Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009259.1 Hibiscus syriacus cultivar Beakdansim tig00112910_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1149570
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:801162 original size:3 final size:3
Alignment explanation
Indices: 801154--801217 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
801144 CTTGTTTAGC
801154 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
801202 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
801218 TTATTATTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:803634 original size:33 final size:33
Alignment explanation
Indices: 803597--803671 Score: 132
Period size: 33 Copynumber: 2.3 Consensus size: 33
803587 TCCCATACAT
803597 CAGCCTCAACATCCAAACCTTGTCCCTCTAAAA
1 CAGCCTCAACATCCAAACCTTGTCCCTCTAAAA
*
803630 CAGCCTCAACATCCAAACCTTGTCCCTCTGAAA
1 CAGCCTCAACATCCAAACCTTGTCCCTCTAAAA
*
803663 CAACCTCAA
1 CAGCCTCAA
803672 AAAAATTGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.33, C:0.40, G:0.07, T:0.20
Consensus pattern (33 bp):
CAGCCTCAACATCCAAACCTTGTCCCTCTAAAA
Found at i:804240 original size:32 final size:32
Alignment explanation
Indices: 804204--804302 Score: 119
Period size: 32 Copynumber: 3.1 Consensus size: 32
804194 GTTTTTGGTT
* * *
804204 AGATGAAAAGAGTTTGTTGTATAAGTGATTGA
1 AGATGAAAAGAGTTTGTTATGTAAGAGATTGA
* **
804236 AGATGAAAGGAGTGCGTTATGTAAGAGATTGA
1 AGATGAAAAGAGTTTGTTATGTAAGAGATTGA
*
804268 AGATG-AAAGAAGTTTGTCATGTAAGAGATTGA
1 AGATGAAAAG-AGTTTGTTATGTAAGAGATTGA
804300 AGA
1 AGA
804303 CGATGTGCAC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
31 3 0.05
32 53 0.95
ACGTcount: A:0.39, C:0.02, G:0.30, T:0.28
Consensus pattern (32 bp):
AGATGAAAAGAGTTTGTTATGTAAGAGATTGA
Found at i:807241 original size:38 final size:39
Alignment explanation
Indices: 807188--807268 Score: 128
Period size: 38 Copynumber: 2.1 Consensus size: 39
807178 GACCTTACTG
*
807188 CTTACCGCAAGCTCCTTGGCTTTGTTCTCAAGGTAAGTC
1 CTTACCGCAAGCTCCTTGGCTTTGTGCTCAAGGTAAGTC
* *
807227 CTTACCG-TAGCTCCTTGGCTTTGTGCTCAGGGTAAGTC
1 CTTACCGCAAGCTCCTTGGCTTTGTGCTCAAGGTAAGTC
807265 CTTA
1 CTTA
807269 ATACAGGCTC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 32 0.82
39 7 0.18
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.35
Consensus pattern (39 bp):
CTTACCGCAAGCTCCTTGGCTTTGTGCTCAAGGTAAGTC
Found at i:810792 original size:12 final size:12
Alignment explanation
Indices: 810775--810807 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
810765 ATAGTGATGC
*
810775 TTTGCTTAGCTT
1 TTTGCTCAGCTT
810787 TTTGCTCAGCTT
1 TTTGCTCAGCTT
810799 TTTGCTCAG
1 TTTGCTCAG
810808 GGTAAGTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.18, T:0.52
Consensus pattern (12 bp):
TTTGCTCAGCTT
Found at i:812466 original size:23 final size:22
Alignment explanation
Indices: 812440--812530 Score: 76
Period size: 23 Copynumber: 4.1 Consensus size: 22
812430 GGTTCTACAC
812440 GGTCCTTCAGGACAATTCTACGT
1 GGTCCTTCAGGAC-ATTCTACGT
* * *
812463 GGTCCTGCGGGACATTTCTACGA
1 GGTCCTTCAGGACA-TTCTACGT
* * *
812486 GGTACTTCGGGACA-TCTATGT
1 GGTCCTTCAGGACATTCTACGT
* * *
812507 GGTCATTCAAGACATTCTATGT
1 GGTCCTTCAGGACATTCTACGT
812529 GG
1 GG
812531 CACTTAGTGG
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
