Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 6 of 343
Found at i:2079707 original size:13 final size:13
Alignment explanation
Indices: 2079689--2079714 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2079679 TTTGACCTCG
2079689 ATTTGATTGGTTA
1 ATTTGATTGGTTA
2079702 ATTTGATTGGTTA
1 ATTTGATTGGTTA
2079715 TCGATTTTTG
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:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (13 bp):
ATTTGATTGGTTA
Found at i:2080774 original size:46 final size:46
Alignment explanation
Indices: 2080593--2080774 Score: 240
Period size: 46 Copynumber: 4.0 Consensus size: 46
2080583 TTTGACATGA
* * * * * *
2080593 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *** *
2080639 TACCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
2080685 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
2080731 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
2080775 AGAGCACACT
Statistics
Matches: 121, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
45 4 0.03
46 117 0.97
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:2087064 original size:3 final size:3
Alignment explanation
Indices: 2087056--2087093 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
2087046 AAGCGAAAAG
2087056 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2087094 GGGATAAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2089787 original size:28 final size:28
Alignment explanation
Indices: 2089756--2089815 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
2089746 TAAAATATGA
*
2089756 TTATTCAGTATCA-AATTAAATTTT-ATTT
1 TTATTCAATAT-ATAATT-AATTTTAATTT
*
2089784 TTATTTAATATATAATTAATTTTAATTT
1 TTATTCAATATATAATTAATTTTAATTT
2089812 TTAT
1 TTAT
2089816 AATAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (28 bp):
TTATTCAATATATAATTAATTTTAATTT
Found at i:2089826 original size:28 final size:28
Alignment explanation
Indices: 2089769--2089857 Score: 76
Period size: 28 Copynumber: 3.1 Consensus size: 28
2089759 TTCAGTATCA
* *
2089769 AATTAAATTTT-ATTTTTAT-TTAATATAT
1 AATT-AATTTTAATTTTTATAATAA-AAAT
2089797 AATTAATTTTAATTTTTATAATAAAAAT
1 AATTAATTTTAATTTTTATAATAAAAAT
* **
2089825 AAATAA-TTTATATTTAAAGTAATAAAAAT
1 AATTAATTTTA-ATTTTTA-TAATAAAAAT
2089854 AATT
1 AATT
2089858 TAAATATTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 10 0.20
28 25 0.49
29 16 0.31
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (28 bp):
AATTAATTTTAATTTTTATAATAAAAAT
Found at i:2089897 original size:17 final size:16
Alignment explanation
Indices: 2089862--2089894 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2089852 ATAATTTAAA
*
2089862 TATTTTTTAAAATTAT
1 TATTTTTTAAAAATAT
2089878 TATTTTTTAAAAATAT
1 TATTTTTTAAAAATAT
2089894 T
1 T
2089895 TATGAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTTTTTAAAAATAT
Found at i:2091330 original size:16 final size:19
Alignment explanation
Indices: 2091304--2091341 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
2091294 TCAATTTAGC
2091304 TAAATTAATTTT-TCAA-T
1 TAAATTAATTTTCTCAACT
2091321 TAAA-TAATTTTCTCAACT
1 TAAATTAATTTTCTCAACT
2091339 TAA
1 TAA
2091342 TTCTAATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 8 0.42
18 4 0.21
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (19 bp):
TAAATTAATTTTCTCAACT
Found at i:2093550 original size:17 final size:17
Alignment explanation
Indices: 2093524--2093565 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
2093514 ATAACACTAT
*
2093524 AATG-TAAATATTTTAA
1 AATGTTAAATATTTAAA
2093540 AATGTTAAATATTTAAA
1 AATGTTAAATATTTAAA
2093557 AATGTTAAA
1 AATGTTAAA
2093566 GATGTATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (17 bp):
AATGTTAAATATTTAAA
Found at i:2098547 original size:28 final size:29
Alignment explanation
Indices: 2098515--2098571 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
2098505 TGCCTAAACA
*
2098515 AAAATGGATGAAATTTTTAATA-AATAAT
1 AAAATGCATGAAATTTTTAATAGAATAAT
2098543 AAAATGCATGAAATTTTTAATAGAATAAT
1 AAAATGCATGAAATTTTTAATAGAATAAT
2098572 TAATTTACTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 21 0.78
29 6 0.22
ACGTcount: A:0.53, C:0.02, G:0.11, T:0.35
Consensus pattern (29 bp):
AAAATGCATGAAATTTTTAATAGAATAAT
Found at i:2103877 original size:31 final size:32
Alignment explanation
Indices: 2103842--2103908 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
2103832 AAATCAATTT
2103842 AAAAGTTG-GAACTTTTTGTAGAATTAACCAA
1 AAAAGTTGAGAACTTTTTGTAGAATTAACCAA
* *
2103873 AAAAGTTGAGAACTTTTTGTGGAATTAACCCA
1 AAAAGTTGAGAACTTTTTGTAGAATTAACCAA
2103905 AAAA
1 AAAA
2103909 TAACATTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
31 8 0.24
32 25 0.76
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.30
Consensus pattern (32 bp):
AAAAGTTGAGAACTTTTTGTAGAATTAACCAA
Found at i:2113408 original size:16 final size:16
Alignment explanation
Indices: 2113375--2113408 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2113365 GCTGACTGTT
* *
2113375 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
2113391 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
2113407 AA
1 AA
2113409 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:2116231 original size:21 final size:21
Alignment explanation
Indices: 2116205--2116245 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2116195 AGACGAGCAA
* *
2116205 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
2116226 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
2116246 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:2118183 original size:16 final size:16
Alignment explanation
Indices: 2118150--2118183 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2118140 GGAGATTGTT
* *
2118150 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
2118166 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
2118182 AA
1 AA
2118184 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:2121461 original size:23 final size:23
Alignment explanation
Indices: 2121434--2121478 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2121424 TTTTAAAAGA
2121434 AATGACCAATTTACTTTTTGATT
1 AATGACCAATTTACTTTTTGATT
* *
2121457 AATGATCAATTTGCTTTTTGAT
1 AATGACCAATTTACTTTTTGAT
2121479 CTAACGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (23 bp):
AATGACCAATTTACTTTTTGATT
Found at i:2126510 original size:25 final size:25
Alignment explanation
Indices: 2126482--2126530 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
2126472 GCCCAAACCT
2126482 GTGTAGATTTTTGATGAGGAAATCG
1 GTGTAGATTTTTGATGAGGAAATCG
*
2126507 GTGTAGATTTTTTATGAGGAAATC
1 GTGTAGATTTTTGATGAGGAAATC
2126531 CAAAAGTGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.39
Consensus pattern (25 bp):
GTGTAGATTTTTGATGAGGAAATCG
Found at i:2126947 original size:4 final size:4
Alignment explanation
Indices: 2126940--2127017 Score: 122
Period size: 4 Copynumber: 19.8 Consensus size: 4
2126930 TGCATGTGTG
* * *
2126940 TGTA TGTA TGAA TGCA TGCA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
2126988 TGTA TGTA T-TA TGTA TGTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
2127018 GTGTGTGTGT
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
3 3 0.04
4 67 0.96
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.47
Consensus pattern (4 bp):
TGTA
Found at i:2128798 original size:199 final size:196
Alignment explanation
Indices: 2128419--2128991 Score: 765
Period size: 196 Copynumber: 2.9 Consensus size: 196
2128409 AGGCAAAATC
* * *
2128419 TATGTTGTTCGGACTCTTCATTTTTCTTGAAGCACCAGTGTTTGACAGATGGATATTACATGGAA
1 TATGTTGCTCAGACTCTTCATTTTTCTTGAAGCACCAGTGTTTGACACATGGATATTACATGGAA
* * *
2128484 AACCTTTGAAAAATGAAAAATCTAACGATACTCGTGTCAAATGCACACCCGTATTTGACACTCAC
66 AACCTTTG-AAAA-G-----TCTAACGATACTCGTGTTAAATACATACCCGTATTTGACACTCAC
* * * *
2128549 ACCCGAGTCCGAATAACATAGGGCAAAATTCACTATGTCAACTAACAATTGAGAGCTAGGGATCA
124 ACCAGAGTCCGAATAACATAGGGCAAAATTCACTATGTCAACTAACAATTGACAGCAAGCGATCA
2128614 CAAAATGA
189 CAAAATGA
**
2128622 TAGGTTGTTGCTCAGACTCTTCATTTTTCTTGAAGCACTC-GTGTCGGACACATGGATATTACAT
1 TA---TGTTGCTCAGACTCTTCATTTTTCTTGAAGCAC-CAGTGTTTGACACATGGATATTACAT
* * * * *
2128686 AGAAAACCTTTGAAAAGTCTAACAATACTC-TCATTAAATACATACCCATATTTGACACTTACAC
62 GGAAAACCTTTGAAAAGTCTAACGATACTCGT-GTTAAATACATACCCGTATTTGACACTCACAC
* *
2128750 CAGAGTCCGAATAACATAGGGCAAAATTAACTATGTCAACTGACAATTGACAGCAAGCGATCACA
126 CAGAGTCCGAATAACATAGGGCAAAATTCACTATGTCAACTAACAATTGACAGCAAGCGATCACA
* *
2128815 CAATGC
191 AAATGA
* * *
2128821 TATGTTGCTCAGGCTCTTCATTTTTCTTGAAGCACCAGTGTTTGACATATGTATATTACATGGAA
1 TATGTTGCTCAGACTCTTCATTTTTCTTGAAGCACCAGTGTTTGACACATGGATATTACATGGAA
* *
2128886 AACCTTTGAAAAGTCAAACGATACTCGTGTTAAATACATACCGGTATTTGACACTCACACCCA-A
