAAGTGGGTATTTAGGATAGG
* *
43000 TTCATTCGATTTATGGTTC-TTTTTAAG
131 TTCATCCCATTTATGGTTCTTTTTTAAG
* * * *
43027 TTTTTTAGTGTTACTGAGATACTTTCATGTCAAAAGTATACCTATAAAGGTATTTTTGTAATTTT
1 TCTTTTAGGGTTACTGAGATACTTTCATGTCAAAAGTATACCTATAAGGGTATTTTCGTAATTTT
* * * * * * *
43092 TCTAAAATTGAGTCTTAGATTGTCATTGAGATGCTTTTATGCCAAAAGTGGGCATTTAAGATAGG
66 TTTAAAATCGAGTCCTAGGTTGTCATCGAGATGCTTTTATGCCAAAAGTGGGTATTTAGGATAGG
* * *
43157 TTCATGCTATTTAT-GATCTTTTTTAAG
131 TTCATCCCATTTATGGTTCTTTTTTAAG
* * * *
43184 T-TCTTTAGGGTTATCGGA-ATACTTTCATGTCGAAAGTATACCTATAGGGGTATTTTTGTAATT
1 TCT-TTTAGGGTTA-CTGAGATACTTTCATGTCAAAAGTATACCTATAAGGGTATTTTCGTAATT
* * * * * * *
43247 TTTCTAGAA-CAAGTCCTA-GTTATTATCGAGAAGCTTTTATGCCAAAAGGTGAGTATTTAGGAT
64 TTTTTAAAATCGAGTCCTAGGTTGTCATCGAGATGCTTTTATGCCAAAA-GTGGGTATTTAGGAT
* *
43310 AGGTTCATCCCATTTATGATCCTTTTTTAAG
128 AGGTTCATCCCATTTATGGTTCTTTTTTAAG
* * * * * *
43341 TCTTTTAGGGTTA-TCAAGATACTGTCATGTCAAAAGTATACCCACAAGGGCATTTTTGTAATTT
1 TCTTTTAGGGTTACT-GAGATACTTTCATGTCAAAAGTATACCTATAAGGGTATTTTCGTAATTT
** * * * *
43405 TTTTAGGATCGAGTCCTAGGTTGTCACCGAAATGCTTTTATG-CTAAAGATAGGTATTTAGGATA
65 TTTTAAAATCGAGTCCTAGGTTGTCATCGAGATGCTTTTATGCCAAAAG-TGGGTATTTAGGATA
* *
43469 GGTTAATCCCATTTAT-GATCTTTTTTAAG
129 GGTTCATCCCATTTATGGTTCTTTTTTAAG
* ** * * *
43498 TCTTTTAGGGTTACCGAGAT-CTTTCATGTTGAAGGTATACCAATAGGGGTATTTTCGTAATTTT
1 TCTTTTAGGGTTACTGAGATACTTTCATGTCAAAAGTATACCTATAAGGGTATTTTCGTAATTTT
* * * * * ** *
43562 TTAAAAATCGAGTCTTAGGTTGTCA-CCAGGATGTTTTTATACCAAATA-TTAGTATTTGGGATA
66 TTTAAAATCGAGTCCTAGGTTGTCATCGA-GATGCTTTTATGCCAAA-AGTGGGTATTTAGGATA
** * * *
43625 GGTTTGTCCCATTTAT-GATCATTTTAAAG
129 GGTTCATCCCATTTATGGTTCTTTTTTAAG
** * * * * *
43654 TCTTTTAGGGTTACCAAGATACTTTCATATCAAAGGTATACCCATAGGGGCT-TTTACGTAATTT
1 TCTTTTAGGGTTACTGAGATACTTTCATGTCAAAAGTATACCTATAAGGG-TATTTTCGTAATTT
** * * * * * * *
43718 TAGTAGAACCGAGTCTTAGGTTGTCATTG-GTATGCTTTTATACCAAAGGTTGGTATTTAGGATA
65 TTTTAAAATCGAGTCCTAGGTTGTCATCGAG-ATGCTTTTATGCCAAAAGTGGGTATTTAGGATA
* * * *
43782 TGTTTATCCCATTTAT-GATCCTTTTTAAG
129 GGTTCATCCCATTTATGGTTCTTTTTTAAG
* ** * *
43811 TCTTTTAGGGTTA-TCGAGATATTTTCATGTTGAAAGTATACCCATTAA-GGTATTTTCATAATT
1 TCTTTTAGGGTTACT-GAGATACTTTCATGTCAAAAGTATACCTA-TAAGGGTATTTTCGTAATT
* * *
43874 TTTTTAAAATCGAGTCTTAGGTTGTCA-C-ATGGATGCTTTTATACCAAAGGTGGGTATTTAGGA
64 TTTTTAAAATCGAGTCCTAGGTTGTCATCGA--GATGCTTTTATGCCAAAAGTGGGTATTTAGGA
* * *
43937 TAGCTTCATCCCATTTAT-GATCCTTTTTAAG
127 TAGGTTCATCCCATTTATGGTTCTTTTTTAAG
** * * * *
43968 TCTTTTAGGGTTGTTGAGATACTTTCATGTCAAAGGTAT-CCT-TATAGAAGCATTTTTGTAATT
1 TCTTTTAGGGTTACTGAGATACTTTCATGTCAAAAGTATACCTATA-AG-GGTATTTTCGTAATT
* * * * *
44031 TTTTTAAAGTTGAGTCCTAGGTTGTCATC-AGGAGGC--TT-TGCC-AAAGATGTGTATTTAAGA
64 TTTTTAAAATCGAGTCCTAGGTTGTCATCGA-GATGCTTTTATGCCAAAAG-TGGGTATTTAGGA
* *
44091 TAGGTTTA-CCCTATTTATGGTTGTTTT
127 TAGGTTCATCCC-ATTTATGGTTCTTTT
44118 AAGGTCTAGT
Statistics
Matches: 894, Mismatches: 161, Indels: 72
0.79 0.14 0.06
Matches are distributed among these distances:
153 6 0.01
154 28 0.03
155 84 0.09
156 172 0.19
157 534 0.60
158 52 0.06
159 18 0.02
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (158 bp):
TCTTTTAGGGTTACTGAGATACTTTCATGTCAAAAGTATACCTATAAGGGTATTTTCGTAATTTT
TTTAAAATCGAGTCCTAGGTTGTCATCGAGATGCTTTTATGCCAAAAGTGGGTATTTAGGATAGG
TTCATCCCATTTATGGTTCTTTTTTAAG
Found at i:43442 original size:314 final size:312
Alignment explanation
Indices: 42872--44058 Score: 1220
Period size: 314 Copynumber: 3.8 Consensus size: 312
42862 ATTATTTTTA
* * * * * * *
42872 TCTTTTAGGGTTACTGAAATATTTTCGTGTC-AAAGGTAGACCTATAAGGGCATTTTCATAATTT
1 TCTTTTAGGGTTACGGAGATACTTTCATGTCGAAA-GTATACCTATAGGGGTATTTTCATAATTT
* * * *
42936 TTTAAAA-CGAGTCCTATGTTGTCACCAAGATGCTTTTATGCCAAAGGTG-GAAATTTAGGATAG
65 TTTAAAATCGAGTCCTAGGTTGTCA-CAGGATGCTTTTATACCAAAGGTGAG-TATTTAGGATAG
* * * * * * *
42999 GTTCATTCGATTTATGGTTCTTTTTAAGTTTTTTAGTGTTA-CTGAGATACTTTCATGTCAAAAG
128 GTTCATCCCATTTATGATCCTTTTTAAGTCTTTTAGGGTTATC-AAGATACTTTCATGTCAAAAG
* * * * * * * * *
43063 TATACCTATAAAGGTATTTTTGTAATTTTTCTAAAATTGAGTCTTAGATTGTCATTGAGATGCTT
192 TATACCCATAAGGGCATTTTTGTAATTTTTTTAGAATCGAGTCCTAGGTTGTCATTGAAATGCTT
* * * * * *
43128 TTATGCCAAAAGTGGGCATTTAAGATAGGTTCATGCTATTTATGATCTTTTTTAAG
257 TTATGCCAAAAGTAGGTATTTAGGATAGGTTAATCCCATTTATGATCTTTTTTAAG
**
43184 T-TCTTTAGGGTTATCGGA-ATACTTTCATGTCGAAAGTATACCTATAGGGGTATTTTTGTAATT
1 TCT-TTTAGGGTTA-CGGAGATACTTTCATGTCGAAAGTATACCTATAGGGGTATTTTCATAATT
* * * * * *
43247 TTTCTAGAA-CAAGTCCTA-GTTATTATC-GAGAAGCTTTTATGCCAAAAGGTGAGTATTTAGGA
64 TTT-TAAAATCGAGTCCTAGGTTGTCA-CAG-GATGCTTTTATACC-AAAGGTGAGTATTTAGGA
*
43309 TAGGTTCATCCCATTTATGATCCTTTTTTAAGTCTTTTAGGGTTATCAAGATACTGTCATGTCAA
125 TAGGTTCATCCCATTTATGATCC-TTTTTAAGTCTTTTAGGGTTATCAAGATACTTTCATGTCAA
* * **
43374 AAGTATACCCACAAGGGCATTTTTGTAATTTTTTTAGGATCGAGTCCTAGGTTGTCACCGAAATG
189 AAGTATACCCATAAGGGCATTTTTGTAATTTTTTTAGAATCGAGTCCTAGGTTGTCATTGAAATG
*
43439 CTTTTATG-CTAAAGATAGGTATTTAGGATAGGTTAATCCCATTTATGATCTTTTTTAAG
254 CTTTTATGCCAAAAG-TAGGTATTTAGGATAGGTTAATCCCATTTATGATCTTTTTTAAG
* * * * *
43498 TCTTTTAGGGTTACCGAGAT-CTTTCATGTTGAAGGTATACCAATAGGGGTATTTTCGTAATTTT
1 TCTTTTAGGGTTACGGAGATACTTTCATGTCGAAAGTATACCTATAGGGGTATTTTCATAATTTT
* * ** * *
43562 TTAAAAATCGAGTCTTAGGTTGTCACCAGGATGTTTTTATACCAAATATTAGTATTTGGGATAGG
66 TT-AAAATCGAGTCCTAGGTTGTCA-CAGGATGCTTTTATACCAAAGGTGAGTATTTAGGATAGG
** * * * * *
43627 TTTGTCCCATTTATGATCATTTTAAAGTCTTTTAGGGTTACCAAGATACTTTCATATCAAAGGTA
129 TTCATCCCATTTATGATCCTTTTTAAGTCTTTTAGGGTTATCAAGATACTTTCATGTCAAAAGTA
* * ** * * **
43692 TACCCATAGGGGC-TTTTACGTAATTTTAGTAGAACCGAGTCTTAGGTTGTCATTGGTATGCTTT
194 TACCCATAAGGGCATTTT-TGTAATTTTTTTAGAATCGAGTCCTAGGTTGTCATTGAAATGCTTT
* * * * * *
43756 TATACCAAAGGTTGGTATTTAGGATATGTTTATCCCATTTATGATCCTTTTTAAG
258 TATGCCAAAAGTAGGTATTTAGGATAGGTTAATCCCATTTATGATCTTTTTTAAG
* * * *
43811 TCTTTTAGGGTTATC-GAGATATTTTCATGTTGAAAGTATACCCATTA-AGGTATTTTCATAATT
1 TCTTTTAGGGTTA-CGGAGATACTTTCATGTCGAAAGTATACCTA-TAGGGGTATTTTCATAA-T
* *
43874 TTTTTAAAATCGAGTCTTAGGTTGTCACATGGATGCTTTTATACCAAAGGTGGGTATTTAGGATA
63 TTTTTAAAATCGAGTCCTAGGTTGTCACA-GGATGCTTTTATACCAAAGGTGAGTATTTAGGATA
* * ** *
43939 GCTTCATCCCATTTATGATCCTTTTTAAGTCTTTTAGGGTTGTTGAGATACTTTCATGTCAAAGG
127 GGTTCATCCCATTTATGATCCTTTTTAAGTCTTTTAGGGTTATCAAGATACTTTCATGTCAAAAG
* * *
44004 TAT--CCTTATAGAAGCATTTTTGTAATTTTTTTA-AAGTTGAGTCCTAGGTTGTCAT
192 TATACCCATA-AG-GGCATTTTTGTAATTTTTTTAGAA-TCGAGTCCTAGGTTGTCAT
44059 CAGGAGGCTT
Statistics
Matches: 729, Mismatches: 119, Indels: 52
0.81 0.13 0.06
Matches are distributed among these distances:
311 1 0.00
312 76 0.10
313 258 0.35
314 362 0.50
315 31 0.04
316 1 0.00
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (312 bp):
TCTTTTAGGGTTACGGAGATACTTTCATGTCGAAAGTATACCTATAGGGGTATTTTCATAATTTT
TTAAAATCGAGTCCTAGGTTGTCACAGGATGCTTTTATACCAAAGGTGAGTATTTAGGATAGGTT
CATCCCATTTATGATCCTTTTTAAGTCTTTTAGGGTTATCAAGATACTTTCATGTCAAAAGTATA
CCCATAAGGGCATTTTTGTAATTTTTTTAGAATCGAGTCCTAGGTTGTCATTGAAATGCTTTTAT
GCCAAAAGTAGGTATTTAGGATAGGTTAATCCCATTTATGATCTTTTTTAAG
Found at i:43813 original size:470 final size:467
Alignment explanation
Indices: 42872--44069 Score: 1314
Period size: 470 Copynumber: 2.5 Consensus size: 467
42862 ATTATTTTTA
* * * * *
42872 TCTTTTAGGGTTACTGAA-ATATTTTCGTGTCAAAGGTAGACCTATAAGGGCATTTTCATAA-TT
1 TCTTTTAGGGTTA-TCAAGATATTTTCATGTCAAAAGTATACCCATAAGGGCATTTTCATAATTT
* * *
42935 TTTTAAAACGAGTCCTATGTTGTCACC-AAGATGCTTTTATGCCAAAGGTGGAAATTTAGGATAG
65 TTTTAAATCGAGTCCTAGGTTGTCACCGAA-ATGCTTTTATGCCAAAGGTGG-TATTTAGGATAG
* * * * * *
42999 GTTCATTCGATTTATGGT-TCTTTTTAAGTTTTTTAGTGTTACTGAGATACTTTCATGTCAAAAG
128 GTTCATCCCATTTATGATCT-TTTTTAAGTCTTTTAGGGTTACTGAGATACTTTCATGTCAAAGG
* * **
43063 TATACCTATAAAGGTATTTTTGTAATTTTTCTAAAATTGAGTCTTAGATTGTCATTGAGATGCTT
192 TATACCTATAGAGGTATTTTTGTAATTTTT-TAAAATTGAGTCTTAGGTTGTCACAG-GATGCTT
* * * * * *
43128 TTATGCCAAAAGTGGGCATTTAAGATAGGTTCATGCTATTTATGATCTTTTTTAAGTTCTTTAGG
255 TTATACCAAAAGTGAGCATTTAAGATAGGTTCATCCCATTTATGATCATTTTAAAGTTCTTTAGG
* * * * ** *
43193 GTTATCGGAATACTTTCATGTCGAAAGTATACCTATAGGGGTATTTTTGTAATTTTTCTAGAACA
320 GTTACCAGAATACTTTCATATCGAAAGTATACCCATAGGGGTATTTACGTAATTTTACTAGAACA
* *
43258 AGTCCTAGTTATTATCGAGAAGCTTTTATGCCAAAAGGTGAGTATTTAGGATAGGTTCATCCCAT
385 AGTCCTAGTTATCATCGAGAAGCTTTTATACCAAAAGGTGAGTATTTAGGATAGGTTCATCCCAT
43323 TTATGATCCTTTTTTAAG
450 TTATGATCCTTTTTTAAG
* * * **
43341 TCTTTTAGGGTTATCAAGATACTGTCATGTCAAAAGTATACCCACAAGGGCATTTTTGTAATTTT
1 TCTTTTAGGGTTATCAAGATATTTTCATGTCAAAAGTATACCCATAAGGGCATTTTCATAATTTT
* * *
43406 TTTAGGATCGAGTCCTAGGTTGTCACCGAAATGCTTTTATGCTAAAGATAGGTATTTAGGATAGG
66 TTTA-AATCGAGTCCTAGGTTGTCACCGAAATGCTTTTATGCCAAAGGT-GGTATTTAGGATAGG
* * **
43471 TTAATCCCATTTATGATCTTTTTTAAGTCTTTTAGGGTTACCGAGAT-CTTTCATGTTGAAGGTA
129 TTCATCCCATTTATGATCTTTTTTAAGTCTTTTAGGGTTACTGAGATACTTTCATGTCAAAGGTA
* * * * *
43535 TACCAATAGGGGTATTTTCGTAATTTTTTAAAAATCGAGTCTTAGGTTGTCACCAGGATGTTTTT
194 TACCTATAGAGGTATTTTTGTAATTTTTT-AAAATTGAGTCTTAGGTTGTCA-CAGGATGCTTTT
* * ** **
43600 ATACCAAATA-TTAGTATTTGGGATAGGTTTGTCCCATTTATGATCATTTTAAAG-TCTTTTAGG
257 ATACCAAA-AGTGAGCATTTAAGATAGGTTCATCCCATTTATGATCATTTTAAAGTTC-TTTAGG
*
43663 GTTACCA-AGATACTTTCATATC-AAAGGTATACCCATAGGGGCT-TTTACGTAATTTTAGTAGA
320 GTTACCAGA-ATACTTTCATATCGAAA-GTATACCCATAGGGG-TATTTACGTAATTTTACTAGA
* * * * * * *
43725 ACCGAGTCTTAGGTTGTCATTG-GTATGCTTTTATACC-AAAGGTTG-GTATTTAGGATATGTTT
382 A-CAAGTCCTA-GTTATCATCGAG-AAGCTTTTATACCAAAAGG-TGAGTATTTAGGATAGGTTC
43787 ATCCCATTTATGATCC-TTTTTAAG
443 ATCCCATTTATGATCCTTTTTTAAG
* ** *
43811 TCTTTTAGGGTTATCGAGATATTTTCATGTTGAAAGTATACCCATTAA-GGTATTTTCATAATTT
1 TCTTTTAGGGTTATCAAGATATTTTCATGTCAAAAGTATACCCA-TAAGGGCATTTTCATAATTT
* * * *
43875 TTTTAAAATCGAGTCTTAGGTTGTCACATG-GATGCTTTTATACCAAAGGTGGGTATTTAGGATA
65 TTTT-AAATCGAGTCCTAGGTTGTCAC-CGAAATGCTTTTATGCCAAAGGT-GGTATTTAGGATA
* * **
43939 GCTTCATCCCATTTATGATCCTTTTTAAGTCTTTTAGGGTTGTTGAGATACTTTCATGTCAAAGG
127 GGTTCATCCCATTTATGATCTTTTTTAAGTCTTTTAGGGTTACTGAGATACTTTCATGTCAAAGG
* * * * *
44004 TAT-CCTTATAGAAGCATTTTTGTAATTTTTTTAAAGTTGAGTCCTAGGTTGTCATCAGGAGGCT
192 TATACC-TATAGAGGTATTTTTGTAA-TTTTTTAAAATTGAGTCTTAGGTTGTCA-CAGGATGCT
44068 TT
254 TT
44070 GCCAAAGATG
Statistics
Matches: 606, Mismatches: 100, Indels: 44
0.81 0.13 0.06
Matches are distributed among these distances:
468 3 0.00
469 54 0.09
470 323 0.53
471 195 0.32
472 31 0.05
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (467 bp):
TCTTTTAGGGTTATCAAGATATTTTCATGTCAAAAGTATACCCATAAGGGCATTTTCATAATTTT
TTTAAATCGAGTCCTAGGTTGTCACCGAAATGCTTTTATGCCAAAGGTGGTATTTAGGATAGGTT
CATCCCATTTATGATCTTTTTTAAGTCTTTTAGGGTTACTGAGATACTTTCATGTCAAAGGTATA
CCTATAGAGGTATTTTTGTAATTTTTTAAAATTGAGTCTTAGGTTGTCACAGGATGCTTTTATAC
CAAAAGTGAGCATTTAAGATAGGTTCATCCCATTTATGATCATTTTAAAGTTCTTTAGGGTTACC
AGAATACTTTCATATCGAAAGTATACCCATAGGGGTATTTACGTAATTTTACTAGAACAAGTCCT
AGTTATCATCGAGAAGCTTTTATACCAAAAGGTGAGTATTTAGGATAGGTTCATCCCATTTATGA
TCCTTTTTTAAG
Found at i:44906 original size:13 final size:13
Alignment explanation
Indices: 44888--44944 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
44878 CATAACGTGT
44888 TGTATCGATACAA
1 TGTATCGATACAA
44901 TGTATCGATACATAA
1 TGTATCGATAC--AA
44916 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