21 15 0.27
22 10 0.18
23 30 0.55
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (22 bp):
GGTCCTTCAGGACATTCTACGT
Found at i:818840 original size:35 final size:35
Alignment explanation
Indices: 818747--818827 Score: 117
Period size: 35 Copynumber: 2.3 Consensus size: 35
818737 TATTCAAAGA
* ** * *
818747 GTATCGATATCGAACAAGTAGTATCGATAACATTG
1 GTATCGATACCGAAGTAGTAGTATCGATACCATGG
818782 GTATCGATACCGAAGTAGTAGTATCGATACCATGG
1 GTATCGATACCGAAGTAGTAGTATCGATACCATGG
818817 GTATCGATACC
1 GTATCGATACC
818828 AATGTTTAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.27
Consensus pattern (35 bp):
GTATCGATACCGAAGTAGTAGTATCGATACCATGG
Found at i:819557 original size:23 final size:23
Alignment explanation
Indices: 819531--819578 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
819521 TTCGAGATAA
*
819531 TTCTACGTGGTCCTTT-GGGACAT
1 TTCTACGTGGT-CTTTAGAGACAT
819554 TTCTACGTGGTCTTTAGAGACAT
1 TTCTACGTGGTCTTTAGAGACAT
819577 TT
1 TT
819579 ATGTGGCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.42
Consensus pattern (23 bp):
TTCTACGTGGTCTTTAGAGACAT
Found at i:821461 original size:31 final size:31
Alignment explanation
Indices: 821389--821488 Score: 98
Period size: 31 Copynumber: 3.3 Consensus size: 31
821379 CCCATCACAG
* * *
821389 GAAAACAGAAACCCAT-A-ATACCAAACCAAA
1 GAAAACAAAAACCCATCACA-ACAAAAACAAA
* * *
821419 -AAAACAGAAACCCATCACAATAAAAGCAAA
1 GAAAACAAAAACCCATCACAACAAAAACAAA
* *
821449 GAAAACAAAAACCCATCATAGCAAAAACAAA
1 GAAAACAAAAACCCATCACAACAAAAACAAA
821480 GAAAACAAA
1 GAAAACAAA
821489 GATAGGTAAG
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
29 15 0.25
30 9 0.15
31 35 0.59
ACGTcount: A:0.64, C:0.23, G:0.07, T:0.06
Consensus pattern (31 bp):
GAAAACAAAAACCCATCACAACAAAAACAAA
Found at i:829616 original size:46 final size:48
Alignment explanation
Indices: 829494--829622 Score: 149
Period size: 46 Copynumber: 2.8 Consensus size: 48
829484 ATATAAATTT
* *
829494 CTTACC-TTTTATCCCATAAGCTCATAAGCTTA-TTTTTACCAAAATA
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTTACCAAAATA
* ** *
829540 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTTTTCAATATA
1 CTTACCATTT-AATTCCATAAGCTCATAAGCTTATTTTTTACCAAAATA
* *
829589 CTTGCCA-TT-ATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTT
829623 GCATGGTTAC
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
46 29 0.41
47 3 0.04
48 22 0.31
49 17 0.24
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (48 bp):
CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTTACCAAAATA
Found at i:833553 original size:16 final size:15
Alignment explanation
Indices: 833532--833648 Score: 65
Period size: 16 Copynumber: 7.1 Consensus size: 15
833522 AGTGAAATAT
833532 TTTTTTTTTCATTTTC
1 TTTTTTTTTC-TTTTC
* *
833548 TTTTTTTCTCTATTTA
1 TTTTTTTTTCT-TTTC
* *
833564 TTTCTTTCTCATTTTC
1 TTTTTTTTTC-TTTTC
*
833580 -ATTTTTTTCTTCTTC
1 TTTTTTTTTCTT-TTC
*
833595 GTTTTCGTTTTCGTTTTC
1 -TTTT-TTTTTC-TTTTC
*
833613 TATTTTTTTCTTCTTC
1 TTTTTTTTTCTT-TTC
833629 TGTTTGTTTTTCTTCTTC
1 T-TTT-TTTTTCTT-TTC
833647 TT
1 TT
833649 AATATATGTT
Statistics
Matches: 79, Mismatches: 12, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
14 2 0.03
15 12 0.15
16 33 0.42
17 9 0.11
18 21 0.27
19 2 0.03
