Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold192
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: 2196177
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 12544 characters in sequence are not A, C, G, or T
File 4 of 14
Found at i:541333 original size:17 final size:16
Alignment explanation
Indices: 541311--541356 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
541301 AATTTTGTAT
541311 TATTTATTTAGGATAAA
1 TATTTATTTA-GATAAA
541328 TATTTAATTTCA-ATAAA
1 TATTT-ATTT-AGATAAA
541345 TATTTATTTAGA
1 TATTTATTTAGA
541357 CAAGAATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 5 0.19
17 15 0.58
18 4 0.15
19 1 0.04
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (16 bp):
TATTTATTTAGATAAA
Found at i:543929 original size:20 final size:19
Alignment explanation
Indices: 543879--543930 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
543869 TATAATTCTT
*
543879 TATGTATTGATACAATGAA
1 TATGTATTGATACAAAGAA
* *
543898 TATGCATCGATACAAAGCAA
1 TATGTATTGATACAAAG-AA
543918 TATGTATTGATAC
1 TATGTATTGATAC
543931 TTCTAGGCCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (19 bp):
TATGTATTGATACAAAGAA
Found at i:543943 original size:20 final size:21
Alignment explanation
Indices: 543920--543958 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
543910 CAAAGCAATA
*
543920 TGTATTGATAC-TTCTAGGCC
1 TGTATCGATACTTTCTAGGCC
543940 TGTATCGATACTTTCTAGG
1 TGTATCGATACTTTCTAGG
543959 GTTTTGACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (21 bp):
TGTATCGATACTTTCTAGGCC
Found at i:544566 original size:22 final size:21
Alignment explanation
Indices: 544540--544608 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
544530 CAAATTATAA
544540 CTCCCCTTTAATTAAAAATTTT
1 CTCCCCTTTAA-TAAAAATTTT
*
544562 CTCCCCTTTAATGAAAATTTT
1 CTCCCCTTTAATAAAAATTTT
**
544583 C-CCTTTTTAA-AAAATATCTTT
1 CTCCCCTTTAATAAAA-AT-TTT
544604 CTCCC
1 CTCCC
544609 TTTTTGTTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 3 0.08
20 9 0.23
21 14 0.36
22 13 0.33
ACGTcount: A:0.29, C:0.26, G:0.01, T:0.43
Consensus pattern (21 bp):
CTCCCCTTTAATAAAAATTTT
Found at i:544580 original size:21 final size:22
Alignment explanation
Indices: 544540--544583 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
544530 CAAATTATAA
544540 CTCCCCTTTAATTAAAAATTTT
1 CTCCCCTTTAATTAAAAATTTT
*
544562 CTCCCCTTTAA-TGAAAATTTT
1 CTCCCCTTTAATTAAAAATTTT
544583 C
1 C
544584 CCTTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.30, C:0.25, G:0.02, T:0.43
Consensus pattern (22 bp):
CTCCCCTTTAATTAAAAATTTT
Found at i:546149 original size:23 final size:23
Alignment explanation
Indices: 546123--546170 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
546113 TTTGGTTTAG
546123 GCCTTTTTACGAACAGTTAGTGA
1 GCCTTTTTACGAACAGTTAGTGA
*
546146 GCCTTTTTACGAATAGTTAGTGA
1 GCCTTTTTACGAACAGTTAGTGA
546169 GC
1 GC
546171 ACTACTTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (23 bp):
GCCTTTTTACGAACAGTTAGTGA
Found at i:550159 original size:28 final size:28
Alignment explanation
Indices: 550119--550189 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
550109 GAATAAAGCT
* **
550119 GGGGTTGGAGTATCCCC-TTGGAGGTAAC
1 GGGGTTGGAGTATCCCCGAT-GAAATAAC
550147 GGGGTTGGAGTATCCCCGATGAAATAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
*
550175 GAGGTTGGAGTATCC
1 GGGGTTGGAGTATCC
550190 TCAATTGTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAC
Found at i:550264 original size:53 final size:53
Alignment explanation
Indices: 550198--550300 Score: 138
Period size: 53 Copynumber: 1.9 Consensus size: 53
550188 CCTCAATTGT
* * *
550198 GAAAAATTGGTGTTTTTGGAAAT-AAAATCGGAGTT-GGAGTATCTCCGATTAAA
1 GAAAAATTAGTG-TTTTGAAAATAAAAATCGGAGTTGGGA-TATCCCCGATTAAA
*
550251 GAAAAATTAGTGTTTTGAAAATAAAAATCGTAGTTGGGATATCCCCGATT
1 GAAAAATTAGTGTTTTGAAAATAAAAATCGGAGTTGGGATATCCCCGATT
550301 GTGGAGAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
52 9 0.20
53 32 0.73
54 3 0.07
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (53 bp):
GAAAAATTAGTGTTTTGAAAATAAAAATCGGAGTTGGGATATCCCCGATTAAA
Found at i:552684 original size:13 final size:13
Alignment explanation
Indices: 552666--552691 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
552656 CAAAAAATAG
552666 ATGTATCGATACA
1 ATGTATCGATACA
552679 ATGTATCGATACA
1 ATGTATCGATACA
552692 CAGAAAAATG
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:552753 original size:13 final size:13
Alignment explanation
Indices: 552735--552786 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
552725 AGCTTCCTAG
552735 CGATACATTGTAT
1 CGATACATTGTAT
552748 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
552767 CGATACATTGTAT
1 CGATACATTGTAT
552780 CGATACA
1 CGATACA
552787 ACATTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:552767 original size:19 final size:18
Alignment explanation
Indices: 552743--552807 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
552733 AGCGATACAT
552743 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAA-TTA
552762 TGTATCGATAC---A-T-
1 TGTATCGATACAAAATTA
*
552775 TGTATCGATACAACATTTA
1 TGTATCGATACAA-AATTA
552794 TGTATCGATACAAA
1 TGTATCGATACAAA
552808 TCGCTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 1 0.03
18 2 0.05
19 24 0.62
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAAATTA
Found at i:552776 original size:32 final size:32
Alignment explanation
Indices: 552735--552805 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
552725 AGCTTCCTAG
552735 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* *
552767 CGATACATTGTATCGATACAACATTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
552799 CGATACA
1 CGATACA
552806 AATCGCTGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:552867 original size:21 final size:20
Alignment explanation
Indices: 552843--552915 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 20
552833 GTTAGGACCC
*
552843 TGTATCGATACATT-AGTAGAA
1 TGTATCGATACATTCA-CA-AA
552864 TGTATCGATACATTCCACAAA
1 TGTATCGATACATT-CACAAA
552885 TGTATCGATACATTCCACAAA
1 TGTATCGATACATT-CACAAA
552906 TGTATCGATA
1 TGTATCGATA
552916 TATTTGGATA
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
21 47 0.96
22 1 0.02
23 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATTCACAAA
Found at i:555045 original size:20 final size:20
Alignment explanation
Indices: 555020--555094 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
555010 TTTTACCTAG
*
555020 ATGTATCAATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
555040 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
555060 ATGTATCGGTACATTTTTTA
1 ATGTATCGATACATTTTTCA
555080 ATGTATCGATACATT
1 ATGTATCGATACATT
555095 CTGTTTTGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:555135 original size:20 final size:20
Alignment explanation
Indices: 555110--555160 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
555100 TTGTTACCCA
*
555110 GATGTATCGATACATTATTT
1 GATGTATCGATACATTATTC
555130 GATGTATCGATACATTATTC
1 GATGTATCGATACATTATTC
*
555150 AATGTATCGAT
1 GATGTATCGAT
555161 CCATCTAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (20 bp):
GATGTATCGATACATTATTC
Found at i:558696 original size:21 final size:21
Alignment explanation
Indices: 558649--558690 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
558639 GGTTAGAACC
558649 TAATTTTTAGGAGGAAGTGAG
1 TAATTTTTAGGAGGAAGTGAG
558670 TAATTTTTAGGAGGAAGTGAG
1 TAATTTTTAGGAGGAAGTGAG
558691 CTATTTGCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (21 bp):
TAATTTTTAGGAGGAAGTGAG
Found at i:569140 original size:1 final size:1
Alignment explanation
Indices: 569131--569187 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
569121 CTCAAAAAGC
* * * * * * *
569131 AAAACAAAAAACAAAAAAACAAAAAAACAAAAAAACAAAAACAAAAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
569188 TGGGAAGGGT
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:569149 original size:8 final size:8
Alignment explanation
Indices: 569131--569187 Score: 89
Period size: 8 Copynumber: 7.1 Consensus size: 8
569121 CTCAAAAAGC
569131 AAAAC-AA
1 AAAACAAA
569138 AAAACAAA
1 AAAACAAA
569146 AAAACAAA
1 AAAACAAA
569154 AAAACAAA
1 AAAACAAA
569162 AAAACAAA
1 AAAACAAA
*
569170 AACAAAAAA
1 AA-AACAAA
569179 AAAACAAA
1 AAAACAAA
569187 A
1 A
569188 TGGGAAGGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
7 5 0.11
8 34 0.74
9 7 0.15
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAACAAA
Found at i:569163 original size:17 final size:17
Alignment explanation
Indices: 569136--569187 Score: 81
Period size: 17 Copynumber: 3.1 Consensus size: 17
569126 AAAGCAAAAC
569136 AAAAAACAAAAAAAC-A
1 AAAAAACAAAAAAACAA
569152 AAAAAACAAAAAAACAA
1 AAAAAACAAAAAAACAA
569169 AAACAAA-AAAAAAACAA
1 AAA-AAACAAAAAAACAA
569186 AA
1 AA
569188 TGGGAAGGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
16 15 0.44
17 16 0.47
18 3 0.09
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAACAAAAAAACAA
Found at i:569187 original size:7 final size:7
Alignment explanation
Indices: 569131--569182 Score: 63
Period size: 7 Copynumber: 7.3 Consensus size: 7