44933 TGTATCGATACA
1 TGTATCGATACA
44945 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:44925 original size:19 final size:18
Alignment explanation
Indices: 44866--44963 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
44856 ATTTCAACGA
44866 TTTGTATCGATACATAACG
1 TTTGTATCGATACATAA-G
44885 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
44901 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
44917 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
44933 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
44949 TTTTGTATCGATACA
1 -TTTGTATCGATACA
44964 ATGTAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 2 0.03
18 2 0.03
19 24 0.36
20 12 0.18
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:44925 original size:32 final size:32
Alignment explanation
Indices: 44868--44968 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
44858 TTCAACGATT
44868 TGTATCGATACATAACGTGTTGTATCGATACAA
1 TGTATCGATACATAA-GTGTTGTATCGATACAA
44901 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
44933 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
44965 TGTA
1 TGTA
44969 AGCTACTGCC
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 52 0.78
33 15 0.22
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:45024 original size:13 final size:13
Alignment explanation
Indices: 45006--45030 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44996 ATTACTCAAA
45006 TGTATCGATACAT
1 TGTATCGATACAT
45019 TGTATCGATACA
1 TGTATCGATACA
45031 CTGATCTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:45078 original size:52 final size:52
Alignment explanation
Indices: 45041--45167 Score: 209
Period size: 52 Copynumber: 2.4 Consensus size: 52
45031 CTGATCTTTC
* *
45041 TATCGATAAATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAGATG
1 TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATG
* * *
45093 TATCGATACATGCAGGCAAATTTGCCTATATGTATCGATACACTATGAAATG
1 TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATG
45145 TATCGATACATGCAGGCAAATTT
1 TATCGATACATGCAGGCAAATTT
45168 TCATATTTTG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29
Consensus pattern (52 bp):
TATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAATG
Found at i:53635 original size:13 final size:13
Alignment explanation
Indices: 53617--53642 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53607 CAATTTTTTG
53617 TGTATCGATACAT
1 TGTATCGATACAT
53630 TGTATCGATACAT
1 TGTATCGATACAT
53643 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:54382 original size:21 final size:21
Alignment explanation
Indices: 54341--54384 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
54331 CTCTCCTTTA
* *
54341 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
54362 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
54383 TC
1 TC
54385 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:56203 original size:13 final size:13
Alignment explanation
Indices: 56185--56210 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56175 ATAATCACCC
56185 TGTATCGATACAA
1 TGTATCGATACAA
56198 TGTATCGATACAA
1 TGTATCGATACAA
56211 AGAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:56426 original size:8 final size:8
Alignment explanation
Indices: 56413--56444 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
56403 CATCATTCAA
56413 CACAAAAT
1 CACAAAAT
56421 CACAAAAT
1 CACAAAAT
56429 CACAAAAT
1 CACAAAAT
56437 CACAAAAT
1 CACAAAAT
56445 TTAATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.25, G:0.00, T:0.12
Consensus pattern (8 bp):
CACAAAAT
Found at i:58318 original size:15 final size:15
Alignment explanation
Indices: 58298--58328 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58288 ATTTCGTTTG
*
58298 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
58313 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
58328 G
1 G
58329 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:60161 original size:21 final size:21
Alignment explanation
Indices: 60132--60176 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
60122 AAGTTTTCAT
*
60132 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
60152 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
60174 TTT
1 TTT
60177 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:62420 original size:13 final size:13
Alignment explanation
Indices: 62402--62427 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62392 CAATTTTTTG
62402 TGTATCGATACAT
1 TGTATCGATACAT
62415 TGTATCGATACAT
1 TGTATCGATACAT
62428 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:64002 original size:155 final size:154
Alignment explanation
Indices: 63262--64421 Score: 936
Period size: 157 Copynumber: 7.5 Consensus size: 154
63252 TAAGTGCAAG
* * * * * * *
63262 AAAAATTACGAAAATGCCTCTAAG-GGAAACCTTCAACTTAAAAGTACCCGATACCCCTAAAGAA
1 AAAAATTATGAAAATACC-CTTAGAGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGA
* * * * *
63326 CTTAAAAAGATTATAGATGG-GATGAACCTATCCTAAACACCCACCTTCGACATAAAAGCAAAAC
65 CTTAAAAAGA-TATGGATGGAGGTGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACC
* * *
63390 CGGTGACAACCTAAGACTCGATTTTA
129 CAGTGACAACCTAAGACTCGGTTCTA
* * * ** *
63416 AAAAATTACT-AAACTACCCTTAGGGGCTACCTTCGATATAAAAGTACCCGATATCCCTAAAGGA
1 AAAAATTA-TGAAAATACCCTTAGAGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGA
* * *
63480 CTTAAAAAGAT-TAGAAATGG-GATGAACCTATCTTAAATACCCACCTTCGACATAAAAGC-GAG
65 CTTAAAAAGATAT-G-GATGGAGGTGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGA-
* * * *
63542 CCCGGTGACGACCTAAGAATTGGTTCTA
127 CCCAGTGACAACCTAAGACTCGGTTCTA
* * * * *
63570 AAAAAATATGAAAATGTCCC-TATG-GGTATACCTTCGACGTGAAAGTTTCCCGATAACCCT-AA
1 AAAAATTATGAAAAT-ACCCTTA-GAGG-ATACCTTCGACGTAAAAG-TACCCGATACCCCTAAA
* * *
63632 GAGACTTAAAAAGGATATAGATAGGA-GTGAACCTATCCTAAATGCCCACCTTC-AGCATGAAAG
62 G-GACTTAAAAA-GATATGGAT-GGAGGTGAACCTATCCTAAATACCCACCTTCGA-CATAAAAG
** ** * * * * *
63695 TGGACCTGGTGATAACTTAGGATTTGGTTCTA
123 CAGACCCAGTGACAACCTAAGACTCGGTTCTA
* * * *
63727 AAAAATTATGAAAATACCCCTACGAGTATACCTTCGACGTAAAAGTATCCCGACAACCCTAAAGG
1 AAAAATTATGAAAATACCCTTA-GAGGATACCTTCGACGTAAAAGTA-CCCGATACCCCTAAAGG
* *
63792 ACTTAAAAAGACTA-GAGATGG-GATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGA
64 ACTTAAAAAGA-TATG-GATGGAGGTGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGA
* * *
63855 CCCAGTGATAACCTAGGACTGGGTTCTA
127 CCCAGTGACAACCTAAGACTCGGTTCTA
* * * * * * * *
63883 GAAAATTTATGAAAATGCCCTTAGGGGAGACCTTCGATGTAATAGTGCTCGATACCCCTAAAGGA
1 -AAAAATTATGAAAATACCCTTAGAGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGA
*
63948 CTTAAAAAGGATATGGA-GGAGGTGAACCTATCCTAAATACCCACATTCGACATAAAAGCAGACC
65 CTTAAAAA-GATATGGATGGAGGTGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACC
* *
64012 CAATGACAACCTAGGACTCGGTTCTA
129 CAGTGACAACCTAAGACTCGGTTCTA
* * * * * * * * *
64038 GGAAAATTATAAAAATGCCCCTATAGGATACCTTTGACGTAACAGTGCCTGATACCCCTAAAGGA
1 -AAAAATTATGAAAATACCCTTAGAGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGA
* * * * * * *
64103 CTTAAAAGGATATGGATGGA-GTGAACCTATCCTAAAGACCTACCTTTGGCATAAAAGCA-AACT
65 CTTAAAAAGATATGGATGGAGGTGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCC
* * **
64166 AGGTGATAACTTAAGACTCAATTCTA
130 A-GTGACAACCTAAGACTCGGTTCTA
* * * * ** * *
64192 GAAAACTATGAAAATACCTTTAGAGGATACTTTCGACGTAAAAGTATTCGATACTCCGAAAGGAC
1 AAAAATTATGAAAATACCCTTAGAGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGAC
* ** * *
64257 TTTAAAAAAAGATTTTAACT--AGGATGAACCTATCCTAAATATCCACCTTCGACATAAAAGCAA
66 -TT--AAAAAGATATGGA-TGGAGG-TGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAG
* * * *
64320 AACC-GAAGACATCCTAAGACTCGGTTCTG
126 ACCCAG-TGACAACCTAAGACTCGGTTCTA
* * * * * * * * *
64349 AAAAATTATAAAAATACCCTTAAAGGATATCTTCGACATAGAAGTACCCAATATCTCTAAAAGAC
1 AAAAATTATGAAAATACCCTTAGAGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGAC
64414 TTAAAAAG
66 TTAAAAAG
64422 GAAAAGAAAA
Statistics
Matches: 811, Mismatches: 156, Indels: 78
0.78 0.15 0.07
Matches are distributed among these distances:
152 1 0.00
153 60 0.07
154 205 0.25
155 176 0.22
156 124 0.15
157 235 0.29
158 10 0.01
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (154 bp):
AAAAATTATGAAAATACCCTTAGAGGATACCTTCGACGTAAAAGTACCCGATACCCCTAAAGGAC
TTAAAAAGATATGGATGGAGGTGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCCA
GTGACAACCTAAGACTCGGTTCTA
Found at i:64294 original size:311 final size:312
Alignment explanation
Indices: 63290--64421 Score: 901
Period size: 311 Copynumber: 3.6 Consensus size: 312
63280 TCTAAGGGAA
* * * * * *
63290 ACCTTCAACTTAAAAGTACCCGATACCCCTAAAGAACTT-AAAAAGATTAT-AGA-TGGGATGAA
1 ACCTTCGACGTAAAAGTACTCGATACCCCGAAAGGACTTAAAAAAGA-TATGA-ACTAGGATGAA
* * * ** * * *
63352 CCTATCCTAAACACCCACCTTCGACATAAAAGCAAAACCGGTGACAACCTAAGACTCGATTTTA-
64 CCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCCAATGACAACCTAGGACTCGGTTCTAG
* * ** * ** * *
63416 AAAAATTACT-AAACTACCCTTAGGGGCTACCTTCGATATAAAAGTA-CCCGATATCCCTAAAGG
129 AAAAATTA-TAAAAATACCCCTAAAGGATACCTTCGACGTAAAAGTAGCCCGACAACCCTAAAGG
* * * * * *
63479 ACTTAAAAAGATTAGAAATGGGATGAACCTATCTTAAATACCCACCTTCGACATAAAAGC-GAGC
193 ACTTAAAAAGACTAGAGATGGGATGAACCTATCCTAAAGACCCACCTTCGGCATAAAAGCAGA-A
* ** * *** ** * *
63543 CCGGTGACGACCTAAGAATTGGTTCTA-AAAAAATATGAAAATGTCCC-TATG-GGTAT
257 CCAGTGATAACCTAAGACTCAATTCTAGAAAATCTATGAAAAT-ACCCTTA-GAGG-AG
* * * * * *
63599 ACCTTCGACGTGAAAGTTTCCCGATAACCC-TAAGAGACTTAAAAAGGATAT-AGA-TAGGAGTG
1 ACCTTCGACGTAAAAG-TACTCGATACCCCGAAAG-GACTTAAAAAAGATATGA-ACTAGGA-TG
* * ** *** * * * *
63661 AACCTATCCTAAATGCCCACCTTC-AGCATGAAAGTGGACCTGGTGATAACTTAGGATTTGGTTC
62 AACCTATCCTAAATACCCACCTTCGA-CATAAAAGCAGACCCAATGACAACCTAGGACTCGGTTC
* * * *
63725 TA-AAAAATTATGAAAATACCCCTACGAGTATACCTTCGACGTAAAAGTATCCCGACAACCCTAA
126 TAGAAAAATTATAAAAATACCCCTA-AAGGATACCTTCGACGTAAAAGTAGCCCGACAACCCTAA
*
63789 AGGACTTAAAAAGACTAGAGATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAG
190 AGGACTTAAAAAGACTAGAGATGGGATGAACCTATCCTAAAGACCCACCTTCGGCATAAAAGCAG
* * *** * * *
63854 ACCCAGTGATAACCTAGGACTGGGTTCTAGAAAATTTATGAAAATGCCCTTAGGGGAG
255 AACCAGTGATAACCTAAGACTCAATTCTAGAAAATCTATGAAAATACCCTTAGAGGAG
* * * * * * **
63912 ACCTTCGATGTAATAGTGCTCGATACCCCTAAAGGACTTAAAAAGGATATGGAGGAGG-TGAACC
1 ACCTTCGACGTAAAAGTACTCGATACCCCGAAAGGACTTAAAAAAGATATGAACTAGGATGAACC
* *
63976 TATCCTAAATACCCACATTCGACATAAAAGCAGACCCAATGACAACCTAGGACTCGGTTCTAGGA
66 TATCCTAAATACCCACCTTCGACATAAAAGCAGACCCAATGACAACCTAGGACTCGGTTCTAGAA
* * * * * * *
64041 AAATTATAAAAATGCCCCTATAGGATACCTTTGACGTAACAGT-GCCTGATACCCCTAAAGGACT
131 AAATTATAAAAATACCCCTAAAGGATACCTTCGACGTAAAAGTAGCCCGACAACCCTAAAGGACT
* * * *
64105 TAAAAGGA-TATG-GAT-GGAGTGAACCTATCCTAAAGACCTACCTTTGGCATAAAAGCA-AACT
196 TAAAAAGACTA-GAGATGGGA-TGAACCTATCCTAAAGACCCACCTTCGGCATAAAAGCAGAACC
* * *
64166 AGGTGATAACTTAAGACTCAATTCTAGAAAA-CTATGAAAATACCTTTAGAGGAT
259 A-GTGATAACCTAAGACTCAATTCTAGAAAATCTATGAAAATACCCTTAGAGGAG
* * * * *
64220 ACTTTCGACGTAAAAGTATTCGATACTCCGAAAGGACTTTAAAAAAAGATTTTAACTAGGATGAA
1 ACCTTCGACGTAAAAGTACTCGATACCCCGAAAGGAC-TT-AAAAAAGATATGAACTAGGATGAA
* * * * *