ACGTcount: A:0.05, C:0.17, G:0.04, T:0.74
Consensus pattern (15 bp):
TTTTTTTTTCTTTTC
Found at i:833576 original size:32 final size:30
Alignment explanation
Indices: 833529--833589 Score: 88
Period size: 33 Copynumber: 2.0 Consensus size: 30
833519 ACAAGTGAAA
833529 TATTTTTTTTTTCATTTTC-TTTTTTTCTC
1 TATTTTTTTTTTCATTTTCATTTTTTTCTC
833558 TATTTATTTCTTTCTCATTTTCATTTTTTTCT
1 TATTT-TTT-TTT-TCATTTTCATTTTTTTCT
833590 TCTTCGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 5 0.18
30 3 0.11
31 3 0.11
32 8 0.29
33 9 0.32
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (30 bp):
TATTTTTTTTTTCATTTTCATTTTTTTCTC
Found at i:833640 original size:34 final size:32
Alignment explanation
Indices: 833564--833633 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
833554 TCTCTATTTA
*
833564 TTTCTTTCTCATTTTCATTTTTTTCTTCTTCGT
1 TTTCTTT-TCGTTTTCATTTTTTTCTTCTTCGT
833597 TTTCGTTTTCGTTTTCTATTTTTTTCTTCTTCTGT
1 TTTC-TTTTCGTTTTC-ATTTTTTTCTTCTTC-GT
833632 TT
1 TT
833634 GTTTTTCTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
33 11 0.33
34 18 0.55
35 4 0.12
ACGTcount: A:0.04, C:0.19, G:0.06, T:0.71
Consensus pattern (32 bp):
TTTCTTTTCGTTTTCATTTTTTTCTTCTTCGT
Found at i:840795 original size:15 final size:15
Alignment explanation
Indices: 840775--840807 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
840765 CTCGTCCAGC
*
840775 AAAAACAATTAAGCA
1 AAAAACAATTAAACA
840790 AAAAACAATTAAACA
1 AAAAACAATTAAACA
840805 AAA
1 AAA
840808 TAAACGAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.73, C:0.12, G:0.03, T:0.12
Consensus pattern (15 bp):
AAAAACAATTAAACA
Found at i:845080 original size:13 final size:13
Alignment explanation
Indices: 845062--845086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
845052 CGGCTATGGG
845062 GAAAATGAAGAAA
1 GAAAATGAAGAAA
845075 GAAAATGAAGAA
1 GAAAATGAAGAA
845087 TGAGAGAAAA
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:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (13 bp):
GAAAATGAAGAAA
Found at i:845146 original size:26 final size:27
Alignment explanation
Indices: 845085--845147 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
845075 GAAAATGAAG
845085 AATGAGAGA-AAAAAGAAAAAGTTACA
1 AATGAGAGAGAAAAAGAAAAAGTTACA
* * *
845111 AAAGAAAGAGAAAAAGAAAAGGTTA-A
1 AATGAGAGAGAAAAAGAAAAAGTTACA
845137 AATGAGAGAGA
1 AATGAGAGAGA
845148 GAAATGAGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 17 0.55
27 14 0.45
ACGTcount: A:0.65, C:0.02, G:0.24, T:0.10
Consensus pattern (27 bp):
AATGAGAGAGAAAAAGAAAAAGTTACA
Found at i:845413 original size:22 final size:22
Alignment explanation
Indices: 845388--845429 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
845378 TAGTATGGTC
845388 CTAC-AAATCAAAACAAAAATAT
1 CTACAAAAT-AAAACAAAAATAT
*
845410 CTACAAAATAAAATAAAAAT
1 CTACAAAATAAAACAAAAAT
845430 TAAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.67, C:0.14, G:0.00, T:0.19
Consensus pattern (22 bp):
CTACAAAATAAAACAAAAATAT
Found at i:845433 original size:12 final size:12
Alignment explanation
Indices: 845414--845451 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
845404 AAATATCTAC
845414 AAAA-TAAAATA
1 AAAATTAAAATA
845425 AAAATTAAAAATA
1 AAAATT-AAAATA
*
845438 AAAATAAAAATA
1 AAAATTAAAATA
845450 AA
1 AA