66 AACCTTTGAAAAGTCTAACGATACTCGTGTTAAATACATACCCGTATTTGACACTCACA-CCAGA
*
2128950 GTCCGAGTAACATAGGGCAAAATTCACTATGTCAACTAACAA
130 GTCCGAATAACATAGGGCAAAATTCACTATGTCAACTAACAA
2128992 ATCAAGGGAT
Statistics
Matches: 326, Mismatches: 36, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
195 1 0.00
196 146 0.45
197 4 0.01
198 1 0.00
199 103 0.32
203 2 0.01
204 1 0.00
205 4 0.01
206 63 0.19
207 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (196 bp):
TATGTTGCTCAGACTCTTCATTTTTCTTGAAGCACCAGTGTTTGACACATGGATATTACATGGAA
AACCTTTGAAAAGTCTAACGATACTCGTGTTAAATACATACCCGTATTTGACACTCACACCAGAG
TCCGAATAACATAGGGCAAAATTCACTATGTCAACTAACAATTGACAGCAAGCGATCACAAAATG
A
Found at i:2136793 original size:18 final size:18
Alignment explanation
Indices: 2136770--2136819 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
2136760 CGGCTGCAGT
*
2136770 GGCGGCTGAGGTGGCGGA
1 GGCGGCTGAGGCGGCGGA
* *
2136788 GGCGGCGGAGGCGGCGGT
1 GGCGGCTGAGGCGGCGGA
2136806 GGCCGGACTGAGGC
1 GG-CGG-CTGAGGC
2136820 AACCCGGTGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 17 0.65
19 3 0.12
20 6 0.23
ACGTcount: A:0.10, C:0.22, G:0.60, T:0.08
Consensus pattern (18 bp):
GGCGGCTGAGGCGGCGGA
Found at i:2136794 original size:9 final size:9
Alignment explanation
Indices: 2136770--2136804 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
2136760 CGGCTGCAGT
*
2136770 GGCGGCTGA
1 GGCGGCGGA
*
2136779 GGTGGCGGA
1 GGCGGCGGA
2136788 GGCGGCGGA
1 GGCGGCGGA
2136797 GGCGGCGG
1 GGCGGCGG
2136805 TGGCCGGACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.09, C:0.20, G:0.66, T:0.06
Consensus pattern (9 bp):
GGCGGCGGA
Found at i:2139458 original size:13 final size:14
Alignment explanation
Indices: 2139440--2139472 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
2139430 AGTCTTGAAC
2139440 TTTAAACTTA-AAT
1 TTTAAACTTAGAAT
2139453 TTTAAACTTAGAAT
1 TTTAAACTTAGAAT
*
2139467 CTTAAA
1 TTTAAA
2139473 TTTTAAACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (14 bp):
TTTAAACTTAGAAT
Found at i:2145445 original size:24 final size:24
Alignment explanation
Indices: 2145418--2145465 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2145408 ACCGTCACTG
*
2145418 TCAGCATCACCATTACCATCACCA
1 TCAGCATCACAATTACCATCACCA
**
2145442 TCAGCATCACAATTGTCATCACCA
1 TCAGCATCACAATTACCATCACCA
2145466 CTATCAACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.38, G:0.06, T:0.23
Consensus pattern (24 bp):
TCAGCATCACAATTACCATCACCA
Found at i:2145497 original size:57 final size:57
Alignment explanation
Indices: 2145427--2145609 Score: 255
Period size: 57 Copynumber: 3.3 Consensus size: 57
2145417 GTCAGCATCA
* * *
2145427 CCATTACCATCACCATCAGCATCACAATTGTCATCACCACTATCAACATCGCTATTG
1 CCATCACCGTCACCATCAGCATCACAATTGTCATCACCACTATCAACATCACTATTG
*
2145484 CCATCACCGTCACCATCAGCATCACAATTGTCATCACCACTATCAACATCCCTATTG
1 CCATCACCGTCACCATCAGCATCACAATTGTCATCACCACTATCAACATCACTATTG
* * * * * *
2145541 CCATCACCGTCACCTTCAGCATCACCATTGCCATCACC-C--TCAGCGTCACAATTG
1 CCATCACCGTCACCATCAGCATCACAATTGTCATCACCACTATCAACATCACTATTG
2145595 CCATCACCGTCACCA
1 CCATCACCGTCACCA
2145610 CTATCAGAAA
Statistics
Matches: 115, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
54 25 0.22
56 1 0.01
57 89 0.77
ACGTcount: A:0.28, C:0.40, G:0.08, T:0.23
Consensus pattern (57 bp):
CCATCACCGTCACCATCAGCATCACAATTGTCATCACCACTATCAACATCACTATTG
Found at i:2145577 original size:24 final size:24
Alignment explanation
Indices: 2145550--2145602 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
2145540 GCCATCACCG
* *
2145550 TCACCTTCAGCATCACCATTGCCA
1 TCACCCTCAGCATCACAATTGCCA
*
2145574 TCACCCTCAGCGTCACAATTGCCA
1 TCACCCTCAGCATCACAATTGCCA
2145598 TCACC
1 TCACC
2145603 GTCACCACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.25, C:0.43, G:0.09, T:0.23
Consensus pattern (24 bp):
TCACCCTCAGCATCACAATTGCCA
Found at i:2148336 original size:2 final size:2
Alignment explanation
Indices: 2148329--2148354 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2148319 ATAAATTTAA
2148329 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
2148355 GGCTTGAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2149513 original size:48 final size:48
Alignment explanation
Indices: 2149441--2149539 Score: 180
Period size: 48 Copynumber: 2.1 Consensus size: 48
2149431 CGCTTCACTC
2149441 AAGAGATCTCGTCAAATGTCTGCCTCATCAAGACTCATTGCCTTATCA
1 AAGAGATCTCGTCAAATGTCTGCCTCATCAAGACTCATTGCCTTATCA
* *
2149489 AAGAGATCTCGTCAAATGTTTGCCTCATCAAGGCTCATTGCCTTATCA
1 AAGAGATCTCGTCAAATGTCTGCCTCATCAAGACTCATTGCCTTATCA
2149537 AAG
1 AAG
2149540 GCAAAGGCCT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (48 bp):
AAGAGATCTCGTCAAATGTCTGCCTCATCAAGACTCATTGCCTTATCA
Found at i:2149946 original size:94 final size:94
Alignment explanation
Indices: 2149785--2149973 Score: 360
Period size: 94 Copynumber: 2.0 Consensus size: 94
2149775 TACTAATATG
*
2149785 TAATTTCTTAAAAACTTAAGGGACTAAATGATAAATCTATCATTTTTGAAGGGCAAAGGTTACCA
1 TAATTTCTTAAAAACTTAAGGGACTAAATGATAAATCTATCATTTTTGAAGGGAAAAGGTTACCA
2149850 CCTACCCCGTTTACCTTTGTCCCTATAGC
66 CCTACCCCGTTTACCTTTGTCCCTATAGC
*
2149879 TAATTTCTTAAAAACTTAAGGGACTAAATGATAAATCTATCGTTTTTGAAGGGAAAAGGTTACCA
1 TAATTTCTTAAAAACTTAAGGGACTAAATGATAAATCTATCATTTTTGAAGGGAAAAGGTTACCA
2149944 CCTACCCCGTTTACCTTTGTCCCTATAGC
66 CCTACCCCGTTTACCTTTGTCCCTATAGC
2149973 T
1 T
2149974 TCCATACACT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 93 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (94 bp):
TAATTTCTTAAAAACTTAAGGGACTAAATGATAAATCTATCATTTTTGAAGGGAAAAGGTTACCA
CCTACCCCGTTTACCTTTGTCCCTATAGC
Found at i:2150240 original size:21 final size:20
Alignment explanation
Indices: 2150208--2150246 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2150198 ATTTGTCCTT
2150208 AAAAAATTATTAAAAATTTC
1 AAAAAATTATTAAAAATTTC
*
2150228 AAAAAGTTCATTAAAAATT
1 AAAAAATT-ATTAAAAATT
2150247 ATATTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAAAATTATTAAAAATTTC
Found at i:2151892 original size:33 final size:31
Alignment explanation
Indices: 2151845--2151923 Score: 90
Period size: 33 Copynumber: 2.5 Consensus size: 31
2151835 ATGATAAAGA
*
2151845 ATTTTTTTCATTTTAAATTTTCAA-TTACAT-TT
1 ATTTATTT-ATTTTAAATTTT-AATTTA-ATATT
2151877 AGTTTAATTTATTTTAAATTTTAATTTAATATT
1 A-TTT-ATTTATTTTAAATTTTAATTTAATATT
2151910 ATTTATTTATTTTA
1 ATTTATTTATTTTA
2151924 TTTTGATTAG
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
31 10 0.24
32 8 0.19
33 21 0.50
34 3 0.07
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (31 bp):
ATTTATTTATTTTAAATTTTAATTTAATATT
Found at i:2153511 original size:31 final size:31
Alignment explanation
Indices: 2153429--2153514 Score: 90
Period size: 31 Copynumber: 2.8 Consensus size: 31
2153419 TGGTGTCTAA
*
2153429 TATTTACAAAAGTGCTCAAATGAGGTAAAATC
1 TATTT-CAAAAGTGCTCAAATAAGGTAAAATC
*
2153461 T-TTTCGAAAA-TACTCAAATAAGTGCT-AAA-C
1 TATTTC-AAAAGTGCTCAAATAAG-G-TAAAATC
2153491 TATTTCAAAAGTGCTCAAATAAGG
1 TATTTCAAAAGTGCTCAAATAAGG
2153515 ACTTCTCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
30 18 0.39
31 26 0.57
32 2 0.04
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (31 bp):
TATTTCAAAAGTGCTCAAATAAGGTAAAATC
Found at i:2156584 original size:13 final size:13
Alignment explanation
Indices: 2156553--2156587 Score: 56
Period size: 11 Copynumber: 2.8 Consensus size: 13
2156543 GTGTCGTATA
2156553 AATTTATACTTAT
1 AATTTATACTTAT
2156566 --TTTATACTTAT
1 AATTTATACTTAT
2156577 AATTTATACTT
1 AATTTATACTT
2156588 GCCTTTGTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 11 0.55
13 9 0.45
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (13 bp):
AATTTATACTTAT
Found at i:2160362 original size:61 final size:60
Alignment explanation
Indices: 2160263--2160387 Score: 187
Period size: 61 Copynumber: 2.1 Consensus size: 60
2160253 TACATAGAGT
* *
2160263 TGAACATAGTAAAATAAGAAATTAAAATATTTCATTGAAATTGTTCATTTGGAAATTTCC
1 TGAACATAGTAAAATAAGAAATTAAAAGATTTCATTGAAATTGTTCATTTAGAAATTTCC
* * **
2160323 TGAATCATAGTAAAATAAGAAATTGAAAGATTTCGTTGAAATTGTTTGTTTAGAAATTTCC
1 TGAA-CATAGTAAAATAAGAAATTAAAAGATTTCATTGAAATTGTTCATTTAGAAATTTCC
2160384 TGAA
1 TGAA
2160388 AAGCTAATAA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
60 4 0.07
61 54 0.93
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (60 bp):
TGAACATAGTAAAATAAGAAATTAAAAGATTTCATTGAAATTGTTCATTTAGAAATTTCC
Found at i:2166888 original size:7 final size:7
Alignment explanation
Indices: 2166876--2166904 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
2166866 ATAATGATTG
2166876 ATTTATA
1 ATTTATA
2166883 ATTTATA
1 ATTTATA
2166890 ATTTATA
1 ATTTATA
2166897 ATTTATA
1 ATTTATA
2166904 A
1 A
2166905 ATAATAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATTTATA
Found at i:2167692 original size:18 final size:17
Alignment explanation
Indices: 2167661--2167705 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
2167651 TGATGTCATC
*
2167661 ATAAAAAATTTTAAAAA
1 ATAAAAAATATTAAAAA
2167678 ATAAAAAAGTATTAAAAA
1 ATAAAAAA-TATTAAAAA
2167696 ATTAAAAAAT
1 A-TAAAAAAT
2167706 TACAACAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 8 0.32
18 10 0.40
19 7 0.28
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
ATAAAAAATATTAAAAA
Found at i:2168502 original size:9 final size:9
Alignment explanation
Indices: 2168483--2168534 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
2168473 TAAACAATTA
2168483 TATATATTTT
1 TATA-ATTTT
2168493 TATAATTTT
1 TATAATTTT
2168502 TATAATTTT
1 TATAATTTT
*
2168511 ATAAAATTTT
1 -TATAATTTT
2168521 TAT--TTTT
1 TATAATTTT
2168528 T-TAATTT
1 TATAATTT
2168535 GTAGTTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
6 1 0.03
7 5 0.14
8 3 0.08
9 16 0.43
10 12 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TATAATTTT
Found at i:2168505 original size:19 final size:19
Alignment explanation
Indices: 2168483--2168523 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2168473 TAAACAATTA
*
2168483 TATATATTTT-TATAATTTT
1 TATA-ATTTTATAAAATTTT
2168502 TATAATTTTATAAAATTTT
1 TATAATTTTATAAAATTTT
2168521 TAT
1 TAT
2168524 TTTTTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TATAATTTTATAAAATTTT
Found at i:2168527 original size:17 final size:15
Alignment explanation
Indices: 2168487--2168534 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 15
2168477 CAATTATATA
2168487 TATTTTTATAATTTT
1 TATTTTTATAATTTT
2168502 TATAATTTTATAAAATTTT
1 TAT--TTTTAT--AATTTT
*
2168521 TATTTTTTTAATTT
1 TATTTTTATAATTT
2168535 GTAGTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
15 8 0.29
17 11 0.39
19 9 0.32
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTTTATAATTTT
Found at i:2174494 original size:50 final size:50
Alignment explanation
Indices: 2174416--2174592 Score: 273
Period size: 50 Copynumber: 3.5 Consensus size: 50
2174406 CCATGGCAAC
*
2174416 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
*
2174466 AAATGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
* * *
2174516 AAGTGATAAGTAATAGCTCCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
* **
2174566 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTAATAGCTTCGGCTAC
2174593 CTGATCAGTG
Statistics
Matches: 116, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 94 0.81
51 22 0.19
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGA
Found at i:2174606 original size:31 final size:31
Alignment explanation
Indices: 2174568--2174716 Score: 253
Period size: 31 Copynumber: 4.8 Consensus size: 31
2174558 ACAAATGACA
2174568 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
2174599 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
2174630 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
2174661 AATGAAAAATGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
2174692 AATGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
2174717 AAGTGACAAG
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 112 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:2174804 original size:47 final size:46
Alignment explanation
Indices: 2174734--2174894 Score: 160
Period size: 47 Copynumber: 3.4 Consensus size: 46
2174724 AAGTGATTTC
* *
2174734 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * * *
2174780 CTGTATAAGACTATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * * * * *
2174827 CGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTA
1 CGTATAAGACCATATCTGGGATATGGCATCG--GTGAGATATATGA-TA
* *
2174876 CGTGTAAGACCATAGCTGG
1 CGTATAAGACCATATCTGG
2174895 CTATGACATC
Statistics
Matches: 97, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
46 26 0.27
47 40 0.41
48 11 0.11
49 20 0.21
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:2174897 original size:48 final size:48
Alignment explanation
Indices: 2174816--2174948 Score: 163
Period size: 48 Copynumber: 2.9 Consensus size: 48
2174806 GCATCAGTGA
*
2174816 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGT
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGATATGT
*
2174864 GATATGTGATTACGTGTAAGACCATAGCT-GGCTATGACATCGATATAT
1 GATATGTGATT-CGTGTAAGACCATAGCTGGGCTATGACATCGATATGT
* **
2174912 GA-A---GA-T-GTGTAAGACCATAGTTGAACTATGACATCGA
1 GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGA
2174949 GTAAACGAAG
Statistics
Matches: 78, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
41 15 0.19
42 12 0.15
43 1 0.01
44 2 0.03
47 1 0.01
48 30 0.38
49 17 0.22
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGCTGGGCTATGACATCGATATGT
Found at i:2193694 original size:18 final size:18
Alignment explanation
Indices: 2193671--2193709 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
2193661 CTGCTCCAGC
2193671 AAAGGACGCTAAAGATGG
1 AAAGGACGCTAAAGATGG
*
2193689 AAAGGATGCTAAAGATGG
1 AAAGGACGCTAAAGATGG
2193707 AAA
1 AAA
2193710 AGACTCGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.08, G:0.31, T:0.13
Consensus pattern (18 bp):
AAAGGACGCTAAAGATGG
Found at i:2203686 original size:31 final size:30
Alignment explanation
Indices: 2203628--2203695 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 30
2203618 AAAAAAATGA
2203628 TTATTAAATTATTGAAAAGTTTAATTTAA-
1 TTATTAAATTATTGAAAAGTTTAATTTAAG
*
2203657 TTCATTAAATTATTTG-AAAGTTTTTATTTAAG
1 TT-ATTAAATTA-TTGAAAAG-TTTAATTTAAG
2203689 TTATTAA
1 TTATTAA
2203696 GTTGTGTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
29 2 0.06
30 13 0.38
31 17 0.50
32 2 0.06
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.51
Consensus pattern (30 bp):
TTATTAAATTATTGAAAAGTTTAATTTAAG
Found at i:2204784 original size:31 final size:31
Alignment explanation
Indices: 2204723--2204784 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
2204713 TTAATTTGTA
* *
2204723 ATATACATGTGAATTTTAATTTTATGCAATT
1 ATATACATGTGAATTTGAATTTGATGCAATT
* *
2204754 ATATATATGT-AATTTGAATATTGATTCAATT
1 ATATACATGTGAATTTGAAT-TTGATGCAATT
2204785 TTTGCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.48
Consensus pattern (31 bp):
ATATACATGTGAATTTGAATTTGATGCAATT
Found at i:2214170 original size:13 final size:15
Alignment explanation
Indices: 2214137--2214173 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
2214127 AGTATTTTTT
*
2214137 TAATTTTAAAATATC
1 TAATTTTAAAATATA
2214152 TAATTTTAAAA-A-A
1 TAATTTTAAAATATA
2214165 TAATTTTAA
1 TAATTTTAA
2214174 CAATGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 1 0.05
15 11 0.52
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
TAATTTTAAAATATA
Found at i:2220201 original size:30 final size:30
Alignment explanation
Indices: 2220159--2220222 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
2220149 AACTTATATC
*
2220159 TTTATAATTTTTAAAGGATTAAATTAAAAT
1 TTTATAATTTTTAAAGGATTAAAATAAAAT
** *
2220189 TTTATTAA-TTTTAGGGGGTTAAAATAAAAT
1 TTTA-TAATTTTTAAAGGATTAAAATAAAAT
2220219 TTTA
1 TTTA
2220223 ACTTTATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (30 bp):
TTTATAATTTTTAAAGGATTAAAATAAAAT
Found at i:2228567 original size:32 final size:32
Alignment explanation
Indices: 2228531--2228598 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
2228521 CCAAACTACT
*
2228531 TTTAGGTTTAAATGTGCCTCTAGTCCCTGTTC
1 TTTAGGTTTAAATGTGCCTCTAGTCCCTGTAC
2228563 TTTAGGTTTAAATGTGCCTCTAGTCCCTGTAC
1 TTTAGGTTTAAATGTGCCTCTAGTCCCTGTAC
2228595 TTTA
1 TTTA
2228599 TGGAAATTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.44
Consensus pattern (32 bp):
TTTAGGTTTAAATGTGCCTCTAGTCCCTGTAC
Found at i:2237877 original size:56 final size:56
Alignment explanation
Indices: 2237791--2237901 Score: 204
Period size: 56 Copynumber: 2.0 Consensus size: 56
2237781 GATAAAGATC
*
2237791 GATTAACACAGTTCTTACGACCATTCCCTATTATGCACAGTAATAAGAAAAACAGT
1 GATTAACACAGTTCATACGACCATTCCCTATTATGCACAGTAATAAGAAAAACAGT
*
2237847 GATTAACACAGTTCATACGACCATTTCCTATTATGCACAGTAATAAGAAAAACAG
1 GATTAACACAGTTCATACGACCATTCCCTATTATGCACAGTAATAAGAAAAACAG
2237902 ATGCAAATGA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.26
Consensus pattern (56 bp):
GATTAACACAGTTCATACGACCATTCCCTATTATGCACAGTAATAAGAAAAACAGT
Found at i:2256591 original size:15 final size:15
Alignment explanation
Indices: 2256571--2256622 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
2256561 ATTACAAAAC
2256571 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
2256586 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
2256605 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
2256620 ATT
1 ATT
2256623 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:2256685 original size:16 final size:16