569121 CTCAAAAAGC
569131 AAAACAA
1 AAAACAA
569138 AAAACAAA
1 AAAAC-AA
569146 AAAACAAA
1 AAAAC-AA
569154 AAAACAA
1 AAAACAA
569161 AAAA-ACA
1 AAAACA-A
569168 AAAACAA
1 AAAACAA
569175 AAAA-AA
1 AAAACAA
569181 AA
1 AA
569183 CAAAATGGGA
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
6 5 0.12
7 21 0.50
8 16 0.38
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAACAA
Found at i:570506 original size:28 final size:28
Alignment explanation
Indices: 570476--570939 Score: 522
Period size: 28 Copynumber: 16.5 Consensus size: 28
570466 TACGACACCT
* ** * *
570476 TTTCACAGCCCATGAGTCAATGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
570504 TTTCAAAGTCCACAAGTTAGTGGTACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
570532 TTTCAAAGCCCACAAATCAATGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
570560 TTACCAAGCCCACAAGTCAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
570588 TTTCAAAGCCCAAAAGTC-GTGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
570614 TTTTCAAAGCCCATAAGTCAGTGGCATCA
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
* * *
570643 TTTCAAAGCCCACAAGTTAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
570671 TTTCAAAGCCCACGAGTCAGTGGCATCCC
1 TTTCAAAGCCCACAAGTCAGTGGCAT-CC
*
570700 TTTTCAAAGCCCACAAGTCAGTTGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
570729 TTTTAAAGCCAACAAGTTAGTAGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
570757 TTTCAAAGCCCACGAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
570785 ATTTTCAAAGCCCACAAGTCAGTGGCATCC
1 --TTTCAAAGCCCACAAGTCAGTGGCATCC
570815 TTTCAAA-CCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
**
570842 TTTCAAAGCCCATGAGTCAGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
570869 TTTTCAGAGCCCACAAGTCAATGGCTTCT
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
570898 TTTTAAAGCCCGCAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
570926 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
570940 GAAGTCGATC
Statistics
Matches: 364, Mismatches: 62, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.01
27 51 0.14
28 254 0.70
29 6 0.02
30 51 0.14
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCC
Found at i:570873 original size:169 final size:167
Alignment explanation
Indices: 570476--570939 Score: 588
Period size: 169 Copynumber: 2.8 Consensus size: 167
570466 TACGACACCT
* ** * * * * * *
570476 TTTCACAGCCCATGAGTCAATGGCATCTTTTCAAAGTCCACAAGTTAGTGGTACCCTTTCAAAGC
1 TTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACGAGTCAGTGGCACCTTTTCAAAGC
* *** * * *
570541 CCACAAATCAATGGCATCCTTACCAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCAAAAGTC
66 CCACAAGTCAATGGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTC
*
570606 GTGGCACCTTTTCAAAGCCCATAAGTCAGTGGCATCA
131 GTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCA
* *
570643 TTTCAAAGCCCACAAGTTAATGGCACCCTTTCAAAGCCCACGAGTCAGTGGCATCCCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACGAGTCAGTGGCA--CCTTTTCAAA
* * * * * *
570708 GCCCACAAGTCAGTTGCATCCTTTTAAAGCCAACAAGTTAGTAGCATCCTTTCAAAGCCCACGAG
64 GCCCACAAGTCAATGGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAG
*
570773 TCAGTGGCATCCATTTTCAAAGCCCACAAGTCAGTGGCATCC
129 TC-GTGGCA-CC-TTTTCAAAGCCCACAAGTCAGTGGCATCA
* * *
570815 TTTCAAA-CCCACAAGTCAGTGGCATCCTTTCAAAGCCCATGAGTCAGTGGCACCTTTTCAGAGC
1 TTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACGAGTCAGTGGCACCTTTTCAAAGC
* * *
570879 CCACAAGTCAATGGCTTCTTTTTAAAGCCCGCAAGTCAGTGGCATCCTTTCAAAGCCCACA
66 CCACAAGTCAATGGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACA
570940 GAAGTCGATC
Statistics
Matches: 252, Mismatches: 40, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
167 43 0.17
169 126 0.50
170 6 0.02
171 43 0.17
172 34 0.13
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (167 bp):
TTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACGAGTCAGTGGCACCTTTTCAAAGC
CCACAAGTCAATGGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTC
GTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCA
Found at i:572098 original size:20 final size:20
Alignment explanation
Indices: 572034--572107 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
572024 TTTTACCCAG
572034 ATGTATCGATACA-TTTTTA
1 ATGTATCGATACATTTTTTA
* *** *
572053 ATGTATCAATACATGCATGA
1 ATGTATCGATACATTTTTTA
572073 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTTA
*
572093 ACGTATCGATACATT
1 ATGTATCGATACATT
572108 CTGTTTTGAT
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
19 12 0.28
20 31 0.72
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTTA
Found at i:577064 original size:20 final size:20
Alignment explanation
Indices: 577009--577065 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
576999 TTTTACCTAG
* * *
577009 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
577029 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
*
577049 ATGTATCGATATATTTT
1 ATGTATCGATACATTTT
577066 GTTTTGTTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:577511 original size:13 final size:12
Alignment explanation
Indices: 577493--577531 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
577483 GATCTTTTTT
*
577493 TTTTCAACCACA
1 TTTTCAGCCACA
*
577505 CTTTTCAGCCATA
1 -TTTTCAGCCACA
577518 TTTTCAGCCACA
1 TTTTCAGCCACA
577530 TT
1 TT
577532 ACCACTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.26, C:0.31, G:0.05, T:0.38
Consensus pattern (12 bp):
TTTTCAGCCACA
Found at i:580352 original size:13 final size:13
Alignment explanation
Indices: 580334--580359 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
580324 CATTTTGGGA
580334 TGTATCGATACAT
1 TGTATCGATACAT
580347 TGTATCGATACAT
1 TGTATCGATACAT
580360 CTTGTGTGTA
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:580356 original size:33 final size:32
Alignment explanation
Indices: 580314--580377 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
580304 TACAAGCCAA
*
580314 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGGG-TGTATCGATACAT
*
580347 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
580378 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:580477 original size:13 final size:13
Alignment explanation
Indices: 580459--580483 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
580449 ATATTTGGTC
580459 ATGTATCGATACA
1 ATGTATCGATACA
580472 ATGTATCGATAC
1 ATGTATCGATAC
580484 TGCGCAATAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:589099 original size:13 final size:13
Alignment explanation
Indices: 589081--589106 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
589071 CATTTTGGGA
589081 TGTATCGATACAT
1 TGTATCGATACAT
589094 TGTATCGATACAT
1 TGTATCGATACAT
589107 CTTGTGTGTA
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:589103 original size:33 final size:32
Alignment explanation
Indices: 589061--589124 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
589051 TACAAGCCAA
*
589061 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGGG-TGTATCGATACAT
*
589094 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
589125 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:589191 original size:21 final size:20
Alignment explanation
Indices: 589167--589218 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
589157 CCAAACACCT
*
589167 GTATCGATACATTCTTAACAA
1 GTATCGATACATT-TGAACAA
* * *
589188 GTATCGATATATTTGATCAT
1 GTATCGATACATTTGAACAA
589208 GTATCGATACA
1 GTATCGATACA
589219 ATGTATTGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (20 bp):
GTATCGATACATTTGAACAA
Found at i:592697 original size:33 final size:33
Alignment explanation
Indices: 592639--592706 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
592629 CATTGGGCAT
* * *
592639 AATGTATCGATACTTTTTACTATGTATCAATAC
1 AATGTATCGATACTATGTACCATGTATCAATAC
* *
592672 AATGTATCGATACTATGTCCCATGTATCGATAC
1 AATGTATCGATACTATGTACCATGTATCAATAC
592705 AA
1 AA
592707 ACAATGGTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.37
Consensus pattern (33 bp):
AATGTATCGATACTATGTACCATGTATCAATAC
Found at i:593890 original size:20 final size:20
Alignment explanation
Indices: 593865--593988 Score: 90
Period size: 20 Copynumber: 5.7 Consensus size: 20
593855 CTTTAACTAG
593865 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
593885 ATGTATCGATACATGTAGGTAAAAAGACAGA
1 ATGTATCGATACAT-T--G-----A-A-A-A
*
593916 ATGTATCGATATATT-AAAGA
1 ATGTATCGATACATTGAAA-A
* * *
593936 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
593956 ATGTATCGATACATTG-AAA
1 ATGTATCGATACATTGAAAA
593975 ATGTATCGATACAT
1 ATGTATCGATACAT
593989 CTGGGTAAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 25
0.73 0.06 0.21
Matches are distributed among these distances:
19 15 0.18
20 46 0.54
21 4 0.05
22 1 0.01
23 1 0.01
28 1 0.01
29 1 0.01
30 2 0.02
31 14 0.16
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:595040 original size:28 final size:28
Alignment explanation
Indices: 594904--595436 Score: 496
Period size: 28 Copynumber: 18.5 Consensus size: 28
594894 CACCAACTTG
* *
594904 TGTGGGCTTTAGAGAAGGTTGCCACCAACTT