845452 GGAAAGATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 4 0.17
12 9 0.38
13 11 0.46
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (12 bp):
AAAATTAAAATA
Found at i:845434 original size:6 final size:6
Alignment explanation
Indices: 845414--845451 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
845404 AAATATCTAC
845414 AAAAT- AAAATA AAAATTA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAA-TA AAAATA AAAATA AAAATA AA
845452 GGAAAGATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 5 0.16
6 20 0.65
7 6 0.19
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:853131 original size:2 final size:2
Alignment explanation
Indices: 853124--853149 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
853114 TGGGTTTTAA
853124 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
853150 GTGGGGGTGT
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:853246 original size:18 final size:17
Alignment explanation
Indices: 853199--853249 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
853189 AAAGAATGGG
*
853199 AGAAAA-AGAAGAAAAA
1 AGAAAAGAGAAGAAAGA
853215 AGAAAAGAGAAAGAAAGA
1 AGAAAAGAG-AAGAAAGA
*
853233 AGAAGAATAGAAGAAAG
1 AGAA-AAGAGAAGAAAG
853250 TTAAAGTCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 6 0.20
17 2 0.07
18 18 0.60
19 4 0.13
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (17 bp):
AGAAAAGAGAAGAAAGA
Found at i:853589 original size:37 final size:37
Alignment explanation
Indices: 853548--853628 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
853538 TTTCACTTGT
* *
853548 TTAAATTAAATTAGTTACTTGGTAGATTATTTTTAGA
1 TTAAATTAAATTAGTTACTTAGTAGATTATTTTTAAA
*
853585 TTAAATTAAATTAGTTATTTAGTAGATTATTTTTAAA
1 TTAAATTAAATTAGTTACTTAGTAGATTATTTTTAAA
*
853622 TTGAATT
1 TTAAATT
853629 CGTTATAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.37, C:0.01, G:0.11, T:0.51
Consensus pattern (37 bp):
TTAAATTAAATTAGTTACTTAGTAGATTATTTTTAAA
Found at i:853973 original size:20 final size:21
Alignment explanation
Indices: 853932--853983 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
853922 GGTAATAGTG
*
853932 TTATTATTATTTAATAAAATA
1 TTATAATTATTTAATAAAATA
*
853953 TTATAATTATTT-ATTAAATA
1 TTATAATTATTTAATAAAATA
* *
853973 TCATAAATATT
1 TTATAATTATT
853984 AATGTTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATAATTATTTAATAAAATA
Found at i:855013 original size:14 final size:14
Alignment explanation
Indices: 854979--855006 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
854969 ATATTTTTAT
854979 TTAATTTAAATTAA
1 TTAATTTAAATTAA
854993 TTAATTTAAATTAA
1 TTAATTTAAATTAA
855007 GTTATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAATTTAAATTAA
Found at i:855848 original size:21 final size:21
Alignment explanation
Indices: 855819--855860 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
855809 TCCAGGAGGG
855819 ATGGAAGAGCAAAGTGGTGGA
1 ATGGAAGAGCAAAGTGGTGGA
* **
855840 ATGGGAGAGCATGGTGGTGGA
1 ATGGAAGAGCAAAGTGGTGGA
855861 CATAAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.05, G:0.48, T:0.17
Consensus pattern (21 bp):
ATGGAAGAGCAAAGTGGTGGA
Found at i:856284 original size:32 final size:32
Alignment explanation
Indices: 856248--856318 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