Alignment explanation
Indices: 2256654--2256690 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
2256644 ATGTGAATAA
2256654 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
2256670 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
2256686 TATTA
1 TATTA
2256691 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:2256734 original size:72 final size:73
Alignment explanation
Indices: 2256600--2256759 Score: 166
Period size: 72 Copynumber: 2.2 Consensus size: 73
2256590 ATAATTGTAA
* * *
2256600 TAAATATTTATTATTAAAATATTAATATTGAATATTTCAATAATATGTGAATAATATTATTTAAA
1 TAAA-ATTTATTATTAAAATA-TAATATTGAATATTTAAATAATATATGAATAATATAATTTAAA
*
2256665 ATTATTATTTT
64 ATTATTA-TAT
* * *
2256676 TAAAATTTATTATTAAAATA-AA-ATTGAA-ATATTAAATAATTTATTAA-AATAATAATTTATA
1 TAAAATTTATTATTAAAATATAATATTGAATAT-TTAAATAATATATGAATAAT-ATAATTTAAA
*
2256737 TTTATTATAT
64 ATTATTATAT
2256747 TAATAATTTATTA
1 TAA-AATTTATTA
2256760 CAAGATTAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
71 10 0.14
72 41 0.56
73 2 0.03
75 16 0.22
76 4 0.05
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.49
Consensus pattern (73 bp):
TAAAATTTATTATTAAAATATAATATTGAATATTTAAATAATATATGAATAATATAATTTAAAAT
TATTATAT
Found at i:2256740 original size:22 final size:22
Alignment explanation
Indices: 2256714--2256757 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2256704 ATATTAAATA
2256714 ATTTATTAAAATAATAATTTAT
1 ATTTATTAAAATAATAATTTAT
* *
2256736 ATTTATTATATTAATAATTTAT
1 ATTTATTAAAATAATAATTTAT
2256758 TACAAGATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTATTAAAATAATAATTTAT
Found at i:2258612 original size:135 final size:135
Alignment explanation
Indices: 2258451--2258880 Score: 655
Period size: 135 Copynumber: 3.2 Consensus size: 135
2258441 TACAGCCCCT
* * * * * * *
2258451 AAGCAAATATGGCGACTGGTTTCAGCTTCTAGTAATGCAACCAATAGCGAGCTGAAAAAGGATGA
1 AAGCAAAAATGGAGACCGGTTTCAGCTTCTAGTAATACGACTAATAGCGAGCTGAAAAAGGATAA
* * *
2258516 ACCTTTGGGATCATCCAGTAGTGATAGTTCTCAGAATTCTTGTCAAACAAATGGGGATTCAAGAA
66 ACCTTTGGAATCATCTAGTAGTGATAGTTCTCAGAATTCTTGTCAAGCAAATGGGGATTCAAGAA
2258581 CTGTA
131 CTGTA
* * * * *
2258586 AAGCAAAATTGGCA-ACCGATTTCAGCTTCCAGTAATACGAGTAATAGCAAGCTGAAAAAGGATA
1 AAGCAAAAATGG-AGACCGGTTTCAGCTTCTAGTAATACGACTAATAGCGAGCTGAAAAAGGATA
*
2258650 AACCTTTGGAATCATCTAGTAGTGATAATTCTCAGAATTCTTGTCAAGCAAATGGGGATTCAAGA
65 AACCTTTGGAATCATCTAGTAGTGATAGTTCTCAGAATTCTTGTCAAGCAAATGGGGATTCAAGA
2258715 ACTGTA
130 ACTGTA
2258721 AAGCAAAAATGGAGACCGGTTTCAGCTTCTAGTAATACGACTAATAGCGAGCTGAAAAAGGATAA
1 AAGCAAAAATGGAGACCGGTTTCAGCTTCTAGTAATACGACTAATAGCGAGCTGAAAAAGGATAA
* * * *
2258786 ACCTTTGGAATCATCTAGTAGTGATAGTTGTCAGAATTATTGTCAAGCGAACGGGGATTCAAGAA
66 ACCTTTGGAATCATCTAGTAGTGATAGTTCTCAGAATTCTTGTCAAGCAAATGGGGATTCAAGAA
*
2258851 TTGTA
131 CTGTA
2258856 AAGCAAAAATGGAGACCGGTTTCAG
1 AAGCAAAAATGGAGACCGGTTTCAG
2258881 GAGGCATTGT
Statistics
Matches: 266, Mismatches: 27, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
134 1 0.00
135 265 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (135 bp):
AAGCAAAAATGGAGACCGGTTTCAGCTTCTAGTAATACGACTAATAGCGAGCTGAAAAAGGATAA
ACCTTTGGAATCATCTAGTAGTGATAGTTCTCAGAATTCTTGTCAAGCAAATGGGGATTCAAGAA
CTGTA
Found at i:2266420 original size:21 final size:20
Alignment explanation
Indices: 2266381--2266420 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2266371 TAAAAACTAG
*
2266381 TTTTTTTTGTTTTGTTTTTC
1 TTTTTTTTGTTTTGGTTTTC
*
2266401 TTTTTTTTTTTTCTGGTTTT
1 TTTTTTTTGTTT-TGGTTTT
2266421 AATTTGCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (20 bp):
TTTTTTTTGTTTTGGTTTTC
Found at i:2270687 original size:9 final size:9
Alignment explanation
Indices: 2270651--2270693 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
2270641 GCCGTCATTC
2270651 ATGATC-TG
1 ATGATCATG
*
2270659 ATGATGATG
1 ATGATCATG
*
2270668 ATGATGATG
1 ATGATCATG
*
2270677 ATGATCTTG
1 ATGATCATG
2270686 ATGATCAT
1 ATGATCAT
2270694 CACTTGAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
8 5 0.17
9 25 0.83
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (9 bp):
ATGATCATG
Found at i:2270690 original size:3 final size:3
Alignment explanation
Indices: 2270657--2270681 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2270647 ATTCATGATC
2270657 TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
2270682 CTTGATGATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:2276052 original size:29 final size:29
Alignment explanation
Indices: 2276019--2276078 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
2276009 AATAAGCGTA
*
2276019 ATTATTTAAAAAAGTTTCAAAATGAATAC
1 ATTATCTAAAAAAGTTTCAAAATGAATAC
*
2276048 ATTATCTAAAAAGGTTTCAAAATGAATAC
1 ATTATCTAAAAAAGTTTCAAAATGAATAC
2276077 AT
1 AT
2276079 ACGTTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.33
Consensus pattern (29 bp):
ATTATCTAAAAAAGTTTCAAAATGAATAC
Found at i:2277848 original size:18 final size:18
Alignment explanation
Indices: 2277825--2277863 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
2277815 GAAATGTGAT
*
2277825 GAAAGTGAATAAATTGGA
1 GAAAGTGAATAAATAGGA
2277843 GAAAGTGAATAAATAGGA
1 GAAAGTGAATAAATAGGA
2277861 GAA
1 GAA
2277864 TATGTACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.28, T:0.18
Consensus pattern (18 bp):
GAAAGTGAATAAATAGGA
Found at i:2281967 original size:7 final size:7
Alignment explanation
Indices: 2281955--2281980 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2281945 TTTTTATATG
2281955 AAAAAGA
1 AAAAAGA
2281962 AAAAAGA
1 AAAAAGA
2281969 AAAAAGA
1 AAAAAGA
2281976 AAAAA
1 AAAAA
2281981 TAATGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:2282519 original size:21 final size:20
Alignment explanation
Indices: 2282475--2282520 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2282465 ATAAAAATAT
* *
2282475 TAAAATTTTTAATCTACTTT
1 TAAAATTTTTAATCTAATTA
*
2282495 TAAAATTTTTAGTCTAAATTA
1 TAAAATTTTTAATCT-AATTA
2282516 TAAAA
1 TAAAA
2282521 ATATTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (20 bp):
TAAAATTTTTAATCTAATTA
Found at i:2282519 original size:50 final size:50
Alignment explanation
Indices: 2282460--2282554 Score: 172
Period size: 50 Copynumber: 1.9 Consensus size: 50
2282450 ATTATTTATA
2282460 AAATTATAAAAATATTAAAATTTTTAATCTACTTTTAAAATTTTTAGTCT
1 AAATTATAAAAATATTAAAATTTTTAATCTACTTTTAAAATTTTTAGTCT
* *
2282510 AAATTATAAAAATATTAAAATTTTTAGTCTATTTTTAAAATTTTT
1 AAATTATAAAAATATTAAAATTTTTAATCTACTTTTAAAATTTTT
2282555 TGTAATTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (50 bp):
AAATTATAAAAATATTAAAATTTTTAATCTACTTTTAAAATTTTTAGTCT
Found at i:2309576 original size:32 final size:32
Alignment explanation
Indices: 2309533--2309597 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
2309523 GTGGGTATCT
*
2309533 TTAATTGTCTTATTTCTTGAATCTATCCATTC
1 TTAATTATCTTATTTCTTGAATCTATCCATTC
2309565 TTAATTATCTTATTTCTTGAATCTATCCATTC
1 TTAATTATCTTATTTCTTGAATCTATCCATTC
2309597 T
1 T
2309598 AGATCCAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.23, C:0.18, G:0.05, T:0.54
Consensus pattern (32 bp):
TTAATTATCTTATTTCTTGAATCTATCCATTC
Found at i:2309597 original size:16 final size:16
Alignment explanation
Indices: 2309546--2309597 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
2309536 ATTGTCTTAT
2309546 TTCTTGAATCTATCCA
1 TTCTTGAATCTATCCA
*
2309562 TTCTT-AAT-TATCTTA
1 TTCTTGAATCTATC-CA
2309577 TTTCTTGAATCTATCCA
1 -TTCTTGAATCTATCCA
2309594 TTCT
1 TTCT
2309598 AGATCCAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 4 0.13
15 4 0.13
16 14 0.47
17 4 0.13
18 4 0.13
ACGTcount: A:0.23, C:0.21, G:0.04, T:0.52
Consensus pattern (16 bp):
TTCTTGAATCTATCCA
Found at i:2310596 original size:10 final size:10
Alignment explanation
Indices: 2310581--2310605 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2310571 CTTTGGTGTA
2310581 TATATATATT
1 TATATATATT
2310591 TATATATATT
1 TATATATATT
2310601 TATAT
1 TATAT
2310606 CAATCAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TATATATATT
Found at i:2314327 original size:25 final size:28
Alignment explanation
Indices: 2314277--2314328 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 28
2314267 CAATATTTTT
*
2314277 GTATGAAAATTGATATGATAGGAAAATC
1 GTATGAAAATTGATATGATAGAAAAATC
2314305 GTATGAAAA-T-ATA-GATAGAAAAAT
1 GTATGAAAATTGATATGATAGAAAAAT
2314329 TTTACCGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 10 0.43
26 3 0.13
27 1 0.04
28 9 0.39
ACGTcount: A:0.52, C:0.02, G:0.19, T:0.27
Consensus pattern (28 bp):
GTATGAAAATTGATATGATAGAAAAATC
Found at i:2319065 original size:26 final size:26
Alignment explanation
Indices: 2319036--2319139 Score: 172
Period size: 26 Copynumber: 4.0 Consensus size: 26
2319026 ATTCCCATCT
*