64285 CCTATCCTAAATATCCACCTTCGACATAAAAGCAAAACCGAA-GACATCCTAAGACTCGGTTCT-
64 CCTATCCTAAATACCCACCTTCGACATAAAAGC-AGACCCAATGACAACCTAGGACTCGGTTCTA
* * * * * * * * *
64348 GAAAAATTATAAAAATACCCTTAAAGGATATCTTCGACATAGAAGTA-CCCAATATCTCTAAAAG
128 GAAAAATTATAAAAATACCCCTAAAGGATACCTTCGACGTAAAAGTAGCCCGACAACCCTAAAGG
64412 ACTTAAAAAG
193 ACTTAAAAAG
64422 GAAAAGAAAA
Statistics
Matches: 669, Mismatches: 129, Indels: 49
0.79 0.15 0.06
Matches are distributed among these distances:
308 54 0.08
309 82 0.12
310 123 0.18
311 202 0.30
312 72 0.11
313 117 0.17
314 19 0.03
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (312 bp):
ACCTTCGACGTAAAAGTACTCGATACCCCGAAAGGACTTAAAAAAGATATGAACTAGGATGAACC
TATCCTAAATACCCACCTTCGACATAAAAGCAGACCCAATGACAACCTAGGACTCGGTTCTAGAA
AAATTATAAAAATACCCCTAAAGGATACCTTCGACGTAAAAGTAGCCCGACAACCCTAAAGGACT
TAAAAAGACTAGAGATGGGATGAACCTATCCTAAAGACCCACCTTCGGCATAAAAGCAGAACCAG
TGATAACCTAAGACTCAATTCTAGAAAATCTATGAAAATACCCTTAGAGGAG
Found at i:65843 original size:12 final size:12
Alignment explanation
Indices: 65826--65871 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
65816 TTGAAATTTC
*
65826 TTTTTTCTCTCA
1 TTTTTTCTCTCT
*
65838 TTTTTTCTCACTT
1 TTTTTTCTCTC-T
65851 TTTTTTCTCTCT
1 TTTTTTCTCTCT
65863 TTTTTTCTC
1 TTTTTTCTC
65872 CTTGATGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
12 20 0.67
13 10 0.33
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTTCTCTCT
Found at i:66026 original size:20 final size:21
Alignment explanation
Indices: 65987--66025 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
65977 TCCAATTTAT
65987 TTTTATTTTTATGACATTTTC
1 TTTTATTTTTATGACATTTTC
66008 TTTT-TTTTTATG-CATTTT
1 TTTTATTTTTATGACATTTT
66026 TATGAGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.15, C:0.08, G:0.05, T:0.72
Consensus pattern (21 bp):
TTTTATTTTTATGACATTTTC
Found at i:66631 original size:166 final size:163
Alignment explanation
Indices: 66439--66938 Score: 490
Period size: 167 Copynumber: 3.1 Consensus size: 163
66429 AGATACATTT
** * * *
66439 TAAAAATTTTAAACCGAAG-AAAATCCTCCCAAAAATATTTATGAAGAAAAAAATTCGGT-TCTT
1 TAAAAATTAAAAACC-AAGAAAAATCCTCCCAAAAAAATTTACGAAGAAGAAAATTC-GTAT-TT
* * * *
66502 CGAAAAAAGAGAAATTTCAACAAAAAAATCTAAAACTCATGAAAATGAATTAATTTTTTAAAACT
63 CGAAAAAA-AGAAATTTCAA-AAAAAAATCAAAAACCCATGAAAATGAATGAATTTTTGAAAACT
* * *
66567 GAATTAATATGAATTAAATGATTATGTTTGATGAATTC
126 GAATTAATATGAAATAAATAATGATGTTTGATGAATTC
** * *
66605 TAAAAATTAAAAACTGAGAAAAATCCTCTCAAAAAAATTTACGAA-ATAGAAAATATCGTATTTA
1 TAAAAATTAAAAACCAAGAAAAATCCTCCCAAAAAAATTTACGAAGA-AGAAAAT-TCGTATTTC
* *
66669 AAAAAAAATAAGAGTTTCAAAGAAAAAATCAAAAACCCATGAAAATGAATGAATTTTTGAAAACT
64 GAAAAAAAGAA-A-TTTCAAA-AAAAAATCAAAAACCCATGAAAATGAATGAATTTTTGAAAACT
* *
66734 GGATTAATATGAAATAAATAATGATGTTTGATGAATTT
126 GAATTAATATGAAATAAATAATGATGTTTGATGAATTC
* * * *
66772 TAAAAATTGAAAACCAAGAAAAATCC-CCTCAAAAAAATTTACGGAGTAGAAAATACCGTATTTC
1 TAAAAATTAAAAACCAAGAAAAATCCTCC-CAAAAAAATTTACGAAGAAGAAAAT-TCGTATTTC
* * * *
66836 GAAAAAAAGAAGTTTCAAGAAAAAAT-----A---A--AAAATGAATGAATTTTTAAAAACTGGA
64 GAAAAAAAGAAATTTCAAAAAAAAATCAAAAACCCATGAAAATGAATGAATTTTTGAAAACTGAA
* * * *
66891 TTAATATGAAATAAATAA-AATTATTTGATAAATTT
129 TTAATATGAAATAAATAATGA-TGTTTGATGAATTC
66926 TAAAAATTAAAAA
1 TAAAAATTAAAAA
66939 TTAAAAATTA
Statistics
Matches: 287, Mismatches: 37, Indels: 32
0.81 0.10 0.09
Matches are distributed among these distances:
153 1 0.00
154 68 0.24
156 1 0.00
159 1 0.00
164 7 0.02
165 12 0.04
166 54 0.19
167 143 0.50
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.28
Consensus pattern (163 bp):
TAAAAATTAAAAACCAAGAAAAATCCTCCCAAAAAAATTTACGAAGAAGAAAATTCGTATTTCGA
AAAAAAGAAATTTCAAAAAAAAATCAAAAACCCATGAAAATGAATGAATTTTTGAAAACTGAATT
AATATGAAATAAATAATGATGTTTGATGAATTC
Found at i:66714 original size:167 final size:165
Alignment explanation
Indices: 66516--66938 Score: 494
Period size: 167 Copynumber: 2.6 Consensus size: 165
66506 AAAAGAGAAA
* * * *
66516 TTTCAACA-AAAAAATCTAAAACTCATGAAAATGAATTAATTTTTTAAAACTGAATTAATATGAA
1 TTTCAA-AGAAAAAATCAAAAACCCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAA
* * * ** *
66580 TTAAATGATTATGTTTGATGAATTCTAAAAATTAAAAACTGAGAAAAATCCTCTCAAAAAAATTT
65 ATAAATAATGATGTTTGATGAATTCTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAAAATTT
*
66645 ACGAAATAGAAAATATCGTATTTAAAAAAAAATAAGAG
130 ACGAAATAGAAAATACCGTATTTAAAAAAAAA-AA-AG
*
66683 TTTCAAAGAAAAAATCAAAAACCCATGAAAATGAATGAATTTTTGAAAACTGGATTAATATGAAA
1 TTTCAAAGAAAAAATCAAAAACCCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAA
* *
66748 TAAATAATGATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAAAAATTTA
66 TAAATAATGATGTTTGATGAATTCTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAAAATTTA
* * ** *
66813 CGGAGTAGAAAATACCGTATTTCGAAAAAAAGAAG
131 CGAAATAGAAAATACCGTATTTAAAAAAAAAAAAG
* *
66848 TTTC-AAGAAAAAAT-----A---A--AAAATGAATGAATTTTTAAAAACTGGATTAATATGAAA
1 TTTCAAAGAAAAAATCAAAAACCCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAA
* * * *
66902 TAAATAA-AATTATTTGATAAATTTTAAAAATTAAAAA
66 TAAATAATGA-TGTTTGATGAATTCTAAAAATTAAAAA
66939 TTAAAAATTA
Statistics
Matches: 230, Mismatches: 24, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
153 1 0.00
154 68 0.30
156 1 0.00
159 1 0.00
164 10 0.04
165 6 0.03
166 2 0.01
167 141 0.61
ACGTcount: A:0.53, C:0.08, G:0.10, T:0.29
Consensus pattern (165 bp):
TTTCAAAGAAAAAATCAAAAACCCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAA
TAAATAATGATGTTTGATGAATTCTAAAAATTAAAAACCAAGAAAAATCCCCTCAAAAAAATTTA
CGAAATAGAAAATACCGTATTTAAAAAAAAAAAAG
Found at i:66944 original size:6 final size:7
Alignment explanation
Indices: 66925--66949 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
66915 TTGATAAATT
66925 TTAAAAA
1 TTAAAAA
66932 TTAAAAA
1 TTAAAAA
66939 TTAAAAA
1 TTAAAAA
66946 TTAA
1 TTAA
66950 GAAAAATCCT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
TTAAAAA
Found at i:68191 original size:82 final size:81
Alignment explanation
Indices: 68099--68291 Score: 214
Period size: 82 Copynumber: 2.3 Consensus size: 81
68089 AAGCCACCAA
* *
68099 AGGATAAAAAGATTTACTAGGACTAAGCCGACAAGTAAACAA-AGGATGAAAGATTGA-CTGGGA
1 AGGAT-AAAAGATTTACTAGGACTAAGCCGACAAGTAAACAAGA-GAAGAAAG-TTGATC-GAGA
* * **
68162 TTGAACTGATGAA-TCAGTA-
62 TCGAACTGA-CAAGTCAACAG
* *
68181 ATGGATAAAAGATTTACTTGGAACTAAACCGACAAGTAAACAAGAGAAGAAAGTTGATCGAGATC
1 A-GGATAAAAGATTTACTAGG-ACTAAGCCGACAAGTAAACAAGAGAAGAAAGTTGATCGAGATC
68246 GAACTGACAAGTCAACAG
64 GAACTGACAAGTCAACAG
68264 AGGATAAAAGATTTACCTAGGACTAAGC
1 AGGATAAAAGATTTA-CTAGGACTAAGC
68292 TAATAGATAA
Statistics
Matches: 94, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
81 2 0.02
82 54 0.57
83 37 0.39
84 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.20
Consensus pattern (81 bp):
AGGATAAAAGATTTACTAGGACTAAGCCGACAAGTAAACAAGAGAAGAAAGTTGATCGAGATCGA
ACTGACAAGTCAACAG
Found at i:68487 original size:42 final size:43
Alignment explanation
Indices: 68356--68488 Score: 132
Period size: 42 Copynumber: 3.2 Consensus size: 43
68346 AAAGATGAAA
* * * *
68356 AAGT-TCCCGAGTCTAAGTCAATGGGCAGACGATTGATAAAAG
1 AAGTCTCCCGAGACTGAGCCAACGGGCAGACGATTGATAAAAG
* * *
68398 AAGTCTCCCGGGACTGAGCCAACGGGCAGAC-AATGCAT-GAAG
1 AAGTCTCCCGAGACTGAGCCAACGGGCAGACGATTG-ATAAAAG
* *
68440 AAGTCTCCCGAG-CTTGAGCCGACGGGCAAACGATTGATAAAAG
1 AAGTCTCCCGAGAC-TGAGCCAACGGGCAGACGATTGATAAAAG
68483 -AGTCTC
1 AAGTCTC
68489 TCGGGTCTGA
Statistics
Matches: 74, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
41 1 0.01
42 44 0.59
43 29 0.39
ACGTcount: A:0.32, C:0.23, G:0.28, T:0.17
Consensus pattern (43 bp):
AAGTCTCCCGAGACTGAGCCAACGGGCAGACGATTGATAAAAG
Found at i:68500 original size:42 final size:43
Alignment explanation
Indices: 68378--68767 Score: 224
Period size: 42 Copynumber: 9.2 Consensus size: 43
68368 CTAAGTCAAT
* * *
68378 GGGCAGACGATTGATAAAAGAAGTCTCCCGGGACTGAGCCAAC
1 GGGCAGACGATTGATAAAAGAAGTCTCTCGGGTCTGAGCCGAC
* * * *
68421 GGGCAGAC-AATGCAT-GAAGAAGTCTCCCGAG-CTTGAGCCGAC
1 GGGCAGACGATTG-ATAAAAGAAGTCTCTCGGGTC-TGAGCCGAC
* * *
68463 GGGCAAACGATTGATAAAAG-AGTCTCTCGGGTCTGAGCTGAT
1 GGGCAGACGATTGATAAAAGAAGTCTCTCGGGTCTGAGCCGAC
* ** * **
68505 GGGCAGACGGA-AGAT-ATTGAAGTCTCTCGGGTCTAAGTTGAC
1 GGGCAGAC-GATTGATAAAAGAAGTCTCTCGGGTCTGAGCCGAC
* * * **
68547 GGGCAGACGATTGAT-AAAGGAGTCTTTCAGGTCTGAATCGAC
1 GGGCAGACGATTGATAAAAGAAGTCTCTCGGGTCTGAGCCGAC
* * * * * * *
68589 GGGCA-ATCAATTGATAAAGGAAGTCTCCCGAGACTAAGCCGAT
1 GGGCAGA-CGATTGATAAAAGAAGTCTCTCGGGTCTGAGCCGAC
* * ** * * * * *
68632 GGGTAAACGAAAGAT-GAAGAAGTCTCCCGGGTTTGAACCAAC
1 GGGCAGACGATTGATAAAAGAAGTCTCTCGGGTCTGAGCCGAC
* * ** ** *
68674 GGGAAGACGATTGAT-AAAGAAAGTCTTTTAGGTCTGAATCGAT
1 GGGCAGACGATTGATAAAAG-AAGTCTCTCGGGTCTGAGCCGAC
* * * *
68717 GGGCAGACAATTGATAAAGGACAGTCTCTCGGGACTGAGCTGAC
1 GGGCAGACGATTGATAAAAGA-AGTCTCTCGGGTCTGAGCCGAC
68761 GGGCAGA
1 GGGCAGA
68768 GAAAAGATAA
Statistics
Matches: 257, Mismatches: 76, Indels: 27
0.71 0.21 0.08
Matches are distributed among these distances:
41 6 0.02
42 153 0.60
43 73 0.28
44 25 0.10
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.20
Consensus pattern (43 bp):
GGGCAGACGATTGATAAAAGAAGTCTCTCGGGTCTGAGCCGAC
Found at i:69030 original size:42 final size:42
Alignment explanation
Indices: 68918--69031 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 42
68908 GAGCTTAAGT
* *
68918 CGATGGGCAAACGATTGATAAAGGAGTCTCTCGAGTCTAAAC
1 CGATAGGCAAACGATTGATAAAGGAGTCTCTAGAGTCTAAAC
* * * *
68960 CGATAGGCAGACAATTGAT-AAGAAAGTCTCTTAG-GTCTGAAC
1 CGATAGGCAAACGATTGATAAAG-GAGTCTC-TAGAGTCTAAAC
*
69002 TGATAGGCAAACGATTGATAAAGGAGTCTC
1 CGATAGGCAAACGATTGATAAAGGAGTCTC
69032 CTATATCTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
41 3 0.05
42 51 0.86
43 5 0.08
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (42 bp):
CGATAGGCAAACGATTGATAAAGGAGTCTCTAGAGTCTAAAC
Found at i:69579 original size:48 final size:48
Alignment explanation
Indices: 69502--69797 Score: 310
Period size: 48 Copynumber: 6.2 Consensus size: 48
69492 CCAAAATGGG
* * * *
69502 AAGAGTTTGACCAGGTCCTAGCACTAATACAGTCAAACGAAGGAAGAA
1 AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAACGAAGGAAGAA
* * * *
69550 AAGAGTTTGGCTAGGCCCTAATACCAATACAATCAAATGACA-GAAGAA
1 AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAACGA-AGGAAGAA
* * * * * * *
69598 AAAAGTTTGACCAAGCCTTAACACCAATATAGTCAAATGAGGGAAGAA
1 AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAACGAAGGAAGAA
* * * * * *
69646 AAAAGTTTGACCAGACCCTAACACTAATACAGTAAAACGAGGGAAGAA
1 AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAACGAAGGAAGAA
* *
69694 AATAGTTTGACTAGGCCCTAACACTAATACAGTCAAAC-AAGGGAAGAA
1 AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAACGAA-GGAAGAA
* * * *
69742 AAGAGTTTGACTAAGCCCTAACACCAATACAATTAAACG-AGGGAGAA
1 AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAACGAAGGAAGAA
69789 AAGAGTTTG
1 AAGAGTTTG
69798 GCCAGGTATA
Statistics
Matches: 209, Mismatches: 35, Indels: 9
0.83 0.14 0.04
Matches are distributed among these distances:
47 16 0.08
48 192 0.92
49 1 0.00
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.18
Consensus pattern (48 bp):
AAGAGTTTGACTAGGCCCTAACACCAATACAGTCAAACGAAGGAAGAA