1 TGTGGGCTTT-GA-AAGGATGCCACTAAC-T
* * *
594935 GTGTGGGCTTTAAAAAGGTTGCCACTGACCT
1 -TGTGGGCTTT-GAAAGGATGCCACT-AACT
* * *
594966 GTGTGGGCTTTAAAGAAGGTTGCCACCAACTT
1 -TGTGGGCTTT-GA-AAGGATGCCACTAAC-T
* *
594998 GTGTGGGCTTCGAAAGGGTGCCACTAACT
1 -TGTGGGCTTTGAAAGGATGCCACTAACT
* *
595027 TATGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
*
595055 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
** * *
595083 TGTGGGCTTCAAAAGGGTGTCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
* *
595111 TGTGGGCTTTGAGAGAGGTTGCCACCAACTT
1 TGTGGGCTTTGA-A-AGGATGCCACTAAC-T
* **
595142 GTGTGGGC-TT-AAAGGGGTGCTGCTAACT
1 -TGTGGGCTTTGAAA-GGATGCCACTAACT
* *
595170 TGTGGGCTTCGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
* * * *
595198 TGTGGGCTTTGAGAGGATGCTACTGACA
1 TGTGGGCTTTGAAAGGATGCCACTAACT
* * *
595226 TATGGGCTTTGAAAGGATGCCACTGACA
1 TGTGGGCTTTGAAAGGATGCCACTAACT
595254 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
* *
595282 TGTGGGCTTTGAAAAGATGCCACTAACA
1 TGTGGGCTTTGAAAGGATGCCACTAACT
* *
595310 TGTGGGCTTTGAAAGGTTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
*
595338 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTAACT
* *
595366 TGTGCGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTAACT
* * * *
595394 TATGGGCATTGAGAAAGATGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTAACT
*
595423 TATGGGCTTTGAAA
1 TGTGGGCTTTGAAA
595437 AGGGTCGTAT
Statistics
Matches: 436, Mismatches: 52, Indels: 30
0.84 0.10 0.06
Matches are distributed among these distances:
27 8 0.02
28 286 0.66
29 42 0.10
30 25 0.06
31 32 0.07
32 43 0.10
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTAACT
Found at i:602267 original size:22 final size:21
Alignment explanation
Indices: 602242--602282 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
602232 TTCTTTTTTT
602242 GTTTGTTTTTTCTATTTTTTGG
1 GTTT-TTTTTTCTATTTTTTGG
* *
602264 GTTTTTTTTTTTGTTTTTT
1 GTTTTTTTTTCTATTTTTT
602283 TTTGTATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.02, C:0.02, G:0.15, T:0.80
Consensus pattern (21 bp):
GTTTTTTTTTCTATTTTTTGG
Found at i:603452 original size:15 final size:14
Alignment explanation
Indices: 603425--603458 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
603415 TCGGGTTTTG
*
603425 AAAAAATTTGAAAT
1 AAAAAATTCGAAAT
603439 AAAACAATTCGAAAT
1 AAAA-AATTCGAAAT
603454 AAAAA
1 AAAAA
603459 GAGATTAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (14 bp):
AAAAAATTCGAAAT
Found at i:604149 original size:13 final size:13
Alignment explanation
Indices: 604131--604156 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
604121 CAATTTTTTG
604131 TGTATCGATACAT
1 TGTATCGATACAT
604144 TGTATCGATACAT
1 TGTATCGATACAT
604157 ACTTTGGTGT
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:604153 original size:33 final size:33
Alignment explanation
Indices: 604111--604174 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
604101 TACAAGCCAA
* *
604111 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
604144 TGTATCGATACATACTTTGGTGTATCGATAC
1 TGTATCGATACATACTTTGGTGTATCGATAC
604175 TAGTTTGGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:604271 original size:20 final size:20
Alignment explanation
Indices: 604228--604282 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
604218 CATATTTTTG
*
604228 ATGTATCGATACATTGCAAC
1 ATGTATCGATACTTTGCAAC
*
604248 ATGTATCGATACTTTG-AATT
1 ATGTATCGATACTTTGCAA-C
*
604268 ATGTATCAATACTTT
1 ATGTATCGATACTTT
604283 TAAGGGTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACTTTGCAAC
Found at i:606553 original size:13 final size:13
Alignment explanation
Indices: 606535--606560 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
606525 TACAGCAAGT
606535 ATGTATCGATACA
1 ATGTATCGATACA
606548 ATGTATCGATACA
1 ATGTATCGATACA
606561 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:608811 original size:21 final size:21
Alignment explanation
Indices: 608778--608822 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
608768 TTGCAAGTTG
*
608778 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
608800 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
608820 AAA
1 AAA
608823 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:610646 original size:15 final size:15
Alignment explanation
Indices: 610626--610656 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
610616 TAAAAATGTC
*
610626 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
610641 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
610656 C
1 C
610657 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:612754 original size:13 final size:13
Alignment explanation
Indices: 612736--612761 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
612726 ACATTTTTCT
612736 TTGTATCGATACA
1 TTGTATCGATACA
612749 TTGTATCGATACA
1 TTGTATCGATACA
612762 GGGTGATTAT
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):
TTGTATCGATACA
Found at i:615326 original size:13 final size:13
Alignment explanation
Indices: 615308--615333 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
615298 TACAGCAAGT
615308 ATGTATCGATACA
1 ATGTATCGATACA
615321 ATGTATCGATACA
1 ATGTATCGATACA
615334 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:616672 original size:13 final size:13
Alignment explanation
Indices: 616654--616715 Score: 97
Period size: 13 Copynumber: 4.8 Consensus size: 13
616644 ATAATCCCCC
*
616654 TGTATCGATACAG
1 TGTATCGATACAA
*
616667 TGTATCGATGCAA
1 TGTATCGATACAA
*
616680 TGTATCGATACAG
1 TGTATCGATACAA
616693 TGTATCGATACAA
1 TGTATCGATACAA
616706 TGTATCGATA
1 TGTATCGATA
616716 GAAAGAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:616683 original size:26 final size:26
Alignment explanation
Indices: 616654--616715 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
616644 ATAATCCCCC
*
616654 TGTATCGATACAGTGTATCGATGCAA
1 TGTATCGATACAGTGTATCGATACAA
616680 TGTATCGATACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
616706 TGTATCGATA
1 TGTATCGATA
616716 GAAAGAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (26 bp):
TGTATCGATACAGTGTATCGATACAA
Found at i:622923 original size:13 final size:13
Alignment explanation
Indices: 622905--622930 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
622895 TAATTTTTTG
622905 TGTATCGATACAT
1 TGTATCGATACAT
622918 TGTATCGATACAT
1 TGTATCGATACAT
622931 ACTTTGGTGT
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:623045 original size:20 final size:20
Alignment explanation
Indices: 623002--623056 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
622992 CATATTTTTG
*
623002 ATGTATCGATACATTGCAAC
1 ATGTATCGATACTTTGCAAC
*
623022 ATGTATCGATACTTTG-AATT
1 ATGTATCGATACTTTGCAA-C
*
623042 ATGTATTGATACTTT
1 ATGTATCGATACTTT
623057 TAAGGGTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACTTTGCAAC
Found at i:639022 original size:3 final size:3
Alignment explanation
Indices: 639008--639050 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
638998 CAAATTCTAA
* *
639008 TAT TAC TAT TAT TAT TAT TAT TAT TAT T-T TAT TTT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
639051 ACTATATATG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:642439 original size:20 final size:21
Alignment explanation
Indices: 642414--642468 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
642404 GTATCGATAC
**
642414 AATGTATCGATACATG-ACTA
1 AATGTATCGATACATGAAAAA
*
642434 AATGTATCGATACTTGAAAAA
1 AATGTATCGATACATGAAAAA
642455 AATGTATCGATACA
1 AATGTATCGATACA
642469 AGTCATTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:642534 original size:20 final size:19
Alignment explanation
Indices: 642491--642539 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
642481 TAGCTAAACT
**
642491 TGTATCGATACACACAGTA
1 TGTATCGATACACACAAAA
*
642510 TGTATCGATACACCATAAAA
1 TGTATCGATACA-CACAAAA
642530 TGTATCGATA
1 TGTATCGATA
642540 TATTGGCTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (19 bp):
TGTATCGATACACACAAAA
Found at i:644144 original size:9 final size:9
Alignment explanation
Indices: 644130--644160 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
644120 CATCAAGGAC
644130 GATGAAGAT
1 GATGAAGAT
644139 GATGAAGAT
1 GATGAAGAT
*
644148 GATGATGAT
1 GATGAAGAT
644157 GATG
1 GATG
644161 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:649068 original size:20 final size:20
Alignment explanation
Indices: 649043--649097 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
649033 GTAGCACCCA
*
649043 CCAGGTCGCGACCGGCACTC
1 CCAGGTCGCAACCGGCACTC
* *
649063 CCAGGTCGCAATCAGCACTC
1 CCAGGTCGCAACCGGCACTC
649083 CCAGGTCGCAACCGG
1 CCAGGTCGCAACCGG
649098 GCAGCCCCCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.20, C:0.42, G:0.27, T:0.11
Consensus pattern (20 bp):
CCAGGTCGCAACCGGCACTC
Found at i:650428 original size:23 final size:19
Alignment explanation
Indices: 650386--650423 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
650376 AATAAATTTT
650386 TATGATTAAGGGGGAGAAA
1 TATGATTAAGGGGGAGAAA
650405 TATGATTAAGGGGGAGAAA
1 TATGATTAAGGGGGAGAAA
650424 GAAATGGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.21