2319036 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
2319062 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* * *
2319088 TGGAATATTTATCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
2319114 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
2319140 ATTTGTACCA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.34
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:2326065 original size:26 final size:25
Alignment explanation
Indices: 2326036--2326137 Score: 141
Period size: 26 Copynumber: 4.0 Consensus size: 25
2326026 TCCCATCTTG
*
2326036 GAACATTTACCTAAACCATTATCAT
1 GAACATTTACCTAACCCATTATCAT
2326061 AGAACATTTACCTAACCCATTATCAT
1 -GAACATTTACCTAACCCATTATCAT
* * *
2326087 GGAATATTTACCTAATCCATTATTAT
1 -GAACATTTACCTAACCCATTATCAT
2326113 GAAACATTTACCTAACCCATTATCA
1 G-AACATTTACCTAACCCATTATCA
2326138 ATTTGTACCA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
25 1 0.01
26 66 0.99
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (25 bp):
GAACATTTACCTAACCCATTATCAT
Found at i:2326107 original size:52 final size:52
Alignment explanation
Indices: 2326034--2326137 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 52
2326024 ATTCCCATCT
2326034 TGGAACATTTACCTAAACCATTATCAT-AGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAAACCATTATCATGA-AACATTTACCTAACCCATTATCA
* * *
2326086 TGGAATATTTACCTAATCCATTATTATGAAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATTATCA
2326138 ATTTGTACCA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
52 47 0.98
53 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.34
Consensus pattern (52 bp):
TGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCATTATCA
Found at i:2327416 original size:27 final size:27
Alignment explanation
Indices: 2327386--2327440 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
2327376 TGAGTCACAA
2327386 TATTCATGCTGCTATTGGTGCGGGTAT
1 TATTCATGCTGCTATTGGTGCGGGTAT
2327413 TATTCATGCTGCTATTGGTGCGGGTAT
1 TATTCATGCTGCTATTGGTGCGGGTAT
2327440 T
1 T
2327441 TGGACCCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.15, C:0.15, G:0.29, T:0.42
Consensus pattern (27 bp):
TATTCATGCTGCTATTGGTGCGGGTAT
Found at i:2332897 original size:30 final size:29
Alignment explanation
Indices: 2332831--2332910 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
2332821 TTAGTAAATC
*
2332831 TAAATTAATAACATATATTTATATATTTCCT
1 TAAATTAAT-A-ATATATTTATATATTACCT
*
2332862 TAAATTAATAATATATTTAGT-TGTTACCAT
1 TAAATTAATAATATATTTA-TATATTACC-T
*
2332892 TAAATTAATAACATATTTA
1 TAAATTAATAATATATTTA
2332911 AAAAAAAACT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
29 14 0.32
30 21 0.48
31 9 0.20
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (29 bp):
TAAATTAATAATATATTTATATATTACCT
Found at i:2334833 original size:33 final size:33
Alignment explanation
Indices: 2334791--2334854 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
2334781 TGCCCTATTG
2334791 TAACCTCCATTATTGTTCGACTCAATAACTCAA
1 TAACCTCCATTATTGTTCGACTCAATAACTCAA
2334824 TAACCTCCATTATTGTTCGACTCAATAACTC
1 TAACCTCCATTATTGTTCGACTCAATAACTC
2334855 TAACACCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (33 bp):
TAACCTCCATTATTGTTCGACTCAATAACTCAA
Found at i:2336086 original size:22 final size:22
Alignment explanation
Indices: 2336060--2336101 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
2336050 GTAAATACCC
2336060 TTTTGATCCATATCAATTTTCT
1 TTTTGATCCATATCAATTTTCT
*
2336082 TTTTGATCCCTATCAATTTT
1 TTTTGATCCATATCAATTTT
2336102 GAAAATAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.19, G:0.05, T:0.55
Consensus pattern (22 bp):
TTTTGATCCATATCAATTTTCT
Found at i:2338685 original size:214 final size:209
Alignment explanation
Indices: 2338429--2338929 Score: 817
Period size: 214 Copynumber: 2.4 Consensus size: 209
2338419 ATTAAAGTAA
* *
2338429 ATATATATATATAGAATCATATTAGTGAATCTGCTAATACATACCTCATCCGGATAAAGTATGCA
1 ATATATATATATATAATCATATTAGTGAATCTGCTAATACATACTTCATCCGGATAAAGTATGCA
*
2338494 TTATTAAAATTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTA-GAA
66 TTATTAAAATTAAACTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTA-TTAGGAA
*
2338558 AATAACTATTATTGTAATAAGATACATGTTTTATTAGGTATAAGTATTT-AAATTTTTGTTTTTA
130 AATAACTATTATTGTAATAAGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTTATTTTTA
2338622 TAATGTGATACATGC
195 TAATGTGATACATGC
* *
2338637 GTAAATCTATATATATATATAATCATATTAGTGAATCTACTAATACATACTTTATCCGGATAAAG
1 ----A--TATATATATATATAATCATATTAGTGAATCTGCTAATACATACTTCATCCGGATAAAG
*
2338702 TATGCATTGTTAAAATTAAACTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATT
60 TATGCATTATTAAAATTAAACTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATT
* *
2338767 AGGAAAATAACTATTATTGTAATGAGATACATGTTTTATTATGTATAAGTATTTAAAATTTTTAT
125 AGGAAAATAACTATTATTGTAATAAGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTTAT
*
2338832 TTTTGTAATGTGATACATGC
190 TTTTATAATGTGATACATGC
* *
2338852 ATAAATATATATATAATCATATTAGTGAATTTGCTAATACATACTTCATCCGGATAAAGTATGCA
1 ATATATATATATATAATCATATTAGTGAATCTGCTAATACATACTTCATCCGGATAAAGTATGCA
2338917 TTATTAAAATTAA
66 TTATTAAAATTAA
2338930 TGGTTTGTTT
Statistics
Matches: 270, Mismatches: 15, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
209 72 0.27
211 1 0.00
212 1 0.00
213 3 0.01
214 165 0.61
215 28 0.10
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.39
Consensus pattern (209 bp):
ATATATATATATATAATCATATTAGTGAATCTGCTAATACATACTTCATCCGGATAAAGTATGCA
TTATTAAAATTAAACTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTAGGAAA
ATAACTATTATTGTAATAAGATACATGTTTTATTAGGTATAAGTATTTAAAATTTTTATTTTTAT
AATGTGATACATGC
Found at i:2346276 original size:23 final size:22
Alignment explanation
Indices: 2346243--2346299 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
2346233 ATGTTATTTT
2346243 TTTAA-AATTTTAAAATTAATA
1 TTTAATAATTTTAAAATTAATA
* * *
2346264 TTTATATTATTTTTAATTTAATA
1 TTTA-ATAATTTTAAAATTAATA
2346287 TTTAATAATTTTA
1 TTTAATAATTTTA
2346300 TATATTTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 4 0.14
22 8 0.28
23 17 0.59
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTAATAATTTTAAAATTAATA
Found at i:2346436 original size:19 final size:19
Alignment explanation
Indices: 2346409--2346445 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2346399 TATGTGTTAT
*
2346409 AAATTACATAATATAAAAA
1 AAATAACATAATATAAAAA
*
2346428 AAATAACATAATGTAAAA
1 AAATAACATAATATAAAA
2346446 TATTATTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (19 bp):
AAATAACATAATATAAAAA
Found at i:2349101 original size:25 final size:26
Alignment explanation
Indices: 2349062--2349116 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
2349052 TTTTAATTTT
*
2349062 TTAAAAATTATTATATAA-TTTACAAC
1 TTAAAAATTAGTATA-AATTTTACAAC
*
2349088 TTAAAAATT-GTATAAATTTTATAAC
1 TTAAAAATTAGTATAAATTTTACAAC
2349113 TTAA
1 TTAA
2349117 TTCACATCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 2 0.08
25 15 0.58
26 9 0.35
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (26 bp):
TTAAAAATTAGTATAAATTTTACAAC
Found at i:2350242 original size:19 final size:20
Alignment explanation
Indices: 2350208--2350248 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
2350198 TACCTTTAGT
**
2350208 AATTTAAAATTTTAAA-AAA
1 AATTTAAAATCCTAAATAAA
2350227 AATTTAAAATCCTAAATAAA
1 AATTTAAAATCCTAAATAAA
2350247 AA
1 AA
2350249 ATTTTCATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
AATTTAAAATCCTAAATAAA
Found at i:2350346 original size:14 final size:16
Alignment explanation
Indices: 2350311--2350347 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
2350301 TGTTTCACTC
*
2350311 TTTAAATATAATAATT
1 TTTAAATATAATAATA
2350327 TTTAAATAT-AT-ATA
1 TTTAAATATAATAATA
2350341 TTTAAAT
1 TTTAAAT
2350348 GCAATCTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 2 0.10
16 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTAAATATAATAATA
Found at i:2352502 original size:3 final size:3
Alignment explanation
Indices: 2352494--2352550 Score: 87
Period size: 3 Copynumber: 19.0 Consensus size: 3
2352484 GTATATACAT
* * *
2352494 ATA ATA ATA ATG ATG ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2352542 ATA ATA ATA
1 ATA ATA ATA
2352551 TGAAAATACA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2360571 original size:30 final size:30
Alignment explanation
Indices: 2360535--2360596 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
2360525 GCTTATTTTA
*
2360535 TTATTAATTTTGTTATTATTTTAAAGACAT
1 TTATTAATTTTCTTATTATTTTAAAGACAT
* *
2360565 TTATTAATTTTCTTATTATTTTAGAGATAT
1 TTATTAATTTTCTTATTATTTTAAAGACAT
2360595 TT
1 TT
2360597 GCTTGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (30 bp):
TTATTAATTTTCTTATTATTTTAAAGACAT