Found at i:69678 original size:144 final size:143
Alignment explanation
Indices: 69505--69802 Score: 380
Period size: 144 Copynumber: 2.1 Consensus size: 143
69495 AAATGGGAAG
** * * *
69505 AGTTTGACCAGGTCCTAGCACTAATACAGTCAAACGAAGGAAGAAAAGAGTTTGGCTAGGCCCTA
1 AGTTTGACCAGACCCTAACACTAATACAGTAAAACGAAGGAAGAAAAGAGTTTGACTAGGCCCTA
* ** * * *
69570 ATACCAATACAATCAAATGACAGAAGAAAAAAGTTTGACCAAGCCTTAACACCAATATAGTCAAA
66 ACACCAATACAATCAAACAACAGAAGAAAAAAGTTTGACCAAGCCCTAACACCAATACAATCAAA
*
69635 TGAGGGAAGAAAAA
131 CGAGGG-AGAAAAA
* *
69649 AGTTTGACCAGACCCTAACACTAATACAGTAAAACGAGGGAAGAAAATAGTTTGACTAGGCCCTA
1 AGTTTGACCAGACCCTAACACTAATACAGTAAAACGAAGGAAGAAAAGAGTTTGACTAGGCCCTA
* * ** * * *
69714 ACACTAATACAGTCAAACAAGGGAAGAAAAGAGTTTGACTAAGCCCTAACACCAATACAATTAAA
66 ACACCAATACAATCAAACAACAGAAGAAAAAAGTTTGACCAAGCCCTAACACCAATACAATCAAA
*
69779 CGAGGGAGAAAAG
131 CGAGGGAGAAAAA
*
69792 AGTTTGGCCAG
1 AGTTTGACCAG
69803 GTATAGTCAA
Statistics
Matches: 131, Mismatches: 23, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
143 16 0.12
144 115 0.88
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.18
Consensus pattern (143 bp):
AGTTTGACCAGACCCTAACACTAATACAGTAAAACGAAGGAAGAAAAGAGTTTGACTAGGCCCTA
ACACCAATACAATCAAACAACAGAAGAAAAAAGTTTGACCAAGCCCTAACACCAATACAATCAAA
CGAGGGAGAAAAA
Found at i:70087 original size:90 final size:90
Alignment explanation
Indices: 69981--70409 Score: 641
Period size: 90 Copynumber: 4.8 Consensus size: 90
69971 TGCCCTGATA
* ** *
69981 AAATCAGGCTTTGTGATGCATCAATATGATCTAGTGGTTGGATGAAAGGGATATGATTGGGAATG
1 AAATCAGGCTTGGTGATGCATCAATACCATCTAGTGGTTGGATGAAAGGGATATGATTGGAAATG
70046 TGTAGGCTGCACCTTGCCCCAAAGG
66 TGTAGGCTGCACCTTGCCCCAAAGG
* *
70071 AAATCAGGCTTAGTGATGCATCAATACCATCTAGTGGTTGGATGAAAGGGATATGATTAGAAATG
1 AAATCAGGCTTGGTGATGCATCAATACCATCTAGTGGTTGGATGAAAGGGATATGATTGGAAATG
70136 TGTAGGCTGCACCTTGCCCCAAAGG
66 TGTAGGCTGCACCTTGCCCCAAAGG
* *
70161 -AATCTAGGCTTGGTGATGCATCAGTACCATCTAGTGGTTGGATGAAAGGGATATGATTAGAAAT
1 AAATC-AGGCTTGGTGATGCATCAATACCATCTAGTGGTTGGATGAAAGGGATATGATTGGAAAT
70225 GTGTAGGCTGCACCTTGCCCCAAAGG
65 GTGTAGGCTGCACCTTGCCCCAAAGG
* * * *
70251 -AATCTAGGCTTGCTGATGCATCAGTACCATCTAGTGATTGGATGAATGGGATATGATTAGGAAA
1 AAATC-AGGCTTGGTGATGCATCAATACCATCTAGTGGTTGGATGAAAGGGATATGATT-GGAAA
* *
70315 TGTGTTGGCTGCACCTTG-CCCTAAGG
64 TGTGTAGGCTGCACCTTGCCCCAAAGG
* *
70341 AAATTAGGCTTGGTGATGCATCAATACCATCTAGTGGTTGGAT-AAAGGGGATACGATTGGGAAA
1 AAATCAGGCTTGGTGATGCATCAATACCATCTAGTGGTTGGATGAAA-GGGATATGATT-GGAAA
70405 TGTGT
64 TGTGT
70410 TTTCCTTGAA
Statistics
Matches: 315, Mismatches: 20, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
89 6 0.02
90 285 0.90
91 24 0.08
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (90 bp):
AAATCAGGCTTGGTGATGCATCAATACCATCTAGTGGTTGGATGAAAGGGATATGATTGGAAATG
TGTAGGCTGCACCTTGCCCCAAAGG
Found at i:72060 original size:21 final size:20
Alignment explanation
Indices: 72036--72077 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
72026 GGGTATAGTG
72036 TTTCTTT-ATTTTCTCATCTTT
1 TTTCTTTCATTTT-TC-TCTTT
72057 TTTCTTTCATTTTTCTCTTT
1 TTTCTTTCATTTTTCTCTTT
72077 T
1 T
72078 ATTTGCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 9 0.45
22 5 0.25
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTCTTTCATTTTTCTCTTT
Found at i:72106 original size:18 final size:18
Alignment explanation
Indices: 72055--72106 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
72045 TTTCTCATCT
72055 TTTTTC-TTTCATTTTTC
1 TTTTTCATTTCATTTTTC
72072 TCTTTT-ATTTGCA-TTTTC
1 T-TTTTCATTT-CATTTTTC
*
72090 TTTTTCATTTAATTTTT
1 TTTTTCATTTCATTTTT
72107 TTCTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
17 6 0.21
18 21 0.72
19 2 0.07
ACGTcount: A:0.12, C:0.13, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTTCATTTCATTTTTC
Found at i:72127 original size:21 final size:22
Alignment explanation
Indices: 72103--72147 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
72093 TTCATTTAAT
*
72103 TTTTTTCTTTTTTTGTT-TTTG
1 TTTTTGCTTTTTTTGTTATTTG
72124 TTTTTGCTTTTTTTGTTATTTG
1 TTTTTGCTTTTTTTGTTATTTG
72146 TT
1 TT
72148 ATTTAGAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.02, C:0.04, G:0.11, T:0.82
Consensus pattern (22 bp):
TTTTTGCTTTTTTTGTTATTTG
Found at i:76735 original size:153 final size:153
Alignment explanation
Indices: 75657--76959 Score: 809
Period size: 153 Copynumber: 8.4 Consensus size: 153
75647 AAATTTTTTT
* ** * * * *
75657 TGAAAATGCTCCTAAAGGATACCTTCGACATAAAAGTACTCGATACCCCTAAAAGACTTAAAAAG
1 TGAAAATGCCCCTAGTGGATACCTTCGACGTAATAGTGC-CGATACCCCTAAAGGACTTAAAAAG
* ** * * * * *
75722 GATTATAGATGGGAAGAACCTATCCTAAATACCTACGTTCGGCATAAAAGCAGACTTGGTGACAA
65 GA-TATGGATGGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAGACTCGATGACAA
* *
75787 CTTAGGACTCAGTTCCAAAAAATTA
129 CCTAGGACTCAGTTCTAAAAAATTA
** * ** * * * *
75812 CCAAATTGCCCCTAGAAGATACCTTTGACATAA-AG-GCCCCGATACCCTTAGAGGACTTAAAAA
1 TGAAAATGCCCCTAGTGGATACCTTCGACGTAATAGTG--CCGATACCCCTAAAGGACTTAAAAA
* * * * * *** * * *
75875 -GAT-TAGAAATGGGATTAACCTATCTTAAATGCCCACCTTCAACAGAAAAGCGGAC-CTAGTGA
64 GGATAT-G-GATGGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAGACTCGA-TGA
* * ** *
75937 CGACCTAGGAATTGGTTCTAAAAAAATA
126 CAACCTAGGACTCAGTTCTAAAAAATTA
* * * *
75965 TGAAAATGCCCCCTA-TGGGAATACCTTCGACGTGAA-AGTATCCTAGTAACCGTAAAGGACTTA
1 TGAAAATG-CCCCTAGT-GG-ATACCTTCGACGT-AATAGT-GCCGA-TACCCCTAAAGGACTTA
* * * * * *
76028 AAAAGGATATAGATGGGGTGAACCAATCCTAGATACCCACCTTTGGCATTAAAGCAGACCCGGTG
60 AAAAGGATATGGATGGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAGACTCGATG
* ** * *
76093 ACAACCTAGGCCTTGGTTCTAGAAAGTTA
125 ACAACCTAGGACTCAGTTCTAAAAAATTA
* * * * * * * * *
76122 TGAAAATACCCGTA--CGACACCTTCAACGTAAAAGTATCCCA-ACAACCCTAAAAGACTTAAAA
1 TGAAAATGCCCCTAGTGGATACCTTCGACGTAATAGT-GCCGATAC--CCCTAAAGGACTTAAAA
** *** *
76184 A-GACTA-GAGATGGAATGAACCTATCCTAAATACCCA-CTTTCGGCATAAAAATGGACCCTG-T
63 AGGA-TATG-GATGGGGTGAACCTATCCTAAATACCCACCTTT-GGCATAAAAGCAGACTC-GAT
* * *
76245 GACAACCCAGGACTCGAATT-TAGGAAAATTA
124 GACAACCTAGGACTC-AGTTCTA-AAAAATTA
* * * ** *
76276 TAAAAATGCTCATAG-GAGAGCCCTTCGACGTAATAGTGCTCGATACCCCTAAAGGACTTAAAGA
1 TGAAAATGCCCCTAGTG-GATACCTTCGACGTAATAGTGC-CGATACCCCTAAAGGACTTAAAAA
* * * * **
76340 GGATATGGATGGGGTAAACCTATCCTAATTATCCACCTTCGGCATAAAAGTGGACTCGATGACAA
64 GGATATGGATGGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAGACTCGATGACAA
76405 CCTAGGGA-TCAGTTCTAAGAAAATTA
129 CCTA-GGACTCAGTTCTAA-AAAATTA
** * * * *
76431 CAAAAATACCCCAAGAGGATACCTTCGACGTAATAGTGCTCGATACCCCTAAAGGACTTAAAAAA
1 TGAAAATGCCCCTAGTGGATACCTTCGACGTAATAGTGC-CGATACCCCTAAAGGACTTAAAAAG
* * * * *
76496 GATATGGATGGGGTGAACCTACCCTAAATACTCACCTTTGGCATAAAAGCAAACCCGGTGACAAC
65 GATATGGATGGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAGACTCGATGACAAC
* * * * ** *
76561 TTAAGACTTAGTTTTGGAAAACTA
130 CTAGGACTCAGTTCTAAAAAATTA
* * * *
76585 CGAAAATGCCTCTAGTGGATACCTTCGACGTAATAGTGCCGATACCCTTAAAGGACTTAAAAATG
1 TGAAAATGCCCCTAGTGGATACCTTCGACGTAATAGTGCCGATACCCCTAAAGGACTTAAAAAGG
* * * *
76650 ATATGGATGGGGTGAACCAATCCTAAATACCCACATTTGGTATAAAAGCAAACTCGATGACAACC
66 ATATGGATGGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAGACTCGATGACAACC
*
76715 TAGGACTCAGTTCTAAAAAACTA
131 TAGGACTCAGTTCTAAAAAATTA
*** * * * * *
76738 TGAAAACT-CTTTTAAG-GAATACCTTCGACGTAAAAGTACCTAATACCTCTAATAGG-CTTTAA
1 TGAAAA-TGCCCCT-AGTGGATACCTTCGACGTAATAGTGCC-GATACCCCTAA-AGGAC-TT--
* ** * * * * * * *
76800 AAAAAGGATTTTAACTGGGATGAACCTATCTTAAATATCCGCCTTCT-ACATAAAAG-TGAACCC
59 AAAAAGGATATGGA-TGGGGTGAACCTATCCTAAATACCCACCTT-TGGCATAAAAGCAG-ACTC
* * * *
76863 AAGGACAACCTTA-GACTCGGTTCTGAAAAATTA
121 GATGACAACC-TAGGACTCAGTTCTAAAAAATTA
* * * * * *
76896 TG-AAATACCCTTAGTAGATACCTTTGACGTAAAAGTGCCCGATATCCCTAAAGGACTTAAAAAG
1 TGAAAATGCCCCTAGTGGATACCTTCGACGTAATAGTG-CCGATACCCCTAAAGGACTTAAAAAG
76960 AATGATAAAA
Statistics
Matches: 896, Mismatches: 200, Indels: 105
0.75 0.17 0.09
Matches are distributed among these distances:
151 2 0.00
152 9 0.01
153 285 0.32
154 115 0.13
155 236 0.26
156 48 0.05
157 130 0.15
158 67 0.07
159 4 0.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.23
Consensus pattern (153 bp):
TGAAAATGCCCCTAGTGGATACCTTCGACGTAATAGTGCCGATACCCCTAAAGGACTTAAAAAGG
ATATGGATGGGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCAGACTCGATGACAACC
TAGGACTCAGTTCTAAAAAATTA
Found at i:76802 original size:308 final size:306
Alignment explanation
Indices: 76017--76803 Score: 779
Period size: 308 Copynumber: 2.5 Consensus size: 306
76007 CTAGTAACCG
* * *
76017 TAAAGGACTTAAAAAGGATATAGATGGGGTGAACCAATCCTAGATACCCACCTTTGGCATTAAAG
1 TAAAGGACTTAAAAAGGATATGGATGGGGTGAACCAATCCTAAATACCCACCTTTGGCATAAAAG
* * * ** * * * *
76082 CAGACCCGGTGACAACCTAGGCCTTGGTTCTAGAAAGTTATGAAAATACCCGT-ACGACACCTTC
66 CAGACTCGATGACAACCTAGGACTCAGTTCTAAAAAATTATGAAAATACCC-TAAGGATACCTTC
* * * * *
76146 AACGTAAAAGTATCCCAACAACCCTAAAAGACTT-AAAAAGACTAGAGATGGAATGAACCTATCC
130 GACGTAAAAGTA-CCTAA-TACCCT-AAAGGCTTAAAAAAGACTAGAGATGGAATGAACCTACCC
*** * * *
76210 TAAATACCCACTTTCGGCATAAAAATGGACCCTGTGACAACCCAGGACTCGAATTTAGGAAAATT
192 TAAATACCCACTTTCGGCATAAAAACAAACCCGGTGACAACCCAAGACTCGAATTTAGGAAAACT
* *
76275 ATAAAAATGCTCATAGGAGAGCCCTTCGACGTAATAGTGCTCGATACCCC
257 ACAAAAATGCTCATAGGAGAGACCTTCGACGTAATAGTGCTCGATACCCC
* * * * * *
76325 TAAAGGACTTAAAGAGGATATGGATGGGGTAAACCTATCCTAATTATCCACCTTCGGCATAAAAG
1 TAAAGGACTTAAAAAGGATATGGATGGGGTGAACCAATCCTAAATACCCACCTTTGGCATAAAAG
** ** *
76390 TGGACTCGATGACAACCTAGGGA-TCAGTTCTAAGAAAATTACAAAAATACCCCAAGAGGATACC
66 CAGACTCGATGACAACCTA-GGACTCAGTTCTAA-AAAATTATGAAAATA-CCCTA-AGGATACC
* * * **
76454 TTCGACGTAATAGT-GCTCGATACCCCTAAAGGACTTAAAAAAGA-TATG-GATGGGGTGAACCT
127 TTCGACGTAAAAGTACCT-AATA-CCCTAAAGG-CTTAAAAAAGACTA-GAGATGGAATGAACCT
* * ** * * *
76516 ACCCTAAATACTCACCTTT-GGCATAAAAGCAAACCCGGTGACAACTTAAGACT-TAGTTTTGGA
188 ACCCTAAATACCCA-CTTTCGGCATAAAAACAAACCCGGTGACAACCCAAGACTCGAATTTAGGA
* * *
76579 AAACTACGAAAATGCCTC-TAGTG-GATACCTTCGACGTAATAGTGC-CGATACCCT
252 AAACTACAAAAATG-CTCATAG-GAGAGACCTTCGACGTAATAGTGCTCGATACCCC
* * *
76633 TAAAGGACTTAAAAATGATATGGATGGGGTGAACCAATCCTAAATACCCACATTTGGTATAAAAG
1 TAAAGGACTTAAAAAGGATATGGATGGGGTGAACCAATCCTAAATACCCACCTTTGGCATAAAAG
* * **
76698 CAAACTCGATGACAACCTAGGACTCAGTTCTAAAAAACTATGAAAACT-CTTTTAAGGAATACCT
66 CAGACTCGATGACAACCTAGGACTCAGTTCTAAAAAATTATGAAAA-TAC-CCTAAGG-ATACCT
76762 TCGACGTAAAAGTACCTAATACCTCTAATAGGCTTTAAAAAA
128 TCGACGTAAAAGTACCTAATACC-CTAA-AGGC-TTAAAAAA
76804 AGGATTTTAA
Statistics
Matches: 386, Mismatches: 72, Indels: 42
0.77 0.14 0.08
Matches are distributed among these distances:
306 6 0.02
307 40 0.10
308 182 0.47
309 61 0.16
310 67 0.17
311 30 0.08
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.23
Consensus pattern (306 bp):
TAAAGGACTTAAAAAGGATATGGATGGGGTGAACCAATCCTAAATACCCACCTTTGGCATAAAAG
CAGACTCGATGACAACCTAGGACTCAGTTCTAAAAAATTATGAAAATACCCTAAGGATACCTTCG
ACGTAAAAGTACCTAATACCCTAAAGGCTTAAAAAAGACTAGAGATGGAATGAACCTACCCTAAA
TACCCACTTTCGGCATAAAAACAAACCCGGTGACAACCCAAGACTCGAATTTAGGAAAACTACAA
AAATGCTCATAGGAGAGACCTTCGACGTAATAGTGCTCGATACCCC
Found at i:79147 original size:166 final size:165
Alignment explanation
Indices: 78975--79466 Score: 473