Consensus pattern (19 bp):
TATGATTAAGGGGGAGAAA
Found at i:651182 original size:13 final size:13
Alignment explanation
Indices: 651164--651188 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
651154 ACACATAGTA
651164 TGTATCGATACAT
1 TGTATCGATACAT
651177 TGTATCGATACA
1 TGTATCGATACA
651189 CCATAAAATG
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:651185 original size:32 final size:33
Alignment explanation
Indices: 651144--651211 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
651134 ATAGCTAAAC
**
651144 TTGTATCGATACA-CATAGTATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
651176 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
651209 TTG
1 TTG
651212 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:654048 original size:13 final size:13
Alignment explanation
Indices: 654030--654055 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
654020 TACACAAAGT
654030 ATGTATCGATACA
1 ATGTATCGATACA
654043 ATGTATCGATACA
1 ATGTATCGATACA
654056 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:654053 original size:32 final size:33
Alignment explanation
Indices: 654012--654075 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
654002 TAGCCAAACT
**
654012 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
654044 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
654076 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:660416 original size:20 final size:20
Alignment explanation
Indices: 660373--660418 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
660363 AAATCTTTTG
660373 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
660394 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
660414 CAAAA
1 CAAAA
660419 CTAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:662787 original size:13 final size:13
Alignment explanation
Indices: 662769--662794 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
662759 TACACAAAGT
662769 ATGTATCGATACA
1 ATGTATCGATACA
662782 ATGTATCGATACA
1 ATGTATCGATACA
662795 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:662792 original size:32 final size:33
Alignment explanation
Indices: 662751--662814 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
662741 TAGCCAAACT
**
662751 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
662783 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
662815 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:666535 original size:13 final size:13
Alignment explanation
Indices: 666517--666543 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
666507 ACATTATGCT
666517 TTGTATCGATACA
1 TTGTATCGATACA
666530 TTGTATCGATACA
1 TTGTATCGATACA
666543 T
1 T
666544 ACTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:666552 original size:19 final size:19
Alignment explanation
Indices: 666528--666584 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
666518 TGTATCGATA
666528 CATTGTATCGATACAT-AC
1 CATTGTATCGATACATGAC
*
666546 TCATTGTATCGGTACATGGAC
1 -CATTGTATCGATACAT-GAC
*
666567 AATTGTATCGATACATGA
1 CATTGTATCGATACATGA
666585 GATTGGCAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 17 0.52
20 14 0.42
21 2 0.06
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
CATTGTATCGATACATGAC
Found at i:666651 original size:13 final size:13
Alignment explanation
Indices: 666633--666681 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
666623 CATGGGACAA
666633 TGTATCGATACAT
1 TGTATCGATACAT
666646 TGTATCGATACA-
1 TGTATCGATACAT
*
666658 TG-A-GGA-A-AT
1 TGTATCGATACAT
666667 TGTATCGATACAT
1 TGTATCGATACAT
666680 TG
1 TG
666682 CTTGTAACGG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 3 0.10
11 3 0.10
12 3 0.10
13 16 0.55
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:666673 original size:34 final size:33
Alignment explanation
Indices: 666615--666681 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
666605 TCACTATTTA
666615 TATCAATACATGGGACAATGTATCGATACATTG
1 TATCAATACATGGGACAATGTATCGATACATTG
*
666648 TATCGATACATGAGGA-AATTGTATCGATACATTG
1 TATCAATACATG-GGACAA-TGTATCGATACATTG
666682 CTTGTAACGG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (33 bp):
TATCAATACATGGGACAATGTATCGATACATTG
Found at i:667702 original size:80 final size:80
Alignment explanation
Indices: 667567--667717 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
667557 ATCCTCAAGT
* * * * *
667567 TGAAAATTTTAATATTTTGGAAGTAAAAATAGGGTTAGAGTATCCTTTCAGAAATGGT-AGGGTT
1 TGAAAATTTTAATAGTTTGAAAGTAAAAATAGGGTTAGAGTATCCCTTCAAAAATGATGA-GGTT
667631 GGAGTATTCACGATGG
65 GGAGTATTCACGATGG
* * *
667647 TGAAAATTTTGATAGTTTGAAAGTAAAAATGGGGTTCGAGTATCTCCTT-AAAAATGATGAGGTT
1 TGAAAATTTTAATAGTTTGAAAGTAAAAATAGGGTTAGAGTATC-CCTTCAAAAATGATGAGGTT
667711 GGAGTAT
65 GGAGTAT
667718 CCCCTTAAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 57 0.93
81 4 0.07
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (80 bp):
TGAAAATTTTAATAGTTTGAAAGTAAAAATAGGGTTAGAGTATCCCTTCAAAAATGATGAGGTTG
GAGTATTCACGATGG
Found at i:667715 original size:28 final size:28
Alignment explanation
Indices: 667678--667747 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
667668 AGTAAAAATG
* *
667678 GGGTTCGAGTATCTCCTTAAAAATGAT-
1 GGGTTGGAGTATCCCCTTAAAAATGATA
*
667705 GAGGTTGGAGTATCCCCTTAAAAATGGTA
1 G-GGTTGGAGTATCCCCTTAAAAATGATA
667734 GGGTTGGAGTATCC
1 GGGTTGGAGTATCC
667748 TCGATGGTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.03
28 36 0.95
29 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCTTAAAAATGATA
Found at i:667739 original size:108 final size:108
Alignment explanation
Indices: 667618--667829 Score: 293
Period size: 108 Copynumber: 2.0 Consensus size: 108
667608 ATCCTTTCAG
* *** *
667618 AAATGGTAGGGTTGGAGTATTCACGATGGTGAAAATTTTGATAGTTTGAAAGTAAAAATGGGGTT
1 AAATGGTAGGGTTGGAGTATCCACGATGGTGAAAAAAATGATAGTTTGAAAGTAAAAACGGGGTT
* *
667683 CGAGTA-TCTCCTTAAAAATGAT-GAGGTTGGAGTATCCCCTTAA
66 AGAGTATTC-CCTCAAAAATGATAGA-GTTGGAGTATCCCCTTAA
* * *
667726 AAATGGTAGGGTTGGAGTATCCTCGATGGTGAAAAAAATGATATTTTGGAAGTAAAAACGGGGTT
1 AAATGGTAGGGTTGGAGTATCCACGATGGTGAAAAAAATGATAGTTTGAAAGTAAAAACGGGGTT
*
667791 AGAGTATTCCCTCGAAAATGATAGAGTTGGAGTATCCCC
66 AGAGTATTCCCTCAAAAATGATAGAGTTGGAGTATCCCC
667830 GATGGTGAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
108 87 0.96
109 4 0.04
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.29
Consensus pattern (108 bp):
AAATGGTAGGGTTGGAGTATCCACGATGGTGAAAAAAATGATAGTTTGAAAGTAAAAACGGGGTT
AGAGTATTCCCTCAAAAATGATAGAGTTGGAGTATCCCCTTAA
Found at i:668023 original size:161 final size:158
Alignment explanation
Indices: 667706--668068 Score: 419
Period size: 161 Copynumber: 2.3 Consensus size: 158
667696 AAAAATGATG
667706 AGGTTGGAGTATCCCCTTAAAAATGGTAGGGTTGGAGTATCCTCGATGGTGAAAAAAATGATATT
1 AGGTTGGAGTATCCCC-T-AAAATGGTAGGGTTGGAGTATCCTCGATGGTGAAAAAAATGATATT
*
667771 TTGGAAGTAAAAACGGGGTTAGAGTATTCCCTCGAAAATGATAGAGTTGGAGTATCCCCGATGGT
64 TTGGAAGTAAAAACGGGGTTAGAGTATTCCCTCGAAAATGATAGAGTTGGAGTATCCCCAATGGT
* * *
667836 GAAAATTTTGATATTTTGGGAGTAAAAGCA
129 GAAAATTTTGATATTTTAGAAGTAAAAACA
* *** *
667866 AGGTTGGAGTATCCCCTAAGAAGTGGTAAGGTTGGAGTATCCTCGATGGTGAAAAGTTTGATGGT
1 AGGTTGGAGTATCCCCTAA-AA-TGGTAGGGTTGGAGTATCCTCGATGGTGAAAAAAATGAT-AT
* * * * * * *
667931 TTTGGAAGTGAAAAA-GGGGTTGGAGTA-TCCTCTTGGAGATGGTGGGGTTGGAGT-TACCCCAA
63 TTTGGAAGT-AAAAACGGGGTTAGAGTATTCC-CTCGAAAATGATAGAGTTGGAGTAT-CCCCAA
*
667993 TGGTGAACAA-TTTGATATTTTAGAAGTAAAAACG
125 TGGTGAA-AATTTTGATATTTTAGAAGTAAAAACA
* * *
668027 GGGTTGGAATATCCCCTCGAAAATGATAGGGTTGGAGTATCC
1 AGGTTGGAGTATCCCCT--AAAATGGTAGGGTTGGAGTATCC
668069 CCAAATATAA
Statistics
Matches: 173, Mismatches: 21, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
158 2 0.01
159 3 0.02
160 55 0.32
161 102 0.59
162 9 0.05
163 2 0.01
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.29
Consensus pattern (158 bp):
AGGTTGGAGTATCCCCTAAAATGGTAGGGTTGGAGTATCCTCGATGGTGAAAAAAATGATATTTT
GGAAGTAAAAACGGGGTTAGAGTATTCCCTCGAAAATGATAGAGTTGGAGTATCCCCAATGGTGA
AAATTTTGATATTTTAGAAGTAAAAACA
Found at i:668085 original size:80 final size:80
Alignment explanation
Indices: 667707--668070 Score: 403
Period size: 80 Copynumber: 4.5 Consensus size: 80
667697 AAAATGATGA
** * **
667707 GGTTGGAGTATCCCCTTAAAAATGGTAGGGTTGGAGTATCCTCGATGGTGAAAAAAATGATATTT
1 GGTTGGAGTATCCCCTCGAAAATGGTAGGGTTGGAGTATCCCCGATGGTGAAAAATTTGATATTT
667772 TGGAAGTAAAAACGG
66 TGGAAGTAAAAACGG
* * * * *
667787 GGTTAGAGTATTCCCTCGAAAATGATAGAGTTGGAGTATCCCCGATGGTGAAAATTTTGATATTT
1 GGTTGGAGTATCCCCTCGAAAATGGTAGGGTTGGAGTATCCCCGATGGTGAAAAATTTGATATTT
* * **
667852 TGGGAGTAAAAGCAA
66 TGGAAGTAAAAACGG
* * * *
667867 GGTTGGAGTATCCCCT--AAGAAGTGGTAAGGTTGGAGTATCCTCGATGGTGAAAAGTTTGATGG
1 GGTTGGAGTATCCCCTCGAA-AA-TGGTAGGGTTGGAGTATCCCCGATGGTGAAAAATTTGAT-A
667930 TTTTGGAAGTGAAAAA-GG
63 TTTTGGAAGT-AAAAACGG
* * * * * * *
667948 GGTTGGAGTATCCTCTTGGAGATGGTGGGGTTGGAGT-TACCCCAATGGTGAACAATTTGATATT
1 GGTTGGAGTATCCCCTCGAAAATGGTAGGGTTGGAGTAT-CCCCGATGGTGAAAAATTTGATATT
*
668012 TTAGAAGTAAAAACGG
65 TTGGAAGTAAAAACGG
* *
668028 GGTTGGAATATCCCCTCGAAAATGATAGGGTTGGAGTATCCCC
1 GGTTGGAGTATCCCCTCGAAAATGGTAGGGTTGGAGTATCCCC