Found at i:2360737 original size:12 final size:12
Alignment explanation
Indices: 2360720--2360754 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2360710 TATATTTTTT
*
2360720 AAAAATTATATA
1 AAAAATAATATA
2360732 AAAAATAATATA
1 AAAAATAATATA
*
2360744 AAAATTAATAT
1 AAAAATAATAT
2360755 GGGCGGGTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAAATAATATA
Found at i:2363321 original size:40 final size:42
Alignment explanation
Indices: 2363264--2363342 Score: 101
Period size: 40 Copynumber: 1.9 Consensus size: 42
2363254 TTTTATTTTT
*
2363264 TTTAGAAAACAATGAGAG-CACTC-CACAGTTTCTCATCCAG
1 TTTAGAAAACAAAGAGAGTCACTCACACAGTTTCTCATCCAG
*
2363304 TTTAGAAAA-AAGAGAGAGTTACTCAACACAGTTTCTCAT
1 TTTAGAAAACAA-AGAGAGTCACTC-ACACAGTTTCTCAT
2363343 ATACATGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
39 2 0.06
40 14 0.42
41 4 0.12
43 13 0.39
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (42 bp):
TTTAGAAAACAAAGAGAGTCACTCACACAGTTTCTCATCCAG
Found at i:2373537 original size:25 final size:26
Alignment explanation
Indices: 2373495--2373554 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
2373485 AAAACGAGGT
* *
2373495 AAGTTCACAGGCCCAGCTTG-GATGA
1 AAGTTCGCAAGCCCAGCTTGCGATGA
* *
2373520 AAGTTCGCAAGCCTAGCTTGCGATGT
1 AAGTTCGCAAGCCCAGCTTGCGATGA
*
2373546 AAGCTCGCA
1 AAGTTCGCA
2373555 GATCCAGCTC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 17 0.59
26 12 0.41
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.22
Consensus pattern (26 bp):
AAGTTCGCAAGCCCAGCTTGCGATGA
Found at i:2373563 original size:26 final size:24
Alignment explanation
Indices: 2373507--2373563 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 24
2373497 GTTCACAGGC
*
2373507 CCAGCTTGGATGAAAGTTCGCAAG
1 CCAGCTTGGATGAAAGCTCGCAAG
* *
2373531 CCTAGCTTGCGATGTAAGCTCGCAGAT
1 CC-AGCTTG-GATGAAAGCTCGCA-AG
2373558 CCAGCT
1 CCAGCT
2373564 CGCCACAGTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 2 0.07
25 6 0.22
26 16 0.59
27 3 0.11
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.23
Consensus pattern (24 bp):
CCAGCTTGGATGAAAGCTCGCAAG
Found at i:2375694 original size:51 final size:50
Alignment explanation
Indices: 2375569--2375694 Score: 123
Period size: 51 Copynumber: 2.5 Consensus size: 50
2375559 TTGATATAAC
* *
2375569 AACAAATTTAGCCCT-CAAAGTTTGCACATTATGTCAATTTGATATTGATTT
1 AACAAATTTAG-CCTGCAAA-TTTACACATTATGTCAATTTGATATTAATTT
* * *
2375620 AACAAATTTAG-CTCGTAATATTTACACATTTTGTCAATTTGGTCA-TAATTT
1 AACAAATTTAGCCT-GCAA-ATTTACACATTATGTCAATTTGAT-ATTAATTT
*
2375671 AATAAATTTAGCCTGCAACATTTA
1 AACAAATTTAGCCTGCAA-ATTTA
2375695 TACAGAATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
49 2 0.03
51 56 0.90
52 4 0.06
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (50 bp):
AACAAATTTAGCCTGCAAATTTACACATTATGTCAATTTGATATTAATTT
Found at i:2376293 original size:20 final size:19
Alignment explanation
Indices: 2376264--2376309 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 19
2376254 TAAGAGAGGT
*
2376264 AACCATAAACCTAAACATA
1 AACCATAAACCCAAACATA
2376283 AACCGATAAACCCAAACATA
1 AACC-ATAAACCCAAACATA
2376303 AACCATA
1 AACCATA
2376310 GAACGGTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.57, C:0.28, G:0.02, T:0.13
Consensus pattern (19 bp):
AACCATAAACCCAAACATA
Found at i:2380781 original size:40 final size:40
Alignment explanation
Indices: 2380737--2380963 Score: 319
Period size: 40 Copynumber: 5.7 Consensus size: 40
2380727 CCAACCCAAT
* * * ** *
2380737 TGCCTTCAGGATTTAGCCCGGATGTAACAACCAGCACAAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* *
2380777 TGCCTTCGGGACTTAACCCGAAAATAGCAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
2380817 TGCCTTCGGGACTTAACCCGGAAATAATAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* *
2380857 TGCCTTCGGGACTTAACTCGAAAATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* * *
2380897 TGCCTTCGGGACTTAACTCGGAAATAACAACTAGCATGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
2380937 TGCCTTCGGGACTTAACCCGGATATAA
1 TGCCTTCGGGACTTAACCCGGAAATAA
2380964 TCCTCAATTG
Statistics
Matches: 168, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 168 1.00
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
Found at i:2387993 original size:30 final size:29
Alignment explanation
Indices: 2387955--2388015 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
2387945 AAATTCCTCG
* *
2387955 AATTAAAAGTAAT-TGGACTGTAATGACAA
1 AATTAAAAG-AATAGGGACTGAAATGACAA
2387984 AATTGAAAAGAATAGGGACTGAAATGACAA
1 AATT-AAAAGAATAGGGACTGAAATGACAA
2388014 AA
1 AA
2388016 AAATAAGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.52, C:0.07, G:0.20, T:0.21
Consensus pattern (29 bp):
AATTAAAAGAATAGGGACTGAAATGACAA
Found at i:2389503 original size:20 final size:20
Alignment explanation
Indices: 2389465--2389504 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2389455 ATACTAAAAA
*
2389465 AATATAAAAAATAACAATAT
1 AATATAAAAAATAAAAATAT
2389485 AATATAAACAAA-AAAAATAT
1 AATATAAA-AAATAAAAATAT
2389505 TTTTTTTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (20 bp):
AATATAAAAAATAAAAATAT
Found at i:2389576 original size:11 final size:11
Alignment explanation
Indices: 2389562--2389596 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
2389552 TTCCTTCCCC
2389562 CTCCCTTCTCT
1 CTCCCTTCTCT
2389573 CTCCCTTCTCT
1 CTCCCTTCTCT
2389584 CTTCCC-TCTCT
1 C-TCCCTTCTCT
2389595 CT
1 CT
2389597 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:2390087 original size:3 final size:3
Alignment explanation
Indices: 2390063--2390130 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
2390053 AATATCCTTG
* * * *
2390063 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA GTA TTA TTA TTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* *
2390111 TTA GTA TATA TTT TTA TTA T
1 TTA TTA T-TA TTA TTA TTA T
2390131 GTACGTGTAT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2390140 original size:23 final size:23
Alignment explanation
Indices: 2390070--2390141 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
2390060 TTGTTATTTT
* *
2390070 TATATTATTAGTAT-TATTAGTA
1 TATATTATTATTATGTAGTAGTA
*
2390092 TTAGTATTATTATTATGTATTAGTA
1 -TA-TATTATTATTATGTAGTAGTA
*
2390117 TATATTTTTATTATGTACGT-GTA
1 TATATTATTATTATGTA-GTAGTA
2390140 TA
1 TA
2390142 CATATATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
23 21 0.49
24 14 0.33
25 8 0.19
ACGTcount: A:0.32, C:0.01, G:0.11, T:0.56
Consensus pattern (23 bp):
TATATTATTATTATGTAGTAGTA
Found at i:2390197 original size:13 final size:13
Alignment explanation
Indices: 2390149--2390198 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
2390139 ATACATATAT
2390149 ATATTTTCATATCTA
1 ATATTTT-AT-TCTA
*
2390164 ATATTTTTATT-TC
1 ATA-TTTTATTCTA
2390177 AT-TTTTATTCTA
1 ATATTTTATTCTA
2390189 ATATTTTATT
1 ATATTTTATT
2390199 AATCTTATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
11 7 0.23
12 3 0.10
13 10 0.33
14 1 0.03
15 5 0.17
16 4 0.13
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (13 bp):
ATATTTTATTCTA
Found at i:2390239 original size:3 final size:3
Alignment explanation
Indices: 2390231--2390260 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
2390221 TATTCCAATG
*
2390231 TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2390261 GTTTATGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:2390564 original size:19 final size:20
Alignment explanation
Indices: 2390527--2390588 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
2390517 ATTATCATTG
*
2390527 TATATATTTTATTATTATTA
1 TATATATTTTATCATTATTA
2390547 GT-TATATTTTA-CATTATTA
1 -TATATATTTTATCATTATTA
*
2390566 TATATATTTT-TCTAATATTA
1 TATATATTTTATC-ATTATTA
2390586 TAT
1 TAT
2390589 TGTATATACT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
18 1 0.03
19 16 0.44
20 18 0.50
21 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (20 bp):
TATATATTTTATCATTATTA
Found at i:2391000 original size:18 final size:19
Alignment explanation
Indices: 2390942--2391036 Score: 58
Period size: 18 Copynumber: 5.1 Consensus size: 19
2390932 ATATACGTAC
*
2390942 TTATACATACTTAAATATAT
1 TTAT-CATACTTACATATAT
* *
2390962 TTTTCATA-TTTCATA-ATT
1 TTATCATACTTACATATA-T
2390980 TTAT-ATACTTACATATAT
1 TTATCATACTTACATATAT
*
2390998 TTATGCATATTTTACATCATA-
1 TTAT-CATA-CTTACAT-ATAT
*
2391019 -TA-CATACTTATATATAT
1 TTATCATACTTACATATAT
2391036 T
1 T
2391037 CTTTATATTC
Statistics
Matches: 58, Mismatches: 8, Indels: 20
0.67 0.09 0.23
Matches are distributed among these distances:
16 3 0.05
17 9 0.16
18 24 0.41
19 5 0.09
20 8 0.14
21 6 0.10
22 3 0.05
ACGTcount: A:0.37, C:0.12, G:0.01, T:0.51
Consensus pattern (19 bp):
TTATCATACTTACATATAT
Found at i:2395407 original size:38 final size:37
Alignment explanation