Period size: 166 Copynumber: 3.0 Consensus size: 165
78965 GACAATAGTA
** * * * *
78975 GATGAATTTTAAAAATTTTAGACCGAAGAAAATTCCCCCAAAAATATTTACGAAGAAGAAAACTC
1 GATGAATTTTAAAAATTGAAAACCGAAGAAAATTCCCCCAAAAA-ATTTACGGAGTAGAAAACAC
* * * *
79040 GGT-TTCTA-GAAAAAAAGAGAATTTTAACA-AAAAAATCCAAAACTCATGAAAATGAATTAATT
65 CGTATT-TAGGAAAAAAAG-GAATTTCAA-AGAAAAAATCAAAAACTCATGAAAATGAATGAATT
*
79102 TGTT-AAAACTGAATT-ATAATG-AATCAAATGATGATGTTC
127 T-TTAAAAACTGAATTAAT-ATGAAAT-AAATAATGATGTTC
* * *
79141 GATGAATTTTAGAAATTGAAAACTG-AGAAAAATCCCCTCAGAAAAATTTACGGAGTAGAAAACA
1 GATGAATTTTAAAAATTGAAAACCGAAGAAAATTCCCC-CA-AAAAATTTACGGAGTAGAAAACA
* * * *
79205 CCGTATTTAGGAAAAATAGGAGTTTCAAAGAAAAAATGAAAAAGTCATGAAAATGAATGAATTTT
64 CCGTATTTAGGAAAAAAAGGAATTTCAAAGAAAAAATCAAAAACTCATGAAAATGAATGAATTTT
*
79270 TAAAAACTGAATTAATATGAAATAAATAATGATGTTT
129 TAAAAACTGAATTAATATGAAATAAATAATGATGTTC
* * *
79307 GATGAATTTTGAAAATTGAAAACC-AAGAAAATTCCTCTCGAAAAAAATTTACGGAGTAGAAAAT
1 GATGAATTTTAAAAATTGAAAACCGAAGAAAATTCC-C-C-CAAAAAATTTACGGAGTAGAAAAC
** *** * * * * *
79371 GTCGT-TTTTCCAAAAAAAGAAAGTTTCGAGGAAAAAAATTAAAAA-TGAATGAAAATGAATGAA
63 ACCGTATTTAGGAAAAAAAGGAA-TTTCAAAG-AAAAAATCAAAAACT-CATGAAAATGAATGAA
* *
79434 TTTTTGAAAACTGGATTAATATGAAATAAATAA
125 TTTTTAAAAACTGAATTAATATGAAATAAATAA
79467 AAATATTTGA
Statistics
Matches: 272, Mismatches: 40, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
165 14 0.05
166 147 0.54
167 51 0.19
168 60 0.22
ACGTcount: A:0.49, C:0.09, G:0.15, T:0.27
Consensus pattern (165 bp):
GATGAATTTTAAAAATTGAAAACCGAAGAAAATTCCCCCAAAAAATTTACGGAGTAGAAAACACC
GTATTTAGGAAAAAAAGGAATTTCAAAGAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTA
AAAACTGAATTAATATGAAATAAATAATGATGTTC
Found at i:79454 original size:168 final size:166
Alignment explanation
Indices: 79085--79536 Score: 490
Period size: 166 Copynumber: 2.7 Consensus size: 166
79075 TCCAAAACTC
* * *
79085 ATGAAAATGAATTAATTTGTTAAAACTGAATT-ATAATG-AATCAAATGATGATGTTCGATGAAT
1 ATGAAAATGAATGAATTT-TTAAAACTGAATTAAT-ATGAAAT-AAATAATGATGTTTGATGAAT
* * * * *
79148 TTT-AGAAATTGAAAACTGAGAAAAATCCCCTC-AGAAAAATTTACGGAGTAGAAAACACCGTAT
63 TTTGA-AAATTGAAAACTAAGAAAATTCCTCTCGAAAAAAATTTACGGAGTAGAAAATACCGTAT
** * * *
79211 TTAGGAAAAATAGGAGTTTCAAAGAAAAAATGAAAAAGTC
127 TTACCAAAAAAAGAAGTTTCAAAGAAAAAATGAAAAAGTA
79251 ATGAAAATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATAATGATGTTTGATGAATTT
1 ATGAAAATGAATGAATTTTT-AAAACTGAATTAATATGAAATAAATAATGATGTTTGATGAATTT
* ** *
79316 TGAAAATTGAAAACCAAGAAAATTCCTCTCGAAAAAAATTTACGGAGTAGAAAATGTCGT-TTTT
65 TGAAAATTGAAAACTAAGAAAATTCCTCTCGAAAAAAATTTACGGAGTAGAAAATACCGTATTTA
* * *
79380 CCAAAAAAAGAAAGTTTCGAGGAAAAAAATTAAAAA-TGA
130 CCAAAAAAAG-AAGTTTCAAAG-AAAAAATGAAAAAGT-A
* ** * *
79419 ATGAAAATGAATGAATTTTTGAAAACTGGATTAATATGAAATAAATAAAAATATTTGATGAA-TA
1 ATGAAAATGAATGAATTTTT-AAAACTGAATTAATATGAAATAAATAATGATGTTTGATGAATTT
* * * *
79483 TGAAAATTAAAAATTAAGAAAAATT-CTCTCG-AAAAAATTTATGGAGAAGAAAAT
65 TGAAAATTGAAAACTAAG-AAAATTCCTCTCGAAAAAAATTTACGGAGTAGAAAAT
79537 CCTGTAATTT
Statistics
Matches: 246, Mismatches: 31, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
165 2 0.01
166 107 0.43
167 62 0.25
168 75 0.30
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (166 bp):
ATGAAAATGAATGAATTTTTAAAACTGAATTAATATGAAATAAATAATGATGTTTGATGAATTTT
GAAAATTGAAAACTAAGAAAATTCCTCTCGAAAAAAATTTACGGAGTAGAAAATACCGTATTTAC
CAAAAAAAGAAGTTTCAAAGAAAAAATGAAAAAGTA
Found at i:82799 original size:20 final size:20
Alignment explanation
Indices: 82774--82839 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
82764 TTTTACCTAG
*
82774 ATGTATCGATACATTTTTCA
1 ATGTATCAATACATTTTTCA
* * *
82794 ATGTATCAATACATATATGA
1 ATGTATCAATACATTTTTCA
* *
82814 ATGTATTAATACATTCTTCA
1 ATGTATCAATACATTTTTCA
82834 ATGTAT
1 ATGTAT
82840 TGATGCATTC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.42
Consensus pattern (20 bp):
ATGTATCAATACATTTTTCA
Found at i:82840 original size:20 final size:20
Alignment explanation
Indices: 82782--82850 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
82772 AGATGTATCG
* *
82782 ATACATTTTTCAATGTATCA
1 ATACATTCTTCAATGTATTA
* *
82802 ATACATAT-ATGAATGTATTA
1 ATACAT-TCTTCAATGTATTA
*
82822 ATACATTCTTCAATGTATTG
1 ATACATTCTTCAATGTATTA
*
82842 ATGCATTCT
1 ATACATTCT
82851 GTCTTTTTAC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 1 0.03
20 38 0.95
21 1 0.03
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (20 bp):
ATACATTCTTCAATGTATTA
Found at i:90571 original size:20 final size:21
Alignment explanation
Indices: 90527--90571 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
90517 CTATAATTAG
*
90527 TATCAATACAATAAGCTGATG
1 TATCAATACAATAAGCTGATA
90548 TATCAATAC-ATAAG-TGAATA
1 TATCAATACAATAAGCTG-ATA
90568 TATC
1 TATC
90572 GATATTGGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 2 0.09
20 11 0.50
21 9 0.41
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.31
Consensus pattern (21 bp):
TATCAATACAATAAGCTGATA
Found at i:93190 original size:80 final size:79
Alignment explanation
Indices: 93088--93324 Score: 264
Period size: 80 Copynumber: 3.0 Consensus size: 79
93078 AAACATCAAA
* ** **
93088 AAAGGG-TACTCTAACCTCGTTTTTAC-TCCTAAAATGTTAAATTTTTTTTCTTTTGGGATACTC
1 AAAGGGATACTCCAACCTCGTTTTTACTTCC-AAAACATTAAATTTTTCATCTTTTGGGATACTC
*
93151 TAACCCTACCATCTCT
65 TAACCC-ACCATCTCC
* * * *
93167 GAGGGGATACTCCAACCCCGTTTTTACTTCCAAAACATCAAATTTTTCAT-TTTTGGAGATACTC
1 AAAGGGATACTCCAACCTCGTTTTTACTTCCAAAACATTAAATTTTTCATCTTTTGG-GATACTC
*
93231 CAATCCCACCATCTCC
65 TAA-CCCACCATCTCC
* * * **
93247 AAAGGGATACTCCAACCTAGTTTTTACTTCCAAAACATTGAATTCTTCATCTTCGGGGATACTCT
1 AAAGGGATACTCCAACCTCGTTTTTACTTCCAAAACATTAAATTTTTCATCTTTTGGGATACTCT
93312 AACCCCACCATCT
66 AA-CCCACCATCT
93325 TCGACGAGAT
Statistics
Matches: 131, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
79 10 0.08
80 111 0.85
81 10 0.08
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.35
Consensus pattern (79 bp):
AAAGGGATACTCCAACCTCGTTTTTACTTCCAAAACATTAAATTTTTCATCTTTTGGGATACTCT
AACCCACCATCTCC
Found at i:93340 original size:80 final size:80
Alignment explanation
Indices: 93142--93373 Score: 240
Period size: 80 Copynumber: 2.9 Consensus size: 80
93132 TTTTTCTTTT
* * **
93142 GGGATACTCTAACCCTACCATC-TCTGAGGGGATACTCCAACCCCGTTTTTACTTCCAAAACATC
1 GGGATACTCTAACCCCACCATCTTC-GAAGGGATACTCCAACCTAGTTTTTACTTCCAAAACATC
* * *
93206 AAATTTTTCATTTTTG
65 AAATTCTTCATCTTCG
* * * * * **
93222 GAGATACTCCAATCCCACCATCTCCAAAGGGATACTCCAACCTAGTTTTTACTTCCAAAACATTG
1 GGGATACTCTAACCCCACCATCTTCGAAGGGATACTCCAACCTAGTTTTTACTTCCAAAACATCA
93287 AATTCTTCATCTTCG
66 AATTCTTCATCTTCG
* * * * *
93302 GGGATACTCTAACCCCACCATCTTCGACGAGATGCTCCAACCTTGATTTTAAC--CC-AAACATC
1 GGGATACTCTAACCCCACCATCTTCGAAGGGATACTCCAACCTAG-TTTTTACTTCCAAAACATC
93364 AAATT-TTCAT
65 AAATTCTTCAT
93374 TTTCTTGAAG
Statistics
Matches: 124, Mismatches: 26, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
77 5 0.04
78 10 0.08
79 2 0.02
80 100 0.81
81 7 0.06
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.31
Consensus pattern (80 bp):
GGGATACTCTAACCCCACCATCTTCGAAGGGATACTCCAACCTAGTTTTTACTTCCAAAACATCA
AATTCTTCATCTTCG
Found at i:94324 original size:13 final size:13
Alignment explanation
Indices: 94306--94330 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94296 ATGTTGCATA
94306 GTATCGATACATT
1 GTATCGATACATT
94319 GTATCGATACAT
1 GTATCGATACAT
94331 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:94426 original size:19 final size:20
Alignment explanation
Indices: 94402--94452 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
94392 TAGCCAAACT
**
94402 TGTATCGATACA-CACAGTA
1 TGTATCGATACACCACAAAA
*
94421 TGTATCGATACACCATAAAA
1 TGTATCGATACACCACAAAA
94441 TGTATCGATACA
1 TGTATCGATACA
94453 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (20 bp):
TGTATCGATACACCACAAAA
Found at i:96060 original size:9 final size:9
Alignment explanation
Indices: 96046--96076 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
96036 CATCAAGGAC
96046 GATGAAGAT
1 GATGAAGAT
96055 GATGAAGAT
1 GATGAAGAT
*
96064 GATGATGAT
1 GATGAAGAT
96073 GATG
1 GATG
96077 GTGACTCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.35, T:0.26
Consensus pattern (9 bp):
GATGAAGAT
Found at i:100632 original size:13 final size:13
Alignment explanation
Indices: 100613--100651 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
100603 ACAGCATTCT
100613 CTGTATCGATACA
1 CTGTATCGATACA
*
100626 TTGTATCGATACA
1 CTGTATCGATACA
100639 CTGTATCGATACA
1 CTGTATCGATACA
100652 AGGGGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:100826 original size:22 final size:21
Alignment explanation
Indices: 100783--100823 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
100773 CAAATTTCTT
100783 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAATACATC
100805 GTTTTTCA-TCAAAAT-CATC
1 GTTTTTCACTCAAAATACATC
100824 ATCAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (21 bp):
GTTTTTCACTCAAAATACATC
Found at i:101131 original size:21 final size:21
Alignment explanation
Indices: 101088--101128 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
101078 CCCTAGGCAT
*
101088 CACCCACCAGGTCGCGACCGG
1 CACCCACCAGGTCGCAACCGG
101109 CACCC-CCAGGTCGCAACCGG
1 CACCCACCAGGTCGCAACCGG
101129 GCAGTCCCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.20, C:0.49, G:0.27, T:0.05
Consensus pattern (21 bp):
CACCCACCAGGTCGCAACCGG
Found at i:105407 original size:17 final size:17
Alignment explanation
Indices: 105382--105430 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
105372 AAAACTCAAG
*
105382 CTTTTTTTTCTATT-TTT
1 CTTTATTTTCT-TTCTTT
105399 CTTTATTTTCTTTCTTT
1 CTTTATTTTCTTTCTTT
*
105416 CTTTCTTTT-TTTCTT
1 CTTTATTTTCTTTCTT
105431 CTCTCTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 8 0.28
17 21 0.72
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (17 bp):
CTTTATTTTCTTTCTTT
Found at i:105439 original size:17 final size:17
Alignment explanation
Indices: 105404--105441 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
105394 TTTTTCTTTA
*
105404 TTTTCTTTCTTTCTTTC
1 TTTTCTTTCTTTCTCTC
105421 TTTT-TTTCTTCTCTCTC
1 TTTTCTTTCTT-TCTCTC
105438 TTTT
1 TTTT
105442 GCTACCAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTCTTTCTTTCTCTC
Found at i:105439 original size:21 final size:21
Alignment explanation
Indices: 105396--105440 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
105386 TTTTTCTATT
*
105396 TTTCTTTATTTTCTTTCTTTC
1 TTTCTTTATTTTCTTTCTCTC
105417 TTTCTTT-TTTTCTTCTCTCTC
1 TTTCTTTATTTTCTT-TCTCTC
105438 TTT
1 TTT
105441 TGCTACCAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTCTTTATTTTCTTTCTCTC
Found at i:106198 original size:167 final size:164
Alignment explanation
Indices: 105861--106439 Score: 489
Period size: 167 Copynumber: 3.5 Consensus size: 164
105851 CAATATATAC
** * * * * * * *
105861 AAAAAATTCAAAATTCATG-AAATAATTTGAATTTTTTAAAACAAATTTAATGTGAATTTAATGA
1 AAAAAATGAAAAACTCATGAAAATAA-ATGAA-TTTTTGAAACAGATTTAATAT-AATTAAATAA
* ** * * *
105925 TAACA-TTATATGAA-TTTAAAAATTTTAAACCAAGAAAAATCTCCCCGAAAATATTTACGGAGT
63 TAATATTTA-ATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCCGAAAACATTTATGGAGT
* * *
105988 AGAAAACTCGATTATTTCA-AAAT-ATGAGGATTTCAAAG
127 AGAAAACTCCA-TATTTTAGAAATAAT-AGAATTTCAAAG
* * * * *
106026 AAAAAATAAAAAACTCATGAAAATAAATGAATATTTTGAAGCTGTTTTACTATGAATTAAATAAT
1 AAAAAATGAAAAACTCATGAAAATAAATGAAT-TTTTGAAACAGATTTAATAT-AATTAAATAAT
* * * *
106091 AATATTTAATGAATTTTAAAAATTGAAAACCCAGAAAAATCCCCCCTAAAAACATTTATGAAGTA
64 AATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCC-GAAAACATTTATGGAGTA
* *
106156 GAAAACTCCATATTTTAGAAATAATAGAATTTCGAGG
128 GAAAACTCCATATTTTAGAAATAATAGAATTTCAAAG
* * * * ** *
106193 AAAAAATGAAAAACCCATGAAAGTGAATGAGCTTTTAAAAAAAGATTTAATATTAATTAAATAAT
1 AAAAAATGAAAAACTCATGAAAATAAATGA-ATTTTTGAAACAGATTTAATA-TAATTAAATAAT
* * *
106258 AATATTTTATGAATTTTAAAAATTAAAAACCTAA-AAAAATCCTCCCGAAAGCATTTATGGAGTC
64 AATATTTAATGAATTTTAAAAATTAAAAACC-AAGAAAAATCCCCCCGAAAACATTTATGGAGT-
* *** * * *
106322 A-AAAAATTTGTA-TTTCGAAA-ACAGGAGAATTT-TAAG
127 AGAAAACTCCATATTTTAGAAATA-A-TAGAATTTCAAAG
*
106358 AAAAAATGAAAAACTCATGAAAATAAATAAATTTTTGAAAACCA-ATTTAATAT-ATTAAATAAT
1 AAAAAATGAAAAACTCATGAAAATAAATGAATTTTTG-AAA-CAGATTTAATATAATTAAATAAT
*
106421 AATATTTGATGAATTTTAA
64 AATATTTAATGAATTTTAA
106440 TATTCAAAAC
Statistics
Matches: 336, Mismatches: 63, Indels: 32
0.78 0.15 0.07
Matches are distributed among these distances:
163 28 0.08
164 7 0.02
165 98 0.29
166 72 0.21
167 126 0.38
168 5 0.01
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (164 bp):
AAAAAATGAAAAACTCATGAAAATAAATGAATTTTTGAAACAGATTTAATATAATTAAATAATAA
TATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCCGAAAACATTTATGGAGTAGAA
AACTCCATATTTTAGAAATAATAGAATTTCAAAG
Found at i:106901 original size:22 final size:22
Alignment explanation
Indices: 106876--106920 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
106866 CCGTGACGTC
*
106876 ATTTGTAAAAGTAATT-TTTAAA
1 ATTTGT-AAAGAAATTATTTAAA
*
106898 ATTTGTTAAGAAATTATTTAAA
1 ATTTGTAAAGAAATTATTTAAA
106920 A
1 A
106921 ATAAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (22 bp):
ATTTGTAAAGAAATTATTTAAA
Found at i:113627 original size:17 final size:16
Alignment explanation
Indices: 113606--113643 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
113596 ATAAAAAATT
*
113606 AAAAAAATCAAATCAA
1 AAAAAAATCAAAACAA
113622 ATAAAAAATCAAAACAA
1 A-AAAAAATCAAAACAA
113639 AAAAA
1 AAAAA
113644 GATTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAAAAATCAAAACAA
Found at i:114788 original size:41 final size:41
Alignment explanation
Indices: 114751--114853 Score: 129
Period size: 41 Copynumber: 2.5 Consensus size: 41
114741 TGTCCTAATC
114751 AACCGTTCTTATTCGTTGACTCATATAGTTTTATCCTAGTT
1 AACCGTTCTTATTCGTTGACTCATATAGTTTTATCCTAGTT
** * *
114792 AA-CGCTTCTTATTTATTGACTCATATGGTTTCATCCTAGTT
1 AACCG-TTCTTATTCGTTGACTCATATAGTTTTATCCTAGTT
*
114833 AACAC-TTCTTATTTGTTGACT
1 AAC-CGTTCTTATTCGTTGACT
114854 AGAGTTTCAT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
40 2 0.04
41 51 0.94
43 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (41 bp):
AACCGTTCTTATTCGTTGACTCATATAGTTTTATCCTAGTT
Found at i:114917 original size:34 final size:34
Alignment explanation
Indices: 114879--114979 Score: 84
Period size: 31 Copynumber: 3.1 Consensus size: 34
114869 TCACCTTTAG
114879 TTGACTATTCTAGTTTCACCCTGATCAACCTTTT
1 TTGACTATTCTAGTTTCACCCTGATCAACCTTTT
* * * **
114913 TTGAC---T-TAGGTTTTATCCTAATCAACCTTGG
1 TTGACTATTCTA-GTTTCACCCTGATCAACCTTTT
* ** *
114944 TTGACTATTCTAGTCTGGCCCTGGTCAACCTTTT
1 TTGACTATTCTAGTTTCACCCTGATCAACCTTTT
114978 TT
1 TT
114980 TACTTAGGTT
Statistics
Matches: 49, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
30 2 0.04
31 23 0.47
34 22 0.45
35 2 0.04
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.44
Consensus pattern (34 bp):
TTGACTATTCTAGTTTCACCCTGATCAACCTTTT
Found at i:114947 original size:65 final size:66
Alignment explanation
Indices: 114848--115284 Score: 305
Period size: 65 Copynumber: 6.7 Consensus size: 66
114838 TTCTTATTTG
* *
114848 TTGAC-TAGAGTTTCATCATAATC-ACCTTTAGTTGACTATTCTAGTTTCACCCTGA-TCAACCT
1 TTGACTTAG-GTTTTATCCTAATCAACC-TTAGTTGACTATTCTAGTTTCACCCTGAGTCAACCT
114910 TTT
64 TTT
* * **
114913 TTGACTTAGGTTTTATCCTAATCAACCTTGGTTGACTATTCTAGTCTGGCCCTG-GTCAACCTTT
1 TTGACTTAGGTTTTATCCTAATCAACCTTAGTTGACTATTCTAGTTTCACCCTGAGTCAACCTTT
114977 T
66 T
* ** ** * * *
114978 TTTACTTAGGTTTTATCCTGGT--ACCGTTAGTTGACTATTCTAGTTT-TGCCTTACTCAA-TTC
1 TTGACTTAGGTTTTATCCTAATCAACC-TTAGTTGACTATTCTAGTTTCACCCTGAGTCAACCT-
115039 TTT
64 TTT
* * * * * *
115042 TTGACTTAGGTTTCATCCTAGT-AACTCTTAGTTGACTATTTTAGTTTCACCAT-AGTTAACCCT
1 TTGACTTAGGTTTTATCCTAATCAAC-CTTAGTTGACTATTCTAGTTTCACCCTGAGTCAACCTT
115105 TT
65 TT
* * * * * * *
115107 TTGACTTAGGTTTTGA-CCTAGTCACCCTTAGTTGACTATTCTAGTTTTA-CTTTAGTTAACCCT
1 TTGACTTAGGTTTT-ATCCTAATCAACCTTAGTTGACTATTCTAGTTTCACCCTGAGTCAACCTT
115170 TT
65 TT
* * * * *
115172 TTGACGTAGGTTTTGA-CC-AAGTCACCCTTAGTTGATTATTCTTGTTTCA-CCT-AGGTTAAAC
1 TTGACTTAGGTTTT-ATCCTAA-TCAACCTTAGTTGACTATTCTAGTTTCACCCTGA-G-TCAAC
*
115233 ATTTT
62 CTTTT
* ** * * * *
115238 TT-ACTTAGGTTTCATTTTAGTCACCCTTAGTTAACTATTCTGGTTTC
1 TTGACTTAGGTTTTATCCTAATCAACCTTAGTTGACTATTCTAGTTTC
115285 TAATTTTACC
Statistics
Matches: 305, Mismatches: 49, Indels: 36
0.78 0.13 0.09
Matches are distributed among these distances:
63 7 0.02
64 49 0.16
65 227 0.74
66 22 0.07
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.45
Consensus pattern (66 bp):
TTGACTTAGGTTTTATCCTAATCAACCTTAGTTGACTATTCTAGTTTCACCCTGAGTCAACCTTT
T
Found at i:115143 original size:31 final size:31
Alignment explanation
Indices: 115107--115206 Score: 80
Period size: 31 Copynumber: 3.1 Consensus size: 31
115097 TTAACCCTTT
115107 TTGACTTAGGTTTTGACCTAGTCACCCTTAG
1 TTGACTTAGGTTTTGACCTAGTCACCCTTAG
* * *
115138 TTGACTATTCTA-GTTTT-ACTTTAGTTAACCCTT-T
1 TTGAC---T-TAGGTTTTGAC-CTAG-TCACCCTTAG
* *
115172 TTGACGTAGGTTTTGACCAAGTCACCCTTAG
1 TTGACTTAGGTTTTGACCTAGTCACCCTTAG
115203 TTGA
1 TTGA
115207 TTATTCTTGT
Statistics
Matches: 52, Mismatches: 8, Indels: 18
0.67 0.10 0.23
Matches are distributed among these distances:
30 9 0.17
31 16 0.31
32 2 0.04
33 2 0.04
34 14 0.27
35 9 0.17
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (31 bp):
TTGACTTAGGTTTTGACCTAGTCACCCTTAG
Found at i:115183 original size:130 final size:128
Alignment explanation
Indices: 114869--115283 Score: 392
Period size: 130 Copynumber: 3.2 Consensus size: 128
114859 TTCATCATAA
* * * * *
114869 TCACCTTTAGTTGACTATTCTAGTTTCACCCT-GATCAACCTTTTTTGACTTAGGTTTTATCCTA
1 TCACCCTTAGTTGACTATTCTAGTTTTACCTTAG-TCAACCCTTTTTGACTTAGGTTTCATCCTA
* * * * * * *
114933 ATCAACCTTGGTTGACTATTCTAGTCTGGC-CCTGGTCAACCTTTTTTTACTTAGGTTTTATCCT
65 GT-AACCTTAGTTGACTATTTTAGT-T-TCACCTAGTTAACCATTTTTTACTTAGGTTTTATCCT
*
114997 GG
127 AG
* * * **
114999 T-ACCGTTAGTTGACTATTCTAGTTTTGCCTTACTCAATTCTTTTTGACTTAGGTTTCATCCTAG
1 TCACCCTTAGTTGACTATTCTAGTTTTACCTTAGTCAACCCTTTTTGACTTAGGTTTCATCCTAG
* *
115063 TAACTCTTAGTTGACTATTTTAGTTTCACCATAGTTAACCCTTTTTGACTTAGGTTTTGA-CCTA
66 TAAC-CTTAGTTGACTATTTTAGTTTCACC-TAGTTAACCATTTTTTACTTAGGTTTT-ATCCTA
115127 G
128 G
* * * * *
115128 TCACCCTTAGTTGACTATTCTAGTTTTACTTTAGTTAACCCTTTTTGACGTAGGTTTTGA-CCAA
1 TCACCCTTAGTTGACTATTCTAGTTTTACCTTAGTCAACCCTTTTTGACTTAGG-TTTCATCCTA
* * * * **
115192 GTCACCCTTAGTTGATTATTCTT-GTTTCACCTAGGTTAAACATTTTTTACTTAGGTTTCATTTT
65 GT-AACCTTAGTTGACTATT-TTAGTTTCACCTA-GTTAACCATTTTTTACTTAGGTTTTATCCT
115256 AG
127 AG
* *
115258 TCACCCTTAGTTAACTATTCTGGTTT
1 TCACCCTTAGTTGACTATTCTAGTTT
115284 CTAATTTTAC
Statistics
Matches: 236, Mismatches: 38, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
127 1 0.00
128 6 0.03
129 101 0.43
130 120 0.51
131 8 0.03
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (128 bp):
TCACCCTTAGTTGACTATTCTAGTTTTACCTTAGTCAACCCTTTTTGACTTAGGTTTCATCCTAG
TAACCTTAGTTGACTATTTTAGTTTCACCTAGTTAACCATTTTTTACTTAGGTTTTATCCTAG
Found at i:118663 original size:19 final size:18
Alignment explanation
Indices: 118618--118766 Score: 103
Period size: 19 Copynumber: 8.7 Consensus size: 18
118608 TTTCAACAAT
*
118618 TTGTATCGATACAAATAGTAA
1 TTGTATCGATAC--ATAGT-G
118639 TTGTATCGATACATTAGTG
1 TTGTATCGATACA-TAGTG
118658 TTGTATCGATACA-A---
1 TTGTATCGATACATAGTG
118672 -TGTATCGATACATTAGTG
1 TTGTATCGATACA-TAGTG
118690 TTGTATCGATACA-A---
1 TTGTATCGATACATAGTG
118704 -TGTATCGATACATAAGTG
1 TTGTATCGATACAT-AGTG
*
118722 GTGTATCGATACA-A---
1 TTGTATCGATACATAGTG
118736 -TGTATCGATACATAAGTG
1 TTGTATCGATACAT-AGTG
*
118754 GTGTATCGATACA
1 TTGTATCGATACA
118767 ATGTATCGCT
Statistics
Matches: 108, Mismatches: 1, Indels: 40
0.72 0.01 0.27
Matches are distributed among these distances:
13 36 0.33
15 3 0.03
17 3 0.03
19 50 0.46
20 4 0.04
21 12 0.11
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (18 bp):
TTGTATCGATACATAGTG
Found at i:118677 original size:13 final size:13
Alignment explanation
Indices: 118659--118747 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
118649 ACATTAGTGT
118659 TGTATCGATACAA
1 TGTATCGATACAA
118672 TGTATCGATACATTA
1 TGTATCGATACA--A
118687 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
118704 TGTATCGATACATAA
1 TGTATCGATAC--AA
118719 GTGGTGTATCGATACAA
1 ----TGTATCGATACAA
118736 TGTATCGATACA
1 TGTATCGATACA
118748 TAAGTGGTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 35 0.55
15 3 0.05
17 3 0.05
19 23 0.36
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:118681 original size:32 final size:32
Alignment explanation
Indices: 118640--118774 Score: 234
Period size: 32 Copynumber: 4.2 Consensus size: 32
118630 AAATAGTAAT
* *
118640 TGTATCGATACATTAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGGTGTATCGATACAA
* *
118672 TGTATCGATACATTAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGGTGTATCGATACAA
118704 TGTATCGATACATAAGTGGTGTATCGATACAA
1 TGTATCGATACATAAGTGGTGTATCGATACAA
118736 TGTATCGATACATAAGTGGTGTATCGATACAA
1 TGTATCGATACATAAGTGGTGTATCGATACAA
118768 TGTATCG
1 TGTATCG
118775 CTACGAAGCT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 101 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGGTGTATCGATACAA
Found at i:121977 original size:13 final size:13
Alignment explanation
Indices: 121959--121984 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
121949 TACAGCAAGT
121959 ATGTATCGATACA
1 ATGTATCGATACA
121972 ATGTATCGATACA
1 ATGTATCGATACA
121985 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:124248 original size:21 final size:22
Alignment explanation
Indices: 124202--124246 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
124192 TTGCAAGTTG
124202 AAATAAAGAAGTTAGCTAATGA
1 AAATAAAGAAGTTAGCTAATGA
*
124224 AAATAATG-AGTTAGCTAA-GA
1 AAATAAAGAAGTTAGCTAATGA
124244 AAA
1 AAA
124247 ATGAAAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 10 0.45
22 7 0.32
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (22 bp):
AAATAAAGAAGTTAGCTAATGA
Found at i:126069 original size:15 final size:15
Alignment explanation
Indices: 126049--126079 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
126039 TAAAAATGTC
*
126049 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
126064 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
126079 C