856238 TATAAATATT
* * *
856248 TAAATTTAATTTAATT-TGATAATAAAATAAAA
1 TAAATTT-ATTCAATTAAGATAAAAAAATAAAA
*
856280 TAAATTTATTCAGTTAAGATAAAAAAATAAAA
1 TAAATTTATTCAATTAAGATAAAAAAATAAAA
*
856312 TATATTT
1 TAAATTT
856319 GTTAAGCGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
31 6 0.18
32 27 0.82
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (32 bp):
TAAATTTATTCAATTAAGATAAAAAAATAAAA
Found at i:856582 original size:30 final size:28
Alignment explanation
Indices: 856548--856640 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 28
856538 AATTTTAAAA
*
856548 GTTAAGATGAGATAAAATATATATTTTTAT
1 GTTAA-ATAAGATAAAATATATATTTTT-T
*
856578 GTTAAATAAGAAAAAAATTATATATTTTTT
1 GTTAAATAAG-ATAAAA-TATATATTTTTT
* * *
856608 ATTAAATAACAGTAAAATATATATTTATT
1 GTTAAATAAGA-TAAAATATATATTTTTT
856637 GTTA
1 GTTA
856641 TTTGATAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
29 19 0.36
30 23 0.43
31 11 0.21
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.43
Consensus pattern (28 bp):
GTTAAATAAGATAAAATATATATTTTTT
Found at i:856628 original size:29 final size:30
Alignment explanation
Indices: 856559--856633 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
856549 TTAAGATGAG
* *
856559 ATAAAATATATATTTTTATGTTAAATAAGA
1 ATAAAATATATATTTTTATATTAAATAACA
*
856589 AAAAAATTATATATTTTT-TATTAAATAACA
1 ATAAAA-TATATATTTTTATATTAAATAACA
*
856619 GTAAAATATATATTT
1 ATAAAATATATATTT
856634 ATTGTTATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 9 0.23
30 19 0.49
31 11 0.28
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (30 bp):
ATAAAATATATATTTTTATATTAAATAACA
Found at i:856759 original size:34 final size:34
Alignment explanation
Indices: 856721--856791 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
856711 TATACTAAAA
* *
856721 ATACATAAATTATTATTAAATAAAGTTAATTATT
1 ATACATAAATTACTATAAAATAAAGTTAATTATT
* * *
856755 ATACATAAATTGCTATAAAATCAGGTTAATTATT
1 ATACATAAATTACTATAAAATAAAGTTAATTATT
856789 ATA
1 ATA
856792 AGATCAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.41
Consensus pattern (34 bp):
ATACATAAATTACTATAAAATAAAGTTAATTATT
Found at i:856763 original size:23 final size:22
Alignment explanation
Indices: 856702--856764 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 22
856692 CTTAAAACAC
* *
856702 ATAAATTATTATACTAAAAATAC
1 ATAAATTATTATAC-ATAAATAA
856725 ATAAATTATTAT---TAAATAA
1 ATAAATTATTATACATAAATAA
*
856744 AGTTAATTATTATACATAAAT
1 A-TAAATTATTATACATAAAT
856765 TGCTATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
19 6 0.18
20 10 0.30
23 17 0.52
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.40
Consensus pattern (22 bp):
ATAAATTATTATACATAAATAA
Found at i:857740 original size:2 final size:2
Alignment explanation
Indices: 857729--857764 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
857719 TATCCTATTT
*
857729 TA TA -A TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
857765 TGTGTTAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:859479 original size:18 final size:18
Alignment explanation
Indices: 859452--859498 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
859442 ATGTCAAAAT
*
859452 GGTATTGGTACTGAAGTG
1 GGTATCGGTACTGAAGTG
*
859470 TGTATCGGTACTGAAGTG
1 GGTATCGGTACTGAAGTG
859488 GGTATCGGTAC