Indices: 2395348--2395452 Score: 99
Period size: 37 Copynumber: 2.8 Consensus size: 37
2395338 CATTTTTAAG
**
2395348 AATAT-AAAGAATATATATAAGTATGTATATGATGTA-A
1 AATATGAAA-AATATATATAAGTATGTATAAAAT-TAGA
* * *
2395385 AATATGCATAAATATATGTAAGTATATA-AAAATTATGA
1 AATATG-AAAAATATATATAAGTATGTATAAAATTA-GA
*
2395423 AATATGAAAAATATATTTAAGTATGTATAA
1 AATATGAAAAATATATATAAGTATGTATAA
2395453 GTACGTATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
36 2 0.04
37 26 0.47
38 25 0.45
39 2 0.04
ACGTcount: A:0.52, C:0.01, G:0.11, T:0.35
Consensus pattern (37 bp):
AATATGAAAAATATATATAAGTATGTATAAAATTAGA
Found at i:2395788 original size:16 final size:16
Alignment explanation
Indices: 2395757--2395803 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
2395747 AACTATTTTC
*
2395757 TACACTACATAAATATA
1 TACAC-ACATATATATA
2395774 TACACACATATATATA
1 TACACACATATATATA
*
2395790 AACA-ACAGTATATA
1 TACACACA-TATATA
2395804 CAATATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 3 0.11
16 19 0.70
17 5 0.19
ACGTcount: A:0.53, C:0.17, G:0.02, T:0.28
Consensus pattern (16 bp):
TACACACATATATATA
Found at i:2395875 original size:18 final size:20
Alignment explanation
Indices: 2395818--2395864 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
2395808 ATAATATTAG
*
2395818 AAAATATATA-TAATAAT-GT
1 AAAATATA-ACTAATAATAAT
2395837 AAAATATAACTAATAATAAT
1 AAAATATAACTAATAATAAT
2395857 AAAATATA
1 AAAATATA
2395865 CAATGATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 1 0.04
19 15 0.60
20 9 0.36
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAATATAACTAATAATAAT
Found at i:2396141 original size:6 final size:6
Alignment explanation
Indices: 2396132--2396164 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
2396122 AACATAAACT
*
2396132 AATAAA AATAAA AATAAT AATAAA AATAAA AAT
1 AATAAA AATAAA AATAAA AATAAA AATAAA AAT
2396165 GATAACATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
AATAAA
Found at i:2396152 original size:18 final size:18
Alignment explanation
Indices: 2396131--2396169 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
2396121 AAACATAAAC
2396131 TAATAAAAATAAAAATAA
1 TAATAAAAATAAAAATAA
*
2396149 TAATAAAAATAAAAATGA
1 TAATAAAAATAAAAATAA
2396167 TAA
1 TAA
2396170 CATTGGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
TAATAAAAATAAAAATAA
Found at i:2396301 original size:3 final size:3
Alignment explanation
Indices: 2396287--2396337 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
2396277 AAATCTATAC
* * *
2396287 TAA TACA TAA TAA TAA TAC TAA TAC TAA TAA TAC TAA TAA T-A TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
2396332 AAA TAA
1 TAA TAA
2396338 CAAGGATATT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:2396317 original size:15 final size:15
Alignment explanation
Indices: 2396297--2396325 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2396287 TAATACATAA
2396297 TAATAATACTAATAC
1 TAATAATACTAATAC
2396312 TAATAATACTAATA
1 TAATAATACTAATA
2396326 ATATAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (15 bp):
TAATAATACTAATAC
Found at i:2396318 original size:9 final size:9
Alignment explanation
Indices: 2396287--2396328 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
2396277 AAATCTATAC
2396287 TAATACATAA
1 TAATAC-TAA
* *
2396297 TAATAATAC
1 TAATACTAA
2396306 TAATACTAA
1 TAATACTAA
2396315 TAATACTAA
1 TAATACTAA
2396324 TAATA
1 TAATA
2396329 TAAAAATAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
9 23 0.82
10 5 0.18
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (9 bp):
TAATACTAA
Found at i:2396815 original size:11 final size:12
Alignment explanation
Indices: 2396801--2396836 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
2396791 AAAAAAAAAA
2396801 GAAGAGAG-AGG
1 GAAGAGAGAAGG
2396812 GAAGAGAGAAGG
1 GAAGAGAGAAGG
2396824 G-AGAGAGAAGG
1 GAAGAGAGAAGG
2396835 GA
1 GA
2396837 GGGGGAAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:2396957 original size:10 final size:9
Alignment explanation
Indices: 2396944--2397002 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
2396934 TAAAAAAATA
2396944 TTTTTTTAT
1 TTTTTTTAT
2396953 TTTTTTTAT
1 TTTTTTTAT
*
2396962 TTTTTTTGT
1 TTTTTTTAT
* *
2396971 TTATATTA-
1 TTTTTTTAT
* *
2396979 TATTGTTAT
1 TTTTTTTAT
*
2396988 TTTTTATAT
1 TTTTTTTAT
2396997 TTTTTT
1 TTTTTT
2397003 AGTATATATA
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
8 5 0.13
9 33 0.87
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.81
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:2396988 original size:35 final size:34
Alignment explanation
Indices: 2396949--2397015 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
2396939 AAATATTTTT
* * *
2396949 TTATTTTTTTTATTTTTTTTGTTTATATTATATTG
1 TTATTTTTTATATTTTTTTAGTATATA-TATATTG
2396984 TTATTTTTTATATTTTTTTAGTATATATATAT
1 TTATTTTTTATATTTTTTTAGTATATATATAT
2397016 GGGAAAATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 5 0.17
35 24 0.83
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (34 bp):
TTATTTTTTATATTTTTTTAGTATATATATATTG
Found at i:2398090 original size:90 final size:87
Alignment explanation
Indices: 2397977--2398439 Score: 326
Period size: 87 Copynumber: 5.3 Consensus size: 87
2397967 CTTCAATCTA
* * *
2397977 CTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTCAATCTGCTCCATTGTAATCTCAGGGAG
1 CTCCACTGTAACCTCAGGGAGATAAGATT-CTATCTTCAATCTGCTCCACTGTAA-CTCAGGGAG
*
2398042 ATAAGATCTGAAATTTTTCGGTCTG
64 ATAAGATCTG-AATTCTTCGGTCTG
* ** *
2398067 TTCCACTGTAACCTCAGGGAGATAAGA-TCTATCATTTTGATCCGCTCCACTGTAACTTCAGGGA
1 CTCCACTGTAACCTCAGGGAGATAAGATTCTATC--TTCAATCTGCTCCACTGTAAC-TCAGGGA
* * *
2398131 GATAGGA--T-AGTGTCTTCGATCTG
63 GATAAGATCTGAAT-TCTTCGGTCTG
* * **
2398154 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAG
1 CTCCACTGTAACCTCAGGGAGATAAGAT-TCTATCTTCAATCTGCTCCACTGTAA-CTCAGGGAG
* * *
2398219 ATAAAATCTGGAATTCTCCGGTCTA
64 ATAAGATCT-GAATTCTTCGGTCTG
* * * * * * *
2398244 CTCCACTGTAACCTCAGGGAAATAAGA-CCTGAT-GT-GATCTTCTCTACTGTAACTTCAGAGAG
1 CTCCACTGTAACCTCAGGGAGATAAGATTCT-ATCTTCAATCTGCTCCACTGTAAC-TCAGGGAG
** *
2398306 ATAAGATC----TT-TT-AATCCG
64 ATAAGATCTGAATTCTTCGGTCTG
* * * * ** * *
2398324 CTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTTAGGGAG
1 CTCCACTGTAACCTCAGGGAGATAAGATT-CTATCTTCAATCTGCTCCACTGTAA-CTCAGGGAG
* * **
2398389 ATAAGATCT--CTGGCTTCAATCTG
64 ATAAGATCTGAAT-TCTTCGGTCTG
2398412 CTCCACTGTAACCTCAGGGAGATAAGAT
1 CTCCACTGTAACCTCAGGGAGATAAGAT
2398440 CTGAAATTTT
Statistics
Matches: 290, Mismatches: 60, Indels: 48
0.73 0.15 0.12
Matches are distributed among these distances:
80 24 0.08
81 3 0.01
82 5 0.02
83 28 0.10
84 1 0.00
85 1 0.00
86 3 0.01
87 92 0.32
88 39 0.13
89 7 0.02
90 85 0.29
91 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (87 bp):
CTCCACTGTAACCTCAGGGAGATAAGATTCTATCTTCAATCTGCTCCACTGTAACTCAGGGAGAT
AAGATCTGAATTCTTCGGTCTG
Found at i:2398094 original size:46 final size:43
Alignment explanation
Indices: 2397972--2398484 Score: 321
Period size: 44 Copynumber: 11.7 Consensus size: 43
2397962 ACTATCTTCA
* * * * *
2397972 ATCTACTCCGCTGTAATCTCAGGGAGATAAGAT-TACTATCTTCA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTA-T-TTTTCG
* *
2398016 ATCTGCTCCATTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT---ATTTTTCG
* *
2398062 GTCTGTTCCACTGTAACCTCAGGGAGATAAGATCTATCATTTT-G
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAT--TTTTCG
* * * *
2398106 ATCCGCTCCACTGTAACTTCAGGGAGATAGGA--TAGTGTCTTCG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTA-T-TTTTCG
* * * ** *
2398149 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAT-TTTTCG
* * *
2398193 ATCTGCTCCACTGTAACCTCAGGGAGATAAAATCTGGAATTCTCCG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT---ATTTTTCG
* * * * *
2398239 GTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGA--TGT-G
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT-ATTTTTCG
* * * * *
2398280 ATCTTCTCTACTGTAACTTCAGAGAGATAAGATC---TTTT-A
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTATTTTTCG
* * * * * *
2398319 ATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTT-G
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGA-T-CTATTTTTCG
* * * * ** *
2398363 ATCTGCTCCGCTGTAATCTTAGGGAGATAAGATCTCTGGCTTCA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAT-TTTTCG
*
2398407 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTTTTTG
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT---ATTTTTCG
* * *
2398453 GTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 ATCTGCTCCACTGTAACCTCAGGGAGATAAGA
2398485 CCTGTATAAT
Statistics
Matches: 364, Mismatches: 81, Indels: 46
0.74 0.16 0.09
Matches are distributed among these distances:
39 25 0.07