668071 AAATATAAAA
Statistics
Matches: 231, Mismatches: 44, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
78 2 0.01
79 7 0.03
80 160 0.69
81 56 0.24
82 5 0.02
83 1 0.00
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.29
Consensus pattern (80 bp):
GGTTGGAGTATCCCCTCGAAAATGGTAGGGTTGGAGTATCCCCGATGGTGAAAAATTTGATATTT
TGGAAGTAAAAACGG
Found at i:671837 original size:19 final size:20
Alignment explanation
Indices: 671794--671843 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
671784 CCAGAGAAAC
*
671794 TATCGATACATATTGTTTAG
1 TATCGATACATATTGCTTAG
* *
671814 TATCGATACATGTT-CTTGG
1 TATCGATACATATTGCTTAG
671833 TATCGATACAT
1 TATCGATACAT
671844 CATGAATTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (20 bp):
TATCGATACATATTGCTTAG
Found at i:671933 original size:24 final size:24
Alignment explanation
Indices: 671901--671950 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
671891 TAATTGATAC
* *
671901 ATTACTATTCATCACTGTTTATGT
1 ATTACTATTCATCACTATTCATGT
671925 ATTACTATTCATCACTATTCATGT
1 ATTACTATTCATCACTATTCATGT
671949 AT
1 AT
671951 CGATACATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.48
Consensus pattern (24 bp):
ATTACTATTCATCACTATTCATGT
Found at i:672510 original size:30 final size:31
Alignment explanation
Indices: 672417--672513 Score: 106
Period size: 36 Copynumber: 3.0 Consensus size: 31
672407 TTAAGTGATT
672417 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATTGAGA
1 GAGAGGTTCTATCTTAGCC-TTG--AAAGA-T-AGA
* *
672453 GAGAGGTTCTATCTTAGCCCGTGAAAGATAGG
1 GAGAGGTTCTATCTTAG-CCTTGAAAGATAGA
*
672485 GA-AGTTTCTATCTTAGCCTTGAAAGATAG
1 GAGAGGTTCTATCTTAGCCTTGAAAGATAG
672514 TATTGTAAGA
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
30 12 0.21
31 13 0.23
32 4 0.07
33 1 0.02
34 5 0.09
36 19 0.34
37 2 0.04
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (31 bp):
GAGAGGTTCTATCTTAGCCTTGAAAGATAGA
Found at i:674100 original size:21 final size:21
Alignment explanation
Indices: 674076--674134 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
674066 TGTTGTTCTT
*
674076 GAAAAGAAATTAAATGAATTA
1 GAAAAGAAAATAAATGAATTA
674097 GAAAAGAAAATAAATGAATTA
1 GAAAAGAAAATAAATGAATTA
** *
674118 GAGGAGAAAAGAAATGA
1 GAAAAGAAAATAAATGA
674135 GTTGCAACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAATTA
Found at i:676368 original size:68 final size:66
Alignment explanation
Indices: 676163--676384 Score: 212
Period size: 68 Copynumber: 3.3 Consensus size: 66
676153 ATAGCATCTC
* * * * **
676163 TGAGTGACACCAAGTCACTTATGCTAATAAATGACCTCAAAAGCTTGATCGACACCTTAGCATAT
1 TGAGTGACACCAAGTCACTTATG-TAATAAATGA-CTTAAAAGTTTGCTCAACATTTTAGCATAT
**
676228 AGG
64 AAA
** * * ** * * *
676231 CAAGTGACACCAAGTCACGTATGTCGATAAACAACTTAAAAGTCTT-CTCAATATTTCAACATAT
1 TGAGTGACACCAAGTCACTTATGT-AATAAATGACTTAAAAGT-TTGCTCAACATTTTAGCATAT
676295 AAA
64 AAA
* *
676298 TGAGTGACACCAAGTCACTTATGATAATAAATGACTTTAAAGGTTTGCTCAACATTTTGGCATAT
1 TGAGTGACACCAAGTCACTTATG-TAATAAATGAC-TTAAAAGTTTGCTCAACATTTTAGCATAT
676363 AAA
64 AAA
676366 TGAGTGACACCAAGTCACT
1 TGAGTGACACCAAGTCACT
676385 ACAACACATG
Statistics
Matches: 121, Mismatches: 28, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
67 49 0.40
68 72 0.60
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.27
Consensus pattern (66 bp):
TGAGTGACACCAAGTCACTTATGTAATAAATGACTTAAAAGTTTGCTCAACATTTTAGCATATAA
A
Found at i:684701 original size:32 final size:33
Alignment explanation
Indices: 684638--684705 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
684628 CGTTACAAGC
*
684638 CAATGTATCGATACATTTGGTCATGTATCGATA
1 CAATGCATCGATACATTTGGTCATGTATCGATA
684671 CAATGCATCGATACATCTT-GT-ATGTATCGATA
1 CAATGCATCGATACAT-TTGGTCATGTATCGATA
684703 CAA
1 CAA
684706 ACAGTTAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.42
33 17 0.52
34 2 0.06
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (33 bp):
CAATGCATCGATACATTTGGTCATGTATCGATA
Found at i:684792 original size:13 final size:13
Alignment explanation
Indices: 684774--684798 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
684764 TACAGTGGTC
684774 ATGTATCGATACA
1 ATGTATCGATACA
684787 ATGTATCGATAC
1 ATGTATCGATAC
684799 TCTGCATTAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:687293 original size:13 final size:13
Alignment explanation
Indices: 687275--687303 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
687265 AAATAGTACC
687275 CAATGTATCGATA
1 CAATGTATCGATA
687288 CAATGTATCGATA
1 CAATGTATCGATA
687301 CAA
1 CAA
687304 GGAATGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:693474 original size:33 final size:32
Alignment explanation
Indices: 693432--693499 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
693422 CGTTACAAGC
693432 CAATGTATCGATACAT-TTGGTCATGCATCGATA
1 CAATGTATCGATACATCTT-GT-ATGCATCGATA
*
693465 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGCATCGATA
693497 CAA
1 CAA
693500 ACAATTAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 18 0.55
34 2 0.06
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGCATCGATA
Found at i:693586 original size:13 final size:13
Alignment explanation
Indices: 693568--693625 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
693558 TACAGTGGTC
693568 ATGTATCGATACA
1 ATGTATCGATACA
693581 ATGTATCGATAC-
1 ATGTATCGATACA
* *
693593 -TGT-GC-AT--T
1 ATGTATCGATACA
693601 ATGTATCGATACA
1 ATGTATCGATACA
693614 ATGTATCGATAC
1 ATGTATCGATAC
693626 TGTGCATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
9 5 0.14
10 2 0.06
11 5 0.14
13 24 0.67
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:693606 original size:20 final size:20
Alignment explanation
Indices: 693581--693645 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
693571 TATCGATACA
693581 ATGTATCGATACTGTGCATT
1 ATGTATCGATACTGTGCATT
693601 ATGTATCGATA-----CA--
1 ATGTATCGATACTGTGCATT
693614 ATGTATCGATACTGTGCATT
1 ATGTATCGATACTGTGCATT
693634 ATGTATCGATAC
1 ATGTATCGATAC
693646 ATCTGAAGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
18 2 0.05
20 23 0.61
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACTGTGCATT
Found at i:693610 original size:33 final size:33
Alignment explanation
Indices: 693551--693646 Score: 158
Period size: 33 Copynumber: 2.9 Consensus size: 33
693541 ATCTTTGCAA
* * *
693551 GTATCGATACAGTG-GTCATGTATCGATACAAT
1 GTATCGATACTGTGCATTATGTATCGATACAAT
693583 GTATCGATACTGTGCATTATGTATCGATACAAT
1 GTATCGATACTGTGCATTATGTATCGATACAAT
693616 GTATCGATACTGTGCATTATGTATCGATACA
1 GTATCGATACTGTGCATTATGTATCGATACA
693647 TCTGAAGGTG
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 13 0.22
33 47 0.78
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (33 bp):
GTATCGATACTGTGCATTATGTATCGATACAAT
Found at i:695384 original size:195 final size:196
Alignment explanation
Indices: 695044--695413 Score: 634
Period size: 195 Copynumber: 1.9 Consensus size: 196
695034 CTTTCTCTAA
* *
695044 TTAGTATTAATGGCTATGTGCTCAAAATATCAATGAATCATAAGTAAAAGTAAAATCAACTCTAG
1 TTAGTATTAATGGCTATGTGCTCAAAATATCAATGAATCACAAGTAAAAGTAAAATCAACACTAG
* *
695109 AGTCAAGCATCCACACAAACATAATGTTTATCACTATCTGATAGCTAAAAATCTAGTTTAATCAA
66 AGTCAAGCATCCACACAAACATAATGTTCATCACTATCCGATAGCTAAAAATCTAGTTTAATCAA
* * *
695174 ATTCAAACTTAGACAAAT-AAATTACATTGTCACTTAAATAACTTTCTCTAAGAAATCAAAGCAA
131 ATTCAAACATAGACAAATAAAATCACATCGTCACTTAAATAACTTTCTCTAAGAAATCAAAGCAA
695238 T
196 T
695239 TTAGTATTAATGGCTATGTGCTCAAAATATCAATGAATCACAAGTAAAAGTAAAATCAACACTAG
1 TTAGTATTAATGGCTATGTGCTCAAAATATCAATGAATCACAAGTAAAAGTAAAATCAACACTAG
* *
695304 AGTCAAGCATCCACACAAACATAATGTTCATCACTCTCCGATAGCTATAAATCTAGTTTAATCAA
66 AGTCAAGCATCCACACAAACATAATGTTCATCACTATCCGATAGCTAAAAATCTAGTTTAATCAA
* *
695369 ATTCGACCATAGACAAATAAAATCACATCGTCACTTAAATAACTT
131 ATTCAAACATAGACAAATAAAATCACATCGTCACTTAAATAACTT
695414 AAACAACTTA
Statistics
Matches: 163, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
195 139 0.85
196 24 0.15
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.29
Consensus pattern (196 bp):
TTAGTATTAATGGCTATGTGCTCAAAATATCAATGAATCACAAGTAAAAGTAAAATCAACACTAG
AGTCAAGCATCCACACAAACATAATGTTCATCACTATCCGATAGCTAAAAATCTAGTTTAATCAA
ATTCAAACATAGACAAATAAAATCACATCGTCACTTAAATAACTTTCTCTAAGAAATCAAAGCAA
T
Found at i:696956 original size:49 final size:49
Alignment explanation
Indices: 696825--696968 Score: 158
Period size: 43 Copynumber: 3.0 Consensus size: 49
696815 TTCGACGTAT
* * * *
696825 TTGGCACCTTTGTCATCTTTAAGTCCAATGTAGTTGGCCTTGAATCAACACA
1 TTGGCACC-TT-T-ATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
*
696877 TTAGCA-C-----CTTTAAGTCCAATATCA-CTGGCCTTGAATCAGCATA
1 TTGGCACCTTTATCTTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCATA
696920 TTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
1 TTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
696969 GTTGCTGGCC
Statistics
Matches: 78, Mismatches: 6, Indels: 19
0.76 0.06 0.18
Matches are distributed among these distances:
43 35 0.45
44 2 0.03
48 1 0.01
49 34 0.44
51 1 0.01
52 5 0.06
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (49 bp):
TTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