1 C
126080 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:128177 original size:13 final size:13
Alignment explanation
Indices: 128159--128197 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
128149 CATTTTTCCT
*
128159 TTGTATAGATACA
1 TTGTATCGATACA
128172 TTGTATCGATACA
1 TTGTATCGATACA
128185 TTGTATCGATACA
1 TTGTATCGATACA
128198 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:130763 original size:13 final size:13
Alignment explanation
Indices: 130745--130770 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
130735 TACAGCAAGT
130745 ATGTATCGATACA
1 ATGTATCGATACA
130758 ATGTATCGATACA
1 ATGTATCGATACA
130771 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:132269 original size:154 final size:155
Alignment explanation
Indices: 132027--132355 Score: 421
Period size: 154 Copynumber: 2.1 Consensus size: 155
132017 TTTATGCCAT
* * *
132027 AAGGCTATTTTGGTAATTTT-TTAAAATCGAGTTCGATGTAGTCACCAAGATGCTTTTATGCTAA
1 AAGG-TATTTTGGTAATTTTGTTAAAACCAAGTTCGATGTAGTCACCAAGATGCTTTTATGCCAA
* * * *
132091 AGGTGTGCATCTAAGATAGTTTCACCCTTTTATAATCATTTTTGAGTCATTTAAAGTTATCGAAA
65 AGGTGTGCATCTAAGATAGCTTCACCCTTCTATAATCATTTTTAAGTCATTTAAAGTTACCGAAA
* *
132156 TACTTTCATGTCAAAATTATACC-CTA
130 TACTTTCACGTCAAAAGTATACCTC-A
* *
132182 AAGGTATTTTGGTAATTTTGTTAGAACCAAGTTCGATGTAGTCACTAAGATGCTTTTATGCCAAA
1 AAGGTATTTTGGTAATTTTGTTAAAACCAAGTTCGATGTAGTCACCAAGATGCTTTTATGCCAAA
* * * * ** *
132247 TGTG-GCATTTAGGATAGCTTCACCCTTCTATAATCATTTTTAAGTCTTTTAGGGTTACCGAGAT
66 GGTGTGCATCTAAGATAGCTTCACCCTTCTATAATCATTTTTAAGTCATTTAAAGTTACCGAAAT
*
132311 ACTTTCACGTCAAAGGTATACCTCA
131 ACTTTCACGTCAAAAGTATACCTCA
* **
132336 AGGGTATTTTAATAATTTTG
1 AAGGTATTTTGGTAATTTTG
132356 CATTAAAAAT
Statistics
Matches: 150, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
154 102 0.68
155 48 0.32
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (155 bp):
AAGGTATTTTGGTAATTTTGTTAAAACCAAGTTCGATGTAGTCACCAAGATGCTTTTATGCCAAA
GGTGTGCATCTAAGATAGCTTCACCCTTCTATAATCATTTTTAAGTCATTTAAAGTTACCGAAAT
ACTTTCACGTCAAAAGTATACCTCA
Found at i:135735 original size:23 final size:22
Alignment explanation
Indices: 135685--135735 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
135675 TTATCTAAGC
* *
135685 AAATAAAATTAACAATTTAATT
1 AAATTAAATTAAAAATTTAATT
*
135707 AGAATTAAATTAAAAATTCTTATT
1 A-AATTAAATTAAAAATT-TAATT
135731 AAATT
1 AAATT
135736 GTCTAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 1 0.04
23 18 0.75
24 5 0.21
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (22 bp):
AAATTAAATTAAAAATTTAATT
Found at i:144683 original size:13 final size:13
Alignment explanation
Indices: 144665--144694 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
144655 AGACCAGTAG
144665 AGTTGGAATTTCT
1 AGTTGGAATTTCT
144678 AGTTGGAATTTCT
1 AGTTGGAATTTCT
144691 AGTT
1 AGTT
144695 TCCTGTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.47
Consensus pattern (13 bp):
AGTTGGAATTTCT
Found at i:144931 original size:60 final size:60
Alignment explanation
Indices: 144831--144949 Score: 132
Period size: 60 Copynumber: 2.0 Consensus size: 60
144821 TAAATCCGTT
* * * ** * * *
144831 TTATTTGGTTAAATGGAAGACCAGTAGATTTGACATCTTTATTTTCCTTT-TTAAGTCCTC
1 TTATTTGGTTAAATGGAAAACCAATAAAACTAACACCTTTAGTTT-CTTTCTTAAGTCCTC
*
144891 TTATTTGGTTAAGTGGAAAACCAATAAAACTAACACCTTTAGTTTCTTTGCTTAAGTCC
1 TTATTTGGTTAAATGGAAAACCAATAAAACTAACACCTTTAGTTTCTTT-CTTAAGTCC
144950 ATTTTTGTTG
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
59 4 0.08
60 36 0.75
61 8 0.17
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (60 bp):
TTATTTGGTTAAATGGAAAACCAATAAAACTAACACCTTTAGTTTCTTTCTTAAGTCCTC
Found at i:148608 original size:20 final size:21
Alignment explanation
Indices: 148569--148620 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
148559 TTTTATAATT
148569 TGTATCGATACAACAAGTGAA
1 TGTATCGATACAACAAGTGAA
*
148590 TGTATCGATAC-ATAAGTGAA
1 TGTATCGATACAACAAGTGAA
*
148610 TGCATCGATAC
1 TGTATCGATAC
148621 GTATTTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (21 bp):
TGTATCGATACAACAAGTGAA
Found at i:148787 original size:52 final size:52
Alignment explanation
Indices: 148726--148871 Score: 188
Period size: 52 Copynumber: 2.8 Consensus size: 52
148716 TGGGTTTGAT
* *
148726 CCAAATGTATCAATACATTTTTCATTGAATTGATACATTCTAGGTTTTTCAC
1 CCAAATGTATCAATACATTATTCATTGAATCGATACATTCTAGGTTTTTCAC
* * * *
148778 CCAAATGTATCGATACATTATTCATTGAATCGCTATATTCTAGGTTTTTGAC
1 CCAAATGTATCAATACATTATTCATTGAATCGATACATTCTAGGTTTTTCAC
* * *
148830 CTAAATGTATCAATACATTCTTCACT-ATATCGATACA-TCTAG
1 CCAAATGTATCAATACATTATTCATTGA-ATCGATACATTCTAG
148872 TTAAATTTAA
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
51 6 0.07
52 75 0.93
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (52 bp):
CCAAATGTATCAATACATTATTCATTGAATCGATACATTCTAGGTTTTTCAC
Found at i:148865 original size:104 final size:100
Alignment explanation
Indices: 148679--148871 Score: 237
Period size: 104 Copynumber: 1.9 Consensus size: 100
148669 TCTGGAAAGA
* *
148679 AAATATATCGATACATTTTTATTGTATCAATATATTCTGGGTTTGATCCAAATGTATCAATACAT
1 AAATATATCGATACATTTTCATTGAATCAATATATTCTGGGTTTGATCCAAATGTATCAATACAT
* * *
148744 TTTTCATTGAATTGATACATTCTAGGTTTTTCACCC
66 TCTTCACTGAATCGATACA-TCTAGGTTTTTCACCC
* ** *
148780 AAATGTATCGATACATTATTCATTGAATCGCTATATTCTAGGTTTTTGA-CCTAAATGTATCAAT
1 AAATATATCGATACATT-TTCATTGAATCAATATATTCT-GG-GTTTGATCC-AAATGTATCAAT
148844 ACATTCTTCACT-ATATCGATACATCTAG
62 ACATTCTTCACTGA-ATCGATACATCTAG
148872 TTAAATTTAA
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
101 16 0.21
102 17 0.22
103 10 0.13
104 35 0.45
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (100 bp):
AAATATATCGATACATTTTCATTGAATCAATATATTCTGGGTTTGATCCAAATGTATCAATACAT
TCTTCACTGAATCGATACATCTAGGTTTTTCACCC
Found at i:151219 original size:97 final size:95
Alignment explanation
Indices: 151037--151212 Score: 262
Period size: 97 Copynumber: 1.8 Consensus size: 95
151027 TTATCCATCG
* * * *
151037 AGGGTACTCCAACCCTATTCTTCTAAGGGGATACTCCAATCCATTTTTAAACTTCTCAAGATTTA
1 AGGGTACTCCAACCCCATTCTTCTAAGGAGATACTCCAATCCACTTTTAAACTTCACAAGATTTA
*
151102 AATCTTATTTTTGTTCAAATTATCATTGTC
66 AATCTTATTTTTGCTCAAATTATCATTGTC
* * *
151132 AGGGATACTCTAACCCCATTCTTCTAAGGAGATACTCTAATCTCACTTTTAAACTTGACAAGATT
1 AGGG-TACTCCAACCCCATTCTTCTAAGGAGATACTCCAATC-CACTTTTAAACTTCACAAGATT
151197 TAAATCTTATTTTTGC
64 TAAATCTTATTTTTGC
151213 CTAAATTGTC
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
95 4 0.06
96 33 0.46
97 34 0.48
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.39
Consensus pattern (95 bp):
AGGGTACTCCAACCCCATTCTTCTAAGGAGATACTCCAATCCACTTTTAAACTTCACAAGATTTA
AATCTTATTTTTGCTCAAATTATCATTGTC
Found at i:151247 original size:97 final size:95
Alignment explanation
Indices: 151042--151268 Score: 242
Period size: 97 Copynumber: 2.3 Consensus size: 95
151032 CATCGAGGGT
* * * *
151042 ACTCCAACCCTATTCTTCTAAGGGGATACTCCAATCCATTTTTAAACTTCTCAAGATTTAAATCT
1 ACTCCAACCC-ATTCTTCTAAGGAGATACTCTAATCCACTTTTAAACTTCACAAGATTTAAATCT
* ** *
151107 TATTTTTGTTCAAATTATCATTGTCAGGGAT
65 TATTTTTGCTCAAATTATCATCATCAGGGAC
* *
151138 ACTCTAACCCCATTCTTCTAAGGAGATACTCTAATCTCACTTTTAAACTTGACAAGATTTAAATC
1 ACTCCAA-CCCATTCTTCTAAGGAGATACTCTAATC-CACTTTTAAACTTCACAAGATTTAAATC
* **
151203 TTATTTTTGC-CTAAATTGTCATCATTGGGGAC
64 TTATTTTTGCTC-AAATTATCATCATCAGGGAC
* * *
151235 ATTCCAATCCCATTCCTCCGAA-GAGATACTCTAA
1 ACTCCAA-CCCATT-CTTCTAAGGAGATACTCTAA
151269 CCTTGTCTTT
Statistics
Matches: 109, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
96 30 0.28
97 74 0.68
98 5 0.05
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.37
Consensus pattern (95 bp):
ACTCCAACCCATTCTTCTAAGGAGATACTCTAATCCACTTTTAAACTTCACAAGATTTAAATCTT
ATTTTTGCTCAAATTATCATCATCAGGGAC
Found at i:155440 original size:3 final size:3
Alignment explanation
Indices: 155432--155466 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
155422 TGGGAGTTTT
155432 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
155467 CAAAGAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:157276 original size:2 final size:2
Alignment explanation
Indices: 157264--157312 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
157254 TACATAGCTT
*
157264 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
157306 TA TA TA T
1 TA TA TA T
157313 CAAATCCAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:157522 original size:13 final size:13
Alignment explanation
Indices: 157488--157523 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
157478 AGGATTAAAT
157488 ATATTTTTTAATA
1 ATATTTTTTAATA
*
157501 A-ATTTTTTATTA
1 ATATTTTTTAATA
157513 ATATTTTTTAA
1 ATATTTTTTAA
157524 AAGTGTATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATATTTTTTAATA
Found at i:158290 original size:2 final size:2
Alignment explanation
Indices: 158283--158333 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
158273 TTATATTACA
*
158283 AT AT AT AT GT 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 AT AT
158325 AT AT AT AT A
1 AT AT AT AT A
158334 AATTGAGGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:159164 original size:30 final size:30
Alignment explanation
Indices: 159107--159163 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
159097 CCATTTGCTT
*
159107 GTGGAGAAAAAGAAGTTATAATTTTTTTGA
1 GTGGAGAAAAAGAAGGTATAATTTTTTTGA
159137 GTGGAGAAAAA-ATAGGTA-AATTTTTTT
1 GTGGAGAAAAAGA-AGGTATAATTTTTTT
159164 TAAAAAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (30 bp):
GTGGAGAAAAAGAAGGTATAATTTTTTTGA
Found at i:160340 original size:110 final size:111
Alignment explanation
Indices: 160184--160386 Score: 282
Period size: 110 Copynumber: 1.8 Consensus size: 111
160174 AAAAACTAAT
* * * * *
160184 AAAAGTTAGCGAGAACGAGACACATGAGTAGATATGGATGTTAGAAACATCCATAAATGC-AGGT
1 AAAAGTTAACGAGAACGAGACACATAAGCAGAAATGGATGTTAGAAACATCCATAAACGCGAGGT
* * *
160248 GAGGGAAAGAATTTTGCATTCAAAACTAGGCAAATTAAAGGTTAAC
66 GAGCGAAAGAATTTTACATCCAAAACTAGGCAAATTAAAGGTTAAC
* * * * *
160294 AAAAGTTAATGAGAATGAGACACATAAGCAGAAATGGATGTTAGAAATATCCATCAACGCGGGGT
1 AAAAGTTAACGAGAACGAGACACATAAGCAGAAATGGATGTTAGAAACATCCATAAACGCGAGGT
160359 GAGCGAAAGAATTTTACATCCAAAACTA
66 GAGCGAAAGAATTTTACATCCAAAACTA
160387 AGGTGGACTT
Statistics
Matches: 79, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
110 51 0.65
111 28 0.35
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (111 bp):
AAAAGTTAACGAGAACGAGACACATAAGCAGAAATGGATGTTAGAAACATCCATAAACGCGAGGT
GAGCGAAAGAATTTTACATCCAAAACTAGGCAAATTAAAGGTTAAC
Found at i:162393 original size:8 final size:8
Alignment explanation
Indices: 162379--162408 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
162369 ATTAGGCTTA
162379 TAAGAATT
1 TAAGAATT
*
162387 GAAGAATT
1 TAAGAATT
162395 TAAGAATT
1 TAAGAATT
162403 TAAGAA
1 TAAGAA
162409 ATTTTGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (8 bp):
TAAGAATT
Found at i:163712 original size:55 final size:55
Alignment explanation
Indices: 163540--163712 Score: 124
Period size: 55 Copynumber: 3.1 Consensus size: 55
163530 AGGTTATCAG
* * *
163540 ACAAGGACCATTAAATAGTCTACCTCAAATAGTGATACCTCTTTTGAGCCATCTA