40 1 0.00
41 29 0.08
42 8 0.02
43 34 0.09
44 158 0.43
45 6 0.02
46 99 0.27
47 3 0.01
48 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (43 bp):
ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTATTTTTCG
Found at i:2398194 original size:177 final size:178
Alignment explanation
Indices: 2397922--2398270 Score: 488
Period size: 177 Copynumber: 2.0 Consensus size: 178
2397912 TAGATCCTTT
*
2397922 ATTTTAATCCACTCCGCTGTAATATCAGGCAGATAGGATTACTATCTTCAATCTACTCCGCTGTA
1 ATTTTAATCCACTCCACTGTAATATCAGGCAGATAGGATTACTATCTTCAATCTACTCCGCTGTA
* * * *
2397987 ATCTCAGGGAGATAAGATTACTATCTTCAATCTGCTCCATTGTAATCTCAGGGAGATAAGATCTG
66 ATCTCAGGGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAAATCTG
* * ** *
2398052 AAATTTTTCGGTCTGTTCCACTGTAACCTCAGGGAGATAAGATCTATC
131 AAATTCTCCGGTCTACTCCACTGTAACCTCAGGGAAATAAGATCTATC
* * * * * * *
2398100 ATTTTGATCCGCTCCACTGTAACT-TCAGGGAGATAGGA-TAGTGTCTTCGATCTGCTCCGCTGT
1 ATTTTAATCCACTCCACTGTAA-TATCAGGCAGATAGGATTACTATCTTCAATCTACTCCGCTGT
*
2398163 AATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAAATC
65 AATCTCAGGGAGATAAGAT-TACTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAAATC
*
2398227 TGGAATTCTCCGGTCTACTCCACTGTAACCTCAGGGAAATAAGA
129 TGAAATTCTCCGGTCTACTCCACTGTAACCTCAGGGAAATAAGA
2398271 CCTGATGTGA
Statistics
Matches: 150, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
177 116 0.77
178 33 0.22
179 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (178 bp):
ATTTTAATCCACTCCACTGTAATATCAGGCAGATAGGATTACTATCTTCAATCTACTCCGCTGTA
ATCTCAGGGAGATAAGATTACTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAAATCTG
AAATTCTCCGGTCTACTCCACTGTAACCTCAGGGAAATAAGATCTATC
Found at i:2398389 original size:214 final size:213
Alignment explanation
Indices: 2398101--2398488 Score: 607
Period size: 214 Copynumber: 1.8 Consensus size: 213
2398091 AGATCTATCA
* * * *
2398101 TTTTGATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAT
1 TTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGATCTGCTCCGCTGTAAT
*
2398166 CTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAAATCTGGA
66 CTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAAATCTGAA
2398231 ATTCTCCGGTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGATGTGATCTTCTCTACTGTAA
131 ATTCTCCGGTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGATGTGATCTTCTCTACTGTAA
2398296 CTTCAGAGAGATAAGATC
196 CTTCAGAGAGATAAGATC
* *
2398314 TTTTAATCCGCTCCATTGTAA-TCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTA
1 TTTTAATCCGCTCCACTGTAACT-TCAAGGAGATAGGA-TACTATCTTCGATCTGCTCCGCTGTA
* *
2398378 ATCTTAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTG
64 ATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAAATCTG
* ** ** * *
2398443 AAATTTTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG
129 AAATTCTCCGGTCTACTCCACTGTAACCTCAGGGAAATAAGACCTG
2398489 TATAATAAAC
Statistics
Matches: 157, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
212 1 0.01
213 32 0.20
214 124 0.79
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (213 bp):
TTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGATCTGCTCCGCTGTAAT
CTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAAATCTGAA
ATTCTCCGGTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGATGTGATCTTCTCTACTGTAA
CTTCAGAGAGATAAGATC
Found at i:2410803 original size:38 final size:36
Alignment explanation
Indices: 2410744--2410847 Score: 95
Period size: 38 Copynumber: 2.8 Consensus size: 36
2410734 CATTTTTAAG
* **
2410744 AATATAAAGAATATATATAAGTATGTATATGATGTA-A
1 AATATGAA-AATATATATAAGTATGTATAAAAT-TAGA
* *
2410781 AATATGCATAAATATATGTAAGTATATA-AAAATTATGA
1 AATATG-A-AAATATATATAAGTATGTATAAAATTA-GA
*
2410819 AATATGAAAATATATTTAAGTATGTATAA
1 AATATGAAAATATATATAAGTATGTATAA
2410848 GTACGTATAT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
36 19 0.35
37 11 0.20
38 24 0.44
39 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.12, T:0.36
Consensus pattern (36 bp):
AATATGAAAATATATATAAGTATGTATAAAATTAGA
Found at i:2411236 original size:17 final size:17
Alignment explanation
Indices: 2411214--2411278 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
2411204 TAATATTAGA
2411214 AAAATATATAATAATGT
1 AAAATATATAATAATGT
*
2411231 AAAATATAACTAATAATAAT
1 AAAATAT-A-TAATAAT-GT
*
2411251 AAAATATAT-ACAATGAT
1 AAAATATATAATAATG-T
*
2411268 AATATATATAA
1 AAAATATATAA
2411279 AGATATATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
17 20 0.51
18 3 0.08
19 8 0.21
20 8 0.21
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
AAAATATATAATAATGT
Found at i:2411246 original size:19 final size:19
Alignment explanation
Indices: 2411214--2411327 Score: 63
Period size: 20 Copynumber: 5.7 Consensus size: 19
2411204 TAATATTAGA
*
2411214 AAAATAT-ATAATAAT-GT
1 AAAATATAATAATAATAAT
2411231 AAAATATAACTAATAATAAT
1 AAAATATAA-TAATAATAAT
* *
2411251 AAAATATATACAATGATAAT
1 AAAATATA-ATAATAATAAT
* * *
2411271 ATATATAAAGATATATGTATATAT
1 A-AAATATA-ATA-AT-AATA-AT
* *
2411295 AATTATATAAT-ATAATATT
1 AA-AATATAATAATAATAAT
2411314 AAAATATAATAATA
1 AAAATATAATAATA
2411328 CGACATAAAA
Statistics
Matches: 75, Mismatches: 12, Indels: 18
0.71 0.11 0.17
Matches are distributed among these distances:
17 7 0.09
18 8 0.11
19 13 0.17
20 21 0.28
21 10 0.13
22 2 0.03
23 6 0.08
24 8 0.11
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.36
Consensus pattern (19 bp):
AAAATATAATAATAATAAT
Found at i:2411320 original size:18 final size:19
Alignment explanation
Indices: 2411200--2411324 Score: 62
Period size: 20 Copynumber: 6.2 Consensus size: 19
2411190 CAGTATATAC
*
2411200 AATATAATAT-TAGAAAAAT
1 AATATAATATATA-AAATAT
*
2411219 -ATATAATAATGTAAAATAT
1 AATATAAT-ATATAAAATAT
2411238 AACTAATAATA-ATAAAATATAT
1 AA-T-ATAATATAT-AAA-ATAT
*
2411260 ACAATGATAATATATATAAAGAT
1 --AAT-ATAATATATA-AAATAT
* *
2411283 -ATATGTATATATAATTATAT
1 AATAT-AATATATAA-AATAT
2411303 AATATAATAT-TAAAATAT
1 AATATAATATATAAAATAT
2411321 AATA
1 AATA
2411325 ATACGACATA
Statistics
Matches: 83, Mismatches: 9, Indels: 29
0.69 0.07 0.24
Matches are distributed among these distances:
18 15 0.18
19 13 0.16
20 20 0.24
21 9 0.11
22 9 0.11
23 11 0.13
24 6 0.07
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (19 bp):
AATATAATATATAAAATAT
Found at i:2411535 original size:6 final size:6
Alignment explanation
Indices: 2411526--2411558 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
2411516 AACATAAACT
*
2411526 AATAAA AATAAA AATAAT AATAAA AATAAA AAT
1 AATAAA AATAAA AATAAA AATAAA AATAAA AAT
2411559 GATAACATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
AATAAA
Found at i:2411546 original size:18 final size:18
Alignment explanation
Indices: 2411525--2411563 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
2411515 AAACATAAAC
2411525 TAATAAAAATAAAAATAA
1 TAATAAAAATAAAAATAA
*
2411543 TAATAAAAATAAAAATGA
1 TAATAAAAATAAAAATAA
2411561 TAA
1 TAA
2411564 CATTGGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
TAATAAAAATAAAAATAA
Found at i:2411695 original size:3 final size:3
Alignment explanation
Indices: 2411681--2411730 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
2411671 AAATCTATAC
* *
2411681 TAA TACA TAA TAA TAA TAC TAA T-A TAA TAA TAC TAA TAA T-A TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
2411725 AAA TAA
1 TAA TAA
2411731 CAAGGATATT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 4 0.11
3 31 0.82
4 3 0.08
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:2411709 original size:17 final size:17
Alignment explanation
Indices: 2411677--2411730 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
2411667 ATAAAAATCT
2411677 ATACTAATACATAATAATA
1 ATACTAAT--ATAATAATA
2411696 ATACTAATATAATAATA
1 ATACTAATATAATAATA
* * *
2411713 CTAATAATATAAAAATA
1 ATACTAATATAATAATA
2411730 A
1 A
2411731 CAAGGATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 23 0.74
19 8 0.26
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (17 bp):
ATACTAATATAATAATA
Found at i:2411724 original size:14 final size:15
Alignment explanation
Indices: 2411687--2411721 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
2411677 ATACTAATAC
2411687 ATAATAATAATACTA
1 ATAATAATAATACTA
2411702 AT-ATAATAATACTA
1 ATAATAATAATACTA
2411716 ATAATA
1 ATAATA
2411722 TAAAAATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAATAATAATACTA
Found at i:2412209 original size:11 final size:12
Alignment explanation
Indices: 2412195--2412230 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
2412185 AAAAAAAAAA
2412195 GAAGAGAG-AGG
1 GAAGAGAGAAGG
2412206 GAAGAGAGAAGG
1 GAAGAGAGAAGG
2412218 G-AGAGAGAAGG
1 GAAGAGAGAAGG
2412229 GA
1 GA
2412231 GGGGGGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Done.