Found at i:697018 original size:72 final size:72
Alignment explanation
Indices: 696901--697040 Score: 226
Period size: 72 Copynumber: 1.9 Consensus size: 72
696891 TCCAATATCA
* * * * *
696901 CTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGC
1 CTGGCCTTAAATCAACACATTGGCACCTTCATCTTTAAGTCCAATATAGCTAGCCTTGAATCAGC
696966 ATAGTTG
66 ATAGTTG
*
696973 CTGGCCTTAAATCAACACATTGGCACCTTCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGC
1 CTGGCCTTAAATCAACACATTGGCACCTTCATCTTTAAGTCCAATATAGCTAGCCTTGAATCAGC
697038 ATA
66 ATA
697041 TTGGTGCCTT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (72 bp):
CTGGCCTTAAATCAACACATTGGCACCTTCATCTTTAAGTCCAATATAGCTAGCCTTGAATCAGC
ATAGTTG
Found at i:697120 original size:43 final size:43
Alignment explanation
Indices: 697057--697238 Score: 247
Period size: 43 Copynumber: 4.1 Consensus size: 43
697047 CCTTTGTCAT
* *
697057 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
697100 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
*
697147 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
697192 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGTATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
697235 CTTT
1 CTTT
697239 TCCATCTTTA
Statistics
Matches: 124, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
43 82 0.66
45 1 0.01
47 1 0.01
49 40 0.32
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:697183 original size:92 final size:93
Alignment explanation
Indices: 697005--697291 Score: 432
Period size: 92 Copynumber: 3.0 Consensus size: 93
696995 GCACCTTCAT
* **
697005 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGTGCCTTTGTCATCTTTAAGTCCAAT
1 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACC-TT-TCATCTTTAAGTCCAAT
*
697070 GTCGCTGGCCTTGAATCAGCACATTGGCAC
64 GTAGCTGGCCTTGAATCAGCACATTGGCAC
* *
697100 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTCTTCTTTAAGTCCAATGT
1 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGTCCAATGT
697164 AGCTGGCCTTGAATCAGCACATTGGCAC
66 AGCTGGCCTTGAATCAGCACATTGGCAC
* *
697192 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGTATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACC-TTT-CATCTTTAAGTCCAAT
* *
697257 GTAGCTGGCCTTGAATCAGCGCATTGACATC
64 GTAGCTGGCCTTGAATCAGCACATTGGCA-C
697288 CTTT
1 CTTT
697292 TTCTCATCTT
Statistics
Matches: 176, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
92 87 0.49
93 1 0.01
94 2 0.01
95 81 0.46
96 5 0.03
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (93 bp):
CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:697321 original size:55 final size:52
Alignment explanation
Indices: 697192--697329 Score: 150
Period size: 52 Copynumber: 2.6 Consensus size: 52
697182 ACATTGGCAC
* * * *
697192 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGTATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCAT
* * *
697244 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCGCATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA-CC-TTTTC-CAT
* * * *
697299 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
697330 ACATATTGGC
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
52 35 0.50
53 2 0.03
54 5 0.07
55 28 0.40
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.36
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCTTTTCCAT
Found at i:697403 original size:67 final size:68
Alignment explanation
Indices: 697295--697421 Score: 193
Period size: 67 Copynumber: 1.9 Consensus size: 68
697285 ATCCTTTTTC
* *
697295 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
697359 TCT
66 TCT
* * * *
697362 TCATCTTTAAGTCCAATATTGTTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
697422 AAAACCCAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
67 49 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:698251 original size:13 final size:13
Alignment explanation
Indices: 698233--698289 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
698223 CATAAAGTGT
698233 TGTATCGATACAA
1 TGTATCGATACAA
698246 TGTATCGATACATAA
1 TGTATCGATAC--AA
698261 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
698278 TGTATCGATACA
1 TGTATCGATACA
698290 TAAGTTTTAT
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:698268 original size:32 final size:32
Alignment explanation
Indices: 698213--698309 Score: 167
Period size: 32 Copynumber: 3.0 Consensus size: 32
698203 TTCAACGATT
698213 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
698246 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
698278 TGTATCGATACATAAGTTTTATATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
698310 AGTAAGCTAC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 49 0.79
33 13 0.21
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:698270 original size:19 final size:17
Alignment explanation
Indices: 698211--698312 Score: 76
Period size: 19 Copynumber: 6.1 Consensus size: 17
698201 ATTTCAACGA
698211 TTTGTATCGATACATAAAG
1 TTTGTATCGATAC--AAAG
698230 TGTTGTATCGATAC-AA-
1 T-TTGTATCGATACAAAG
698246 --TGTATCGATACATAAG
1 TTTGTATCGATACA-AAG
698262 TGTTGTATCGATAC-AA-
1 T-TTGTATCGATACAAAG
698278 --TGTATCGATACATAAG
1 TTTGTATCGATACA-AAG
*
698294 TTTTATATCGATACAAAG
1 -TTTGTATCGATACAAAG
698312 T
1 T
698313 AAGCTACTGC
Statistics
Matches: 69, Mismatches: 1, Indels: 28
0.70 0.01 0.29
Matches are distributed among these distances:
13 22 0.32
15 4 0.06
17 5 0.07
18 3 0.04
19 23 0.33
20 12 0.17
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (17 bp):
TTTGTATCGATACAAAG
Found at i:698428 original size:52 final size:52
Alignment explanation
Indices: 698384--698512 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
698374 CACTGATCTT
*
698384 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
* *
698436 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCAATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
698488 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
698513 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
Found at i:701764 original size:13 final size:13
Alignment explanation
Indices: 701746--701773 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
701736 TTTTTACCAA
701746 GTATCAATACAAT
1 GTATCAATACAAT
701759 GTATCAATACAAT
1 GTATCAATACAAT
701772 GT
1 GT
701774 CCCATGTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (13 bp):
GTATCAATACAAT
Found at i:701844 original size:20 final size:19
Alignment explanation
Indices: 701818--701873 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
701808 TTGCCAATTT
*
701818 CATGTATTAATACAATTGAG
1 CATGTATCAATACAA-TGAG
* *
701838 TATGTATCGATACAATGAG
1 CATGTATCAATACAATGAG
*
701857 CATGTATCGATACAATG
1 CATGTATCAATACAATG
701874 TATCGACACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 20 0.62
20 12 0.38
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCAATACAATGAG
Found at i:701861 original size:19 final size:19
Alignment explanation
Indices: 701827--701873 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
701817 TCATGTATTA
*
701827 ATACAATTGAGTATGTATCG
1 ATACAA-TGAGCATGTATCG
701847 ATACAATGAGCATGTATCG
1 ATACAATGAGCATGTATCG
701866 ATACAATG
1 ATACAATG
701874 TATCGACACA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (19 bp):
ATACAATGAGCATGTATCG
Found at i:701876 original size:13 final size:13
Alignment explanation
Indices: 701858--701918 Score: 53
Period size: 13 Copynumber: 5.2 Consensus size: 13
701848 TACAATGAGC
701858 ATGTATCGATACA
1 ATGTATCGATACA
*
701871 ATGTATCGACACA
1 ATGTATCGATACA
*
701884 A---A---ATATA
1 ATGTATCGATACA
701891 ATGTATCGATACA
1 ATGTATCGATACA
*
701904 ATATATCGATACA
1 ATGTATCGATACA
701917 AT
1 AT
701919 CTGGATGTGT
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
7 4 0.11
10 2 0.05
13 31 0.84
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:701895 original size:20 final size:20
Alignment explanation
Indices: 701870--701909 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
701860 GTATCGATAC
701870 AATGTATCGACACAAAATAT
1 AATGTATCGACACAAAATAT
* *
701890 AATGTATCGATACAATATAT
1 AATGTATCGACACAAAATAT
701910 CGATACAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (20 bp):
AATGTATCGACACAAAATAT
Found at i:706933 original size:13 final size:13
Alignment explanation
Indices: 706915--706952 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
706905 ACAATGAGCA
706915 TGTATCGATACAT
1 TGTATCGATACAT
706928 TGTATCGATACAT
1 TGTATCGATACAT
706941 TGTATCGATACA
1 TGTATCGATACA
706953 ATGCATAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:711211 original size:25 final size:25
Alignment explanation
Indices: 711183--711230 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
711173 TAAATTAAAT
* *
711183 AATTTTTGAGCAAAA-AATATGGTAA
1 AATTTGTGACCAAAATAA-ATGGTAA
711208 AATTTGTGACCAAAATAAATGGT
1 AATTTGTGACCAAAATAAATGGT
711231 GTATTTGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (25 bp):
AATTTGTGACCAAAATAAATGGTAA
Found at i:712887 original size:13 final size:13
Alignment explanation
Indices: 712847--712899 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
712837 CCGTTACAAG