1 ACAAGGACCATTAAATAGTCTACATCAAATAGTGATACCTCTTCTAAGCCATCTA
* * * * * * ** *
163595 ACAAGGGCTATTGAACAT-TTCCTACCCAGCCCAATAGT-AT--CT-ATCTAAG-GTTGTCA
1 ACAAGGACCATT-AA-ATAGT-CTA--CA-TCAAATAGTGATACCTCTTCTAAGCCATCT-A
163651 GACAAGGACCATTAAATAGTCTACATCAAATAGTGATACCTCTTCTAAGCCATCTA
1 -ACAAGGACCATTAAATAGTCTACATCAAATAGTGATACCTCTTCTAAGCCATCTA
163707 ACAAGG
1 ACAAGG
163713 GCCACTGAAC
Statistics
Matches: 83, Mismatches: 21, Indels: 28
0.63 0.16 0.21
Matches are distributed among these distances:
52 7 0.08
53 4 0.05
55 25 0.30
56 18 0.22
57 19 0.23
59 3 0.04
60 7 0.08
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (55 bp):
ACAAGGACCATTAAATAGTCTACATCAAATAGTGATACCTCTTCTAAGCCATCTA
Found at i:163722 original size:112 final size:113
Alignment explanation
Indices: 163520--163745 Score: 373
Period size: 112 Copynumber: 2.0 Consensus size: 113
163510 TTAAATATGA
* *
163520 TATCTATCTAAGGTTATCAGACAAGGACCATTAAATAGTCTACCTCAAATAGTGATACCTCTTTT
1 TATCTATCTAAGGTTATCAGACAAGGACCATTAAATAGTCTACATCAAATAGTGATACCTCTTCT
* * * *
163585 GAGCCATCTAACAAGGGCTATTGAACA-TTTCCTACCCAGCCCAATAG
66 AAGCCATCTAACAAGGGCCACTGAACATTTTCCTACCAAGCCCAATAG
*
163632 TATCTATCTAAGGTTGTCAGACAAGGACCATTAAATAGTCTACATCAAATAGTGATACCTCTTCT
1 TATCTATCTAAGGTTATCAGACAAGGACCATTAAATAGTCTACATCAAATAGTGATACCTCTTCT
*
163697 AAGCCATCTAACAAGGGCCACTGAACATTTTCCTACCAAGTCCAATAG
66 AAGCCATCTAACAAGGGCCACTGAACATTTTCCTACCAAGCCCAATAG
163745 T
1 T
163746 GGCTCATATG
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
112 86 0.82
113 19 0.18
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (113 bp):
TATCTATCTAAGGTTATCAGACAAGGACCATTAAATAGTCTACATCAAATAGTGATACCTCTTCT
AAGCCATCTAACAAGGGCCACTGAACATTTTCCTACCAAGCCCAATAG
Found at i:164995 original size:40 final size:40
Alignment explanation
Indices: 164940--165019 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
164930 CAACCTTTGT
*
164940 TTTTGGTCATTTGAGAAGTATTGTTGATTAGGAAAATAAA
1 TTTTGGTCATTTGAGAAGTACTGTTGATTAGGAAAATAAA
164980 TTTTGGTCATTTGAGAAGTACTGTTGATTAGGAAAATAAA
1 TTTTGGTCATTTGAGAAGTACTGTTGATTAGGAAAATAAA
165020 ACTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.39
Consensus pattern (40 bp):
TTTTGGTCATTTGAGAAGTACTGTTGATTAGGAAAATAAA
Found at i:166956 original size:17 final size:17
Alignment explanation
Indices: 166934--166966 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
166924 AAAGTAAAAA
166934 AAATGTTGGTTTGCCTC
1 AAATGTTGGTTTGCCTC
166951 AAATGTTGGTTTGCCT
1 AAATGTTGGTTTGCCT
166967 TTAAAAAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.15, G:0.24, T:0.42
Consensus pattern (17 bp):
AAATGTTGGTTTGCCTC
Found at i:177818 original size:79 final size:80
Alignment explanation
Indices: 177680--177847 Score: 214
Period size: 79 Copynumber: 2.1 Consensus size: 80
177670 AACGGGGCTT
* * *
177680 GAGTTTCCTTGATTATGAAAAAAATCGGTGTTCTGAAAATAAAATCGGGGTTGAAGTATCCCCTC
1 GAGTATCCTTGATTAT-AAAAAAATCGGTATTCTGAAAATAAAATCGAGGTTGAAGTATCCCCTC
* *
177745 GGAAATAGCAGGGTTG
65 GAAAATAACAGGGTTG
* * *
177761 GAGTATCCTTGATTAT-AGAAAATCGGTATTTTGAAAATAAAATCGAGGTT-AGAGTATCCGCTC
1 GAGTATCCTTGATTATAAAAAAATCGGTATTCTGAAAATAAAATCGAGGTTGA-AGTATCCCCTC
**
177824 GAAAATAATGGGGTTG
65 GAAAATAACAGGGTTG
177840 GAGTATCC
1 GAGTATCC
177848 CTAATTGTGA
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
78 1 0.01
79 60 0.79
81 15 0.20
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (80 bp):
GAGTATCCTTGATTATAAAAAAATCGGTATTCTGAAAATAAAATCGAGGTTGAAGTATCCCCTCG
AAAATAACAGGGTTG
Found at i:177862 original size:79 final size:78
Alignment explanation
Indices: 177699--177864 Score: 199
Period size: 79 Copynumber: 2.1 Consensus size: 78
177689 TGATTATGAA
* * * *
177699 AAAAATCGGTGTTCTGAAAATAAAATCGGGGTTGAAGTATCCCCTCGGAAATAGCAGGGTTGGAG
1 AAAAATCGGTATTCTGAAAATAAAATCGAGGTTGAAGTATCCCCTCGAAAATAACAGGGTTGGAG
* *
177764 TATCCTTGATTAT
66 TATCCCTAATTAT
* * **
177777 AGAAAATCGGTATTTTGAAAATAAAATCGAGGTT-AGAGTATCCGCTCGAAAATAATGGGGTTGG
1 A-AAAATCGGTATTCTGAAAATAAAATCGAGGTTGA-AGTATCCCCTCGAAAATAACAGGGTTGG
*
177841 AGTATCCCTAATTGT
64 AGTATCCCTAATTAT
177856 GAAAAATCG
1 -AAAAATCG
177865 ATGCTTTAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
78 2 0.03
79 71 0.96
80 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.28
Consensus pattern (78 bp):
AAAAATCGGTATTCTGAAAATAAAATCGAGGTTGAAGTATCCCCTCGAAAATAACAGGGTTGGAG
TATCCCTAATTAT
Found at i:177898 original size:51 final size:50
Alignment explanation
Indices: 177825--177950 Score: 148
Period size: 51 Copynumber: 2.5 Consensus size: 50
177815 TATCCGCTCG
* *
177825 AAAAT-AA-TGGGGTTGGAGTATCCCTAATTGTGAAAAATCGATGCTTTA
1 AAAATAAAGTGGGGTTGGAGTATCCCTAATTGTGAAAAATCAATACTTTA
* * * * *
177873 AAAATAAGGCTGGGGTTGGAGTATCCCTGATTGTGAGAAATCAATATTTTG
1 AAAATAAAG-TGGGGTTGGAGTATCCCTAATTGTGAAAAATCAATACTTTA
*
177924 AAAATAAAGTCAGGGTTGGAGTATCCC
1 AAAATAAAGT-GGGGTTGGAGTATCCC
177951 CTCAGAAATA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
48 5 0.08
49 1 0.02
50 1 0.02
51 58 0.89
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (50 bp):
AAAATAAAGTGGGGTTGGAGTATCCCTAATTGTGAAAAATCAATACTTTA
Found at i:178009 original size:28 final size:28
Alignment explanation
Indices: 177936--178010 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 28
177926 AATAAAGTCA
*
177936 GGGTTGGAGTATCCCCTCA-GAAATAACG
1 GGGTTGGAGTATCCCC-GATGAAATAACG
*
177964 GGGTTGGAGTATCTCCGATGAAATAACG
1 GGGTTGGAGTATCCCCGATGAAATAACG
177992 GGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCGAT
178011 TATGAAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 1 0.02
28 42 0.98
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGATGAAATAACG
Found at i:178064 original size:51 final size:51
Alignment explanation
Indices: 177994--178109 Score: 160
Period size: 51 Copynumber: 2.3 Consensus size: 51
177984 AAATAACGGG
** * * *
177994 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAATCGAA
1 GTTGGAGTATCCCTAATTATGAAAAATTAATGTTTTAGAAATAAAACCGAA
* **
178045 GTTGGAGTATCCCTAATTATGGAAAATTAATGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCTAATTATGAAAAATTAATGTTTTAGAAATAAAACCGAA
178096 GTTGGAGTATCCCT
1 GTTGGAGTATCCCT
178110 TTGGAAATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCTAATTATGAAAAATTAATGTTTTAGAAATAAAACCGAA
Found at i:187933 original size:20 final size:20
Alignment explanation
Indices: 187905--188044 Score: 113
Period size: 20 Copynumber: 6.7 Consensus size: 20
187895 TTTACCCAAA
187905 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTTGCAT
*
187925 TGCATCGATACATTTTGCAT
1 TGTATCGATACATTTTGCAT
* *
187945 TGTATCAATACATTGCT-CAT
1 TGTATCGATACATT-TTGCAT
187965 TGTATCGATACATTGTATCGATACAT
1 TGTATCGATACATT-T-T-G---CAT
* * *
187991 TTTATCAATACATTACT-CAT
1 TGTATCGATACATT-TTGCAT
** *
188011 TGTATCGATACATTTTATAA
1 TGTATCGATACATTTTGCAT
188031 TGTATCGATACATT
1 TGTATCGATACATT
188045 CAGGCATTTT
Statistics
Matches: 97, Mismatches: 15, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.01
20 78 0.80
21 2 0.02
25 1 0.01
26 15 0.15
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTTTGCAT
Found at i:187978 original size:13 final size:13
Alignment explanation
Indices: 187962--188004 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
187952 ATACATTGCT
187962 CATTGTATCGATA
1 CATTGTATCGATA
187975 CATTGTATCGATA
1 CATTGTATCGATA
* *
187988 CATTTTATCAATA
1 CATTGTATCGATA
188001 CATT
1 CATT
188005 ACTCATTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:190491 original size:79 final size:79
Alignment explanation
Indices: 190398--190775 Score: 277
Period size: 79 Copynumber: 4.7 Consensus size: 79
190388 TCATTCATGT
* * * *
190398 TTTTATTTCCAAAATACCAATTTTTTACAATCGGGGATACTCCAACCCTGTTATTTCT-GGGGGG
1 TTTTATTTTCAAAATACCAATTTTTCATAATCGGGGATACTCCAACCCTGTTATTT-TAGAGGGG
190462 ATACTCCAACCCTGA
65 ATACTCCAACCCTGA
* * * *
190477 TTTTATTTTTAAAATACTAATTTTTCATAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAA
1 TTTTATTTTCAAAATACCAATTTTTCATAATCGGGGATACTCCAAC-CC--TGTTATTT------
* *
190542 TA-ATCAGGGATACTTCAACCCCTG-
57 TAGA--GGGGATACTCCAA-CCCTGA
*** * * * * * *
190566 CCATA-TTTCCAAATCATCGATTTTTCACAATCGAGGATACTCCAA-CCTCGTTATTTTCGAGGG
1 TTTTATTTTCAAAAT-ACCAATTTTTCATAATCGGGGATACTCCAACCCT-GTTATTTTAGAGGG
* *
190629 GATAATCCAACCCCGA
64 GATACTCCAACCCTGA
* *
190645 TTTTATTTTCAAAATACCAA-TTTTCTATAATCAGGGATACTCCAACCCTGTTATTTTCGAGGGG
1 TTTTATTTTCAAAATACCAATTTTTC-ATAATCGGGGATACTCCAACCCTGTTATTTTAGAGGGG
190709 ATACTCCAA-CCTCGA
65 ATACTCCAACCCT-GA
** * * * *
190724 TTTTA-TTTCTGGAACACCGATTTTCCATAATCGGGGATACTCCAGCCCTGTT
1 TTTTATTTTC-AAAATACCAATTTTTCATAATCGGGGATACTCCAACCCTGTT
190776 GTTATCTCCA
Statistics
Matches: 231, Mismatches: 46, Indels: 44
0.72 0.14 0.14
Matches are distributed among these distances:
78 15 0.06
79 131 0.57
80 18 0.08
81 1 0.00
82 7 0.03
85 1 0.00
86 6 0.03
87 3 0.01
88 7 0.03
89 37 0.16
90 5 0.02
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (79 bp):
TTTTATTTTCAAAATACCAATTTTTCATAATCGGGGATACTCCAACCCTGTTATTTTAGAGGGGA
TACTCCAACCCTGA
Found at i:203175 original size:1 final size:1
Alignment explanation
Indices: 203169--203288 Score: 78
Period size: 1 Copynumber: 120.0 Consensus size: 1
203159 TCCCACTTTC
* * * * * * * * * *
203169 AAAAAAAACACAAAAAAACAAAAAAATAGAAAAACAAAAAAAACAAAAAAAACAAAATAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * *
203234 AAACAAAAAACAAAAAACAAAAAAATAACAAAAAAAAAACAAAACAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
203289 GAGAGAAAAG
Statistics
Matches: 83, Mismatches: 36, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 83 1.00
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.03
Consensus pattern (1 bp):
A
Found at i:203189 original size:8 final size:8
Alignment explanation
Indices: 203171--203286 Score: 119
Period size: 9 Copynumber: 13.9 Consensus size: 8
203161 CCACTTTCAA
203171 AAAAAACAC
1 AAAAAA-AC
203180 AAAAAAAC
1 AAAAAAAC
*
203188 AAAAAAAT
1 AAAAAAAC
*
203196 AGAAAAAC
1 AAAAAAAC
203204 AAAAAAAAC
1 -AAAAAAAC
203213 AAAAAAAAC
1 -AAAAAAAC
*
203222 AAAATAAC
1 AAAAAAAC
203230 AAAAAAAC
1 AAAAAAAC
203238 -AAAAAAC
1 AAAAAAAC
*
203245 AAAAAACAA
1 AAAAAA-AC
203254 AAAAATAAC
1 AAAAA-AAC
203263 AAAAAAA-
1 AAAAAAAC
203270 AAACAAAAC
1 AAA-AAAAC
203279 AAAGAAAA
1 AAA-AAAA
203287 AAGAGAGAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
7 10 0.11
8 40 0.43
9 41 0.45
10 1 0.01
ACGTcount: A:0.84, C:0.11, G:0.02, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:203201 original size:25 final size:23
Alignment explanation
Indices: 203169--203286 Score: 121
Period size: 25 Copynumber: 4.8 Consensus size: 23
203159 TCCCACTTTC
203169 AAAAAAAACACAAAAAAACAAAA
1 AAAAAAAACACAAAAAAACAAAA
203192 AAATAGAAAA-ACAAAAAAAACAAAA
1 AAA-A-AAAACAC-AAAAAAACAAAA
*
203217 AAAACAAAATAACAAAAAAACAAAA
1 AAAA-AAAA-CACAAAAAAACAAAA
*
203242 AACAAAAAACAAAAAAATAACAAAA
1 AA-AAAAAACACAAAAA-AACAAAA
*
203267 AAAAAACAAAACAAAGAAAA
1 AAAAAA-AACACAAA-AAAA
203287 AAGAGAGAAA
Statistics
Matches: 81, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
23 3 0.04
24 18 0.22
25 54 0.67
26 6 0.07
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.03
Consensus pattern (23 bp):
AAAAAAAACACAAAAAAACAAAA
Done.