712847 CAATGTATCGATA
1 CAATGTATCGATA
712860 C-AT-T-TC-AT-
1 CAATGTATCGATA
712868 C-ATGTATCGATA
1 CAATGTATCGATA
712880 CAATGTATCGATA
1 CAATGTATCGATA
*
712893 CATTGTA
1 CAATGTA
712900 CCATGTATCA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
8 3 0.09
9 3 0.09
10 4 0.12
11 3 0.09
12 3 0.09
13 18 0.53
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:712887 original size:33 final size:33
Alignment explanation
Indices: 712847--712915 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
712837 CCGTTACAAG
* *
712847 CAATGTATCGATACATT-TCATCATGTATCGATA
1 CAATGTATCGATACATTGT-ACCATGTATCAATA
712880 CAATGTATCGATACATTGTACCATGTATCAATA
1 CAATGTATCGATACATTGTACCATGTATCAATA
712913 CAA
1 CAA
712916 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACATTGTACCATGTATCAATA
Found at i:712988 original size:19 final size:19
Alignment explanation
Indices: 712944--713018 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
712934 CTGCCAATCT
* **
712944 CATGTATCAATACAATTGTC
1 CATGTATCGATACAA-TGAA
712964 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
712983 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
713002 CATGTATCGATACAATG
1 CATGTATCGATACAATG
713019 TATCGATACA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 38 0.73
20 14 0.27
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:713021 original size:13 final size:13
Alignment explanation
Indices: 713003--713029 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
712993 TACAATGAAC
713003 ATGTATCGATACA
1 ATGTATCGATACA
713016 ATGTATCGATACA
1 ATGTATCGATACA
713029 A
1 A
713030 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:715525 original size:13 final size:13
Alignment explanation
Indices: 715507--715546 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
715497 ATAGTACCCT
715507 ATGTATCGATACA
1 ATGTATCGATACA
*
715520 ATGTATTGATACA
1 ATGTATCGATACA
715533 ATGTATCGATACA
1 ATGTATCGATACA
715546 A
1 A
715547 GGAATGTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:721001 original size:12 final size:12
Alignment explanation
Indices: 720984--721011 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
720974 TCGAGATAAG
720984 GTGGGGACATAT
1 GTGGGGACATAT
720996 GTGGGGACATAT
1 GTGGGGACATAT
721008 GTGG
1 GTGG
721012 TGTTTTTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.07, G:0.46, T:0.25
Consensus pattern (12 bp):
GTGGGGACATAT
Found at i:721255 original size:21 final size:19
Alignment explanation
Indices: 721231--721280 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 19
721221 TTTCAACAAT
721231 TTGTATCGATGCAAACAGTAA
1 TTGTATCGATGCAAA-AGT-A
* *
721252 TTGTATCGATGCATAAGTG
1 TTGTATCGATGCAAAAGTA
721271 TTGTATCGAT
1 TTGTATCGAT
721281 ACAATGTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 10 0.37
20 3 0.11
21 14 0.52
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (19 bp):
TTGTATCGATGCAAAAGTA
Found at i:721276 original size:19 final size:19
Alignment explanation
Indices: 721231--721376 Score: 94
Period size: 19 Copynumber: 8.5 Consensus size: 19
721221 TTTCAACAAT
* *
721231 TTGTATCGATGCAAACAGTAA
1 TTGTATCGATGCATA-AGT-G
721252 TTGTATCGATGCATAAGTG
1 TTGTATCGATGCATAAGTG
*
721271 TTGTATCGAT--ACAA---
1 TTGTATCGATGCATAAGTG
721285 -TGTATCGATGCATAAGTG
1 TTGTATCGATGCATAAGTG
*
721303 TTGTATCGAT--ACAA---
1 TTGTATCGATGCATAAGTG
721317 -TGTATCGATGCATAAGTG
1 TTGTATCGATGCATAAGTG
*
721335 TTGTATCGAT--ACAA---
1 TTGTATCGATGCATAAGTG
*
721349 -TGTATCGATACATAAGTG
1 TTGTATCGATGCATAAGTG
721367 TTGTATCGAT
1 TTGTATCGAT
721377 ACAATGTATC
Statistics
Matches: 99, Mismatches: 8, Indels: 38
0.68 0.06 0.26
Matches are distributed among these distances:
13 27 0.27
15 9 0.09
17 9 0.09
19 37 0.37
20 3 0.03
21 14 0.14
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (19 bp):
TTGTATCGATGCATAAGTG
Found at i:721290 original size:13 final size:13
Alignment explanation
Indices: 721272--721360 Score: 52
Period size: 13 Copynumber: 5.9 Consensus size: 13
721262 GCATAAGTGT
721272 TGTATCGATACAA
1 TGTATCGATACAA
*
721285 TGTATCGATGCATAA
1 TGTATCGAT--ACAA
721300 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
721317 TGTATCGATGCATAA
1 TGTATCGAT--ACAA
721332 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
721349 TGTATCGATACA
1 TGTATCGATACA
721361 TAAGTGTTGT
Statistics
Matches: 60, Mismatches: 4, Indels: 24
0.68 0.05 0.27
Matches are distributed among these distances:
13 30 0.50
15 6 0.10
17 6 0.10
19 18 0.30
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:721294 original size:32 final size:32
Alignment explanation
Indices: 721253--721387 Score: 261
Period size: 32 Copynumber: 4.2 Consensus size: 32
721243 AAACAGTAAT
721253 TGTATCGATGCATAAGTGTTGTATCGATACAA
1 TGTATCGATGCATAAGTGTTGTATCGATACAA
721285 TGTATCGATGCATAAGTGTTGTATCGATACAA
1 TGTATCGATGCATAAGTGTTGTATCGATACAA
721317 TGTATCGATGCATAAGTGTTGTATCGATACAA
1 TGTATCGATGCATAAGTGTTGTATCGATACAA
*
721349 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATGCATAAGTGTTGTATCGATACAA
721381 TGTATCG
1 TGTATCG
721388 CTACGAAGCT
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 102 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (32 bp):
TGTATCGATGCATAAGTGTTGTATCGATACAA
Found at i:721377 original size:19 final size:19
Alignment explanation
Indices: 721252--721379 Score: 103
Period size: 19 Copynumber: 7.7 Consensus size: 19
721242 CAAACAGTAA
*
721252 TTGTATCGATGCATAAGTG
1 TTGTATCGATACATAAGTG
721271 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
721285 -TGTATCGATGCATAAGTG
1 TTGTATCGATACATAAGTG
721303 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
721317 -TGTATCGATGCATAAGTG
1 TTGTATCGATACATAAGTG
721335 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
721349 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
721367 TTGTATCGATACA
1 TTGTATCGATACA
721380 ATGTATCGCT
Statistics
Matches: 86, Mismatches: 5, Indels: 36
0.68 0.04 0.28
Matches are distributed among these distances:
13 31 0.36
15 6 0.07
17 6 0.07
19 43 0.50
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:731760 original size:20 final size:22
Alignment explanation
Indices: 731735--731790 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
731725 AAAAACCCAG
*
731735 AATGTATCAATACAA-TG-AAA
1 AATGTATCGATACAATTGTAAA
731755 AATGTATCGATACAATTGTAAA
1 AATGTATCGATACAATTGTAAA
*
731777 CATGTATCGATACA
1 AATGTATCGATACA
731791 TTTAGTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 14 0.44
21 2 0.06
22 16 0.50
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (22 bp):
AATGTATCGATACAATTGTAAA
Found at i:732670 original size:52 final size:52
Alignment explanation
Indices: 732589--733119 Score: 328
Period size: 52 Copynumber: 10.0 Consensus size: 52
732579 TAAAGATGTG
* * *
732589 AAATGATAAAGGTGCCAACATGCTGATTCAAGGCCAACGACATTGGGCTTAA
1 AAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA
* * * * ** * *
732641 AAATGACAAAGGTGCCAATGTGCTAATTCAAGGCCAGTGACAAAGGAGTTGA
1 AAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA
** * * * ** * *
732693 GGATGATAAAAGAGCTAATATGCTGATTCAAGGCCAATGATATCGGACTTAA
1 AAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA
* * * * * * *
732745 AAAAGAAAAAGGTGCTAATGTGCTAATTCAAAGCCAGCGACATTAGACTTAGAGATGTGA
1 AAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT----A----A
* ** * *
732805 AGAATGATAAAGGTGCCAACATATTGATTCAAGGCCAGCGATATTGGGCTTAA
1 A-AATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA
* * * * * * ** *** *
732858 AGATGACAAAGGTGCCAATGTGTTGATTCAAAGTCAATGACAAAAGACTTGA
1 AAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA
* * * * *
732910 AGATGATAACGGTGCTAATATGTTGATTCAAGGCCAGCGATATTGGACTTAA
1 AAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA
* * ** * * * *
732962 GAAA-GAAAAAAAGTGATAATGTGCTAAGTCAAGGCCAGTGACATTGGACTTAA
1 -AAATG-ATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA
* * * *
733015 AGATGAGAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
1 AAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA
* * ** * * *
733067 GAAA-GAAAAAGGTGCCAATGTATTGAGTCAAGGCTAGCGGCATTGGACTTAA
1 -AAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA
733119 A
1 A
733120 GATAGGTTGC
Statistics
Matches: 357, Mismatches: 109, Indels: 27
0.72 0.22 0.05
Matches are distributed among these distances:
51 1 0.00
52 271 0.76
53 44 0.12
56 1 0.00
57 1 0.00
60 2 0.01
61 37 0.10
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (52 bp):
AAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA
Found at i:732727 original size:104 final size:103
Alignment explanation
Indices: 732587--733087 Score: 473
Period size: 104 Copynumber: 4.7 Consensus size: 103
732577 CTTAAAGATG
* * * * * *
732587 TGAA-ATGATAAAGGTGCCAACATGCTGATTCAAGGCCAACGACATTGGGCTTAAAAATGACAAA
1 TGAAGATGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAA-GAAAAA
* * *
732651 GGTGCCAATGTGCTAATTCAAGGCCAGTGACAAAGGAGT
65 GGTGCCAATGTGCTAATTCAAAGCCAGTGACAAAAGACT
* * * ** *
732690 TGAGGATGATAAAAGAGCTAATATGCTGATTCAAGGCCAATGATATCGGACTTAAAAAAGAAAAA
1 TGAAGATGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAAAAGAAAAA
* * *
732755 GGTGCTAATGTGCTAATTCAAAGCCAGCGACATTAGACTTAGAGAT
65 GGTGCCAATGTGCTAATTCAAAGCCAGTGACA--A-A---AGA-CT
* * ** * * *
732801 GTGAAGAATGATAAAGGTGCCAACATATTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGACA
1 -TGAAG-ATGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-AAGAAA
* * * *
732866 AAGGTGCCAATGTGTTGATTCAAAGTCAATGACAAAAGACT
63 AAGGTGCCAATGTGCTAATTCAAAGCCAGTGACAAAAGACT
** * *
732907 TGAAGATGATAACGGTGCTAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAGAAAGAAAAA
1 TGAAGATGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA-AAAG-AAAA
* ** * * ***
732972 AAGTGATAATGTGCTAAGTCAAGGCCAGTGACATTGGACT
64 AGGTGCCAATGTGCTAATTCAAAGCCAGTGACAAAAGACT
* *
733012 TAAAGATGAGAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGAAAGAAAAA
1 TGAAGATGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA-AAAGAAAAA
733077 GGTGCCAATGT
65 GGTGCCAATGT
733088 ATTGAGTCAA
Statistics
Matches: 321, Mismatches: 63, Indels: 27
0.78 0.15 0.07
Matches are distributed among these distances:
103 3 0.01
104 134 0.42
105 96 0.30
106 2 0.01
107 4 0.01
110 3 0.01
111 2 0.01
112 7 0.02
113 70 0.22
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (103 bp):
TGAAGATGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAAGAAAAAG
GTGCCAATGTGCTAATTCAAAGCCAGTGACAAAAGACT
Found at i:732941 original size:217 final size:217
Alignment explanation
Indices: 732568--733097 Score: 643
Period size: 217 Copynumber: 2.5 Consensus size: 217
732558 CAAGGTCAAT
* *
732568 GACATTAGACTTAAAGATGTG-A-AATGATAAAGGTGCCAACATGCTGATTCAAGGCCAACGACA
1 GACATTAGACTT-AAGATGTGAAGAATGATAAAGGTGCCAACATGCTGATTCAAGGCCAGCGATA
* * * * * * * *
732631 TTGGGCTTAAAAATGACAAAGGTGCCAATGTGCTAATTCAAGGCCAGTGACAAAGGAGTTGAGGA
65 TTGGGCTTAAAGATGACAAAGGTGCCAATGTGTTGATTCAAAGCCAATGACAAAAGACTTGAAGA
* * *
732696 TGATAAAAGAGCTAATATGCTGATTCAAGGCCAATGATATCGGACTTAAAAAAG-AAAAAGGTGC
130 TGATAAAAGAGCTAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAAAAGAAAAAAAGTGA
*
732760 TAATGTGCTAATTCAAAGCCAGC
195 TAATGTGCTAAGTCAAAGCCAGC
**
732783 GACATTAGACTTAGAGATGTGAAGAATGATAAAGGTGCCAACATATTGATTCAAGGCCAGCGATA
1 GACATTAGACTTA-AGATGTGAAGAATGATAAAGGTGCCAACATGCTGATTCAAGGCCAGCGATA
*
732848 TTGGGCTTAAAGATGACAAAGGTGCCAATGTGTTGATTCAAAGTCAATGACAAAAGACTTGAAGA
65 TTGGGCTTAAAGATGACAAAGGTGCCAATGTGTTGATTCAAAGCCAATGACAAAAGACTTGAAGA
** * * * * *
732913 TGATAACGGTGCTAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAGAAAGAAAAAAAGTGA
130 TGATAAAAGAGCTAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAAAAGAAAAAAAGTGA
* *
732978 TAATGTGCTAAGTCAAGGCCAGT
195 TAATGTGCTAAGTCAAAGCCAGC
* * *
733001 GACATTGGACTTAA-A---GATG-A-GA-AAA-GTGCCAATATGCTGATTCAAGGCCAGCGATAT
1 GACATTAGACTTAAGATGTGAAGAATGATAAAGGTGCCAACATGCTGATTCAAGGCCAGCGATAT
* * * * *
733058 TGGACTT-AAGAAAGAAAAAGGTGCCAATGTATTGAGTCAA
66 TGGGCTTAAAG-ATGACAAAGGTGCCAATGTGTTGATTCAA
733098 GGCTAGCGGC
Statistics
Matches: 274, Mismatches: 36, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
208 3 0.01
209 60 0.22
210 3 0.01
211 2 0.01
212 1 0.00
213 3 0.01
214 1 0.00
215 19 0.07
216 2 0.01
217 140 0.51
218 40 0.15
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (217 bp):
GACATTAGACTTAAGATGTGAAGAATGATAAAGGTGCCAACATGCTGATTCAAGGCCAGCGATAT
TGGGCTTAAAGATGACAAAGGTGCCAATGTGTTGATTCAAAGCCAATGACAAAAGACTTGAAGAT
GATAAAAGAGCTAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAAAAGAAAAAAAGTGAT
AATGTGCTAAGTCAAAGCCAGC
Found at i:733056 original size:105 final size:104
Alignment explanation
Indices: 732903--733122 Score: 296
Period size: 105 Copynumber: 2.1 Consensus size: 104
732893 AATGACAAAA
* * ** * *
732903 GACTTGAAGATGATAACGGTGCTAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAGAAAGA
1 GACTTAAAGATGAGAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGAAAG-
* * *
732968 AAAAAAGTGATAATGTGCTAAGTCAAGGCCAGTGACATTG
65 AAAAAAGTGACAATGTACTAAGTCAAGGCCAGCGACATTG
733008 GACTTAAAGATGAGAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGAAAGA
1 GACTTAAAGATGAGAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGAAAGA
* * * * * *
733073 AAAAGGTGCCAATGTATTGAGTCAAGGCTAGCGGCATTG
66 AAAAAGTGACAATGTACTAAGTCAAGGCCAGCGACATTG
733112 GACTTAAAGAT
1 GACTTAAAGAT
733123 AGGTTGCCAC
Statistics
Matches: 100, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
104 42 0.42
105 58 0.58
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (104 bp):
GACTTAAAGATGAGAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGAAAGA
AAAAAGTGACAATGTACTAAGTCAAGGCCAGCGACATTG
Found at i:733205 original size:32 final size:31
Alignment explanation
Indices: 733124--733381 Score: 196
Period size: 32 Copynumber: 8.3 Consensus size: 31
733114 CTTAAAGATA
*
733124 GGTTGCCACTAACTTGTGTGGGCTTTAGAGAAG
1 GGTTGCCAC-CACTTGTGTGGGCTTTAGA-AAG
* *
733157 GGTTGCCACCAGCTTGTGTGGACTTTAGAAGG
1 GGTTGCCACCA-CTTGTGTGGGCTTTAGAAAG
* * *
733189 GGTTGCCGCCGACTTGTGTGGG-TTTTGAGAAT
1 GGTTGCCACC-ACTTGTGTGGGCTTTAGA-AAG
* *
733221 GGTTGCCACCAGCTTATGTAGGCTTTAGAAAG
1 GGTTGCCACCA-CTTGTGTGGGCTTTAGAAAG
*
733253 GGTTGCCACCGACTTGTGTAGGCTTTGAGAATA-
1 GGTTGCCACC-ACTTGTGTGGGCTTT-AGAA-AG
*
733286 -GTTGCCACCAACTTATGTGGGCTTTAGAAAG
1 GGTTGCCACC-ACTTGTGTGGGCTTTAGAAAG
* *
733317 GGTTG-----TCTTGTTTGGGCTTT-GAGAAG
1 GGTTGCCACCACTTGTGTGGGCTTTAGA-AAG
* *
733343 GGTTGGCACCAGCTTGTGTAGGCTTTA-AAGAG
1 GGTTGCCACCA-CTTGTGTGGGCTTTAGAA-AG
733375 GG-TGCCA
1 GGTTGCCA
733382 TAGAGTGGTG
Statistics
Matches: 182, Mismatches: 24, Indels: 40
0.74 0.10 0.16
Matches are distributed among these distances:
25 2 0.01
26 20 0.11
30 1 0.01
31 15 0.08
32 107 0.59
33 36 0.20
34 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.31
Consensus pattern (31 bp):
GGTTGCCACCACTTGTGTGGGCTTTAGAAAG
Found at i:733247 original size:64 final size:63
Alignment explanation
Indices: 733135--733377 Score: 275
Period size: 64 Copynumber: 3.9 Consensus size: 63
733125 GTTGCCACTA
* *
733135 ACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCAGCTTGTGT-GGACTTTAGAAGGGGTTGCCGCC
1 ACTTGTGTGGGCTTT-GAGAAGGGTTGCCACCAGCTTATGTAGG-CTTTAGAAAGGGTTGCC-CC
733199 G
63 G
* *
733200 ACTTGTGTGGGTTTTGAGAATGGTTGCCACCAGCTTATGTAGGCTTTAGAAAGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAGAAGGGTTGCCACCAGCTTATGTAGGCTTTAGAAAGGGTTGCC-CCG
* ** * *
733264 ACTTGTGTAGGCTTTGAGAATAGTTGCCACCAACTTATGTGGGCTTTAGAAAGGGTT-----G
1 ACTTGTGTGGGCTTTGAGAAGGGTTGCCACCAGCTTATGTAGGCTTTAGAAAGGGTTGCCCCG
* * * *
733322 TCTTGTTTGGGCTTTGAGAAGGGTTGGCACCAGCTTGTGTAGGCTTTA-AAGAGGGT
1 ACTTGTGTGGGCTTTGAGAAGGGTTGCCACCAGCTTATGTAGGCTTTAGAA-AGGGT
733378 GCCATAGAGT
Statistics
Matches: 157, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
57 2 0.01
58 45 0.29
64 94 0.60
65 16 0.10
ACGTcount: A:0.20, C:0.16, G:0.33, T:0.31
Consensus pattern (63 bp):
ACTTGTGTGGGCTTTGAGAAGGGTTGCCACCAGCTTATGTAGGCTTTAGAAAGGGTTGCCCCG
Found at i:733290 original size:96 final size:96
Alignment explanation
Indices: 733124--733314 Score: 228
Period size: 96 Copynumber: 2.0 Consensus size: 96
733114 CTTAAAGATA
* * *
733124 GGTTGCCACTAACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCAGCTTGTGTGGACTTTAGAAGG
1 GGTTGCCACCAACTTATGTAGGCTTTAGAGAAGGGTTGCCACCAGCTTGTGTGGACTTTAGAAGG
* * * * *
733189 GGTTGCCGCCGACTTGTGTGGGTTTTGAGAAT
66 AGTTGCCACCAACTTATGTGGGCTTT-AGAAT
*
733221 GGTTGCCACCAGCTTATGTAGGCTTTAGA-AAGGGTTGCCACC-GACTTGTGTAGG-CTTTGAGA
1 GGTTGCCACCAACTTATGTAGGCTTTAGAGAAGGGTTGCCACCAG-CTTGTGT-GGACTTT-AGA
*
733283 A-TAGTTGCCACCAACTTATGTGGGCTTTAGAA
63 AGGAGTTGCCACCAACTTATGTGGGCTTTAGAA
733315 AGGGTTGTCT
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
95 5 0.06
96 45 0.56
97 31 0.38
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.30
Consensus pattern (96 bp):
GGTTGCCACCAACTTATGTAGGCTTTAGAGAAGGGTTGCCACCAGCTTGTGTGGACTTTAGAAGG
AGTTGCCACCAACTTATGTGGGCTTTAGAAT
Found at i:733365 original size:122 final size:124
Alignment explanation
Indices: 733115--733381 Score: 299
Period size: 122 Copynumber: 2.1 Consensus size: 124
733105 GGCATTGGAC
* * * * * *
733115 TTAAAGATAGGTTGCCACTAACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCAGCTTGTGTGGAC
1 TTAAAGA-GGGTTGCCACCAACTTGTGTAGGCTTTAGAGAAGAGTTGCCACCAACTTATGTGGAC
* * *
733180 TTTAGAAGGGGTTGCCGCCGACTTGTGTGGGTTTTGAGAATGGTTGCCACCAGCTTATGTAGGCT
65 TTTAGAAAGGGTT-----CGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCAGCTTATGTAGGCT
* * *
733245 TTAGAA-AGGGTTGCCACCGACTTGTGTAGGCTTT-GAGAATAGTTGCCACCAACTTATGTGGGC
1 TTA-AAGAGGGTTGCCACCAACTTGTGTAGGCTTTAGAGAAGAGTTGCCACCAACTTATGTGGAC
* * * *
733308 TTTAGAAAGGGTT-GTCTTGTTTGGGCTTTGAGAAGGGTTGGCACCAGCTTGTGTAGGCT
65 TTTAGAAAGGGTTCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCAGCTTATGTAGGCT
733367 TTAAAGAGGG-TGCCA
1 TTAAAGAGGGTTGCCA
733382 TAGAGTGGTG
Statistics
Matches: 119, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
121 7 0.06
122 47 0.39
128 36 0.30
129 23 0.19
130 4 0.03
131 2 0.02
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.31
Consensus pattern (124 bp):
TTAAAGAGGGTTGCCACCAACTTGTGTAGGCTTTAGAGAAGAGTTGCCACCAACTTATGTGGACT
TTAGAAAGGGTTCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCAGCTTATGTAGGCT
Done.