1 GGTATCGGTAC
859499 CATAGAAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.21, C:0.11, G:0.36, T:0.32
Consensus pattern (18 bp):
GGTATCGGTACTGAAGTG
Found at i:860243 original size:23 final size:22
Alignment explanation
Indices: 860194--860268 Score: 80
Period size: 23 Copynumber: 3.4 Consensus size: 22
860184 GTCGAGGGTT
* *
860194 CTATGTGGTCCTTCGGGATAAA
1 CTATGTGGTCCTTTGGGACAAA
*
860216 TCTATGTGGTCCTTTTGGACAAA
1 -CTATGTGGTCCTTTGGGACAAA
* *
860239 CCTATATGGTCATTTGGGACAAA
1 -CTATGTGGTCCTTTGGGACAAA
860262 -TATGTGG
1 CTATGTGG
860269 CACTTCGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 6 0.14
23 38 0.86
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (22 bp):
CTATGTGGTCCTTTGGGACAAA
Found at i:864612 original size:9 final size:9
Alignment explanation
Indices: 864550--864633 Score: 70
Period size: 9 Copynumber: 9.6 Consensus size: 9
864540 CAATAAATAG
864550 AAATAAAAT
1 AAATAAAAT
864559 -AATAAAAT
1 AAATAAAAT
**
864567 -AATAAAGG
1 AAATAAAAT
**
864575 AAA-AGAAGG
1 AAATA-AAAT
864584 AAA-AAAAT
1 AAATAAAAT
864592 AAATACAAAT
1 AAATA-AAAT
864602 AAATAAAAT
1 AAATAAAAT
864611 AAATAAAAT
1 AAATAAAAT
864620 -AATAATAAT
1 AAATAA-AAT
864629 AAATA
1 AAATA
864634 GTAAAAATAA
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
8 25 0.38
9 27 0.42
10 13 0.20
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:864791 original size:16 final size:16
Alignment explanation
Indices: 864770--864803 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
864760 ATATACATCC
* *
864770 TAAAAATAATAAAATA
1 TAAAAAGAAGAAAATA
864786 TAAAAAGAAGAAAATA
1 TAAAAAGAAGAAAATA
864802 TA
1 TA
864804 TATAAATGTA
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:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (16 bp):
TAAAAAGAAGAAAATA
Found at i:872227 original size:20 final size:20
Alignment explanation
Indices: 872202--872241 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
872192 TTTTGGTGCA
872202 GAGGGAA-TCGATCCCCCCTT
1 GAGGGAACT-GATCCCCCCTT
*
872222 GAGGGAACTGATTCCCCCTT
1 GAGGGAACTGATCCCCCCTT
872242 TGAAGGGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.20, C:0.33, G:0.25, T:0.23
Consensus pattern (20 bp):
GAGGGAACTGATCCCCCCTT
Found at i:872239 original size:21 final size:23
Alignment explanation
Indices: 872204--872263 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
872194 TTGGTGCAGA
*
872204 GGGAATCGA-TCCCCCCTTG-A-
1 GGGAACCGATTCCCCCCTTGAAG
* *
872224 GGGAACTGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCCTTGAAG
872247 GGGAACCGATTCCCCCC
1 GGGAACCGATTCCCCCC
872264 ACAGGGGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 7 0.22
21 9 0.28
22 1 0.03
23 15 0.47
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (23 bp):
GGGAACCGATTCCCCCCTTGAAG
Found at i:885473 original size:123 final size:122
Alignment explanation
Indices: 885255--885503 Score: 392
Period size: 123 Copynumber: 2.0 Consensus size: 122
885245 GTACGTGTTC
* * *
885255 GTTTGTTGAGCATGAATTTCTTTTTACATTGCACTTTTGCTCAAGTTTGACCATTGAATGGTGAT
1 GTTTGTTGAACATGAATTTCTTTGTACATTGCACTTTTGCTCAAATTTGACCATTGAATGGTGAT
* * *
885320 ACATAGGGTACATACTGAATTAATGCTGGGGTAGAATATCTGTATCAATCAATCTTT
66 ACATAGGGTACAGACTGAATTAATGATGGGGTAGAATATCTGTATCAATCAATCTTG
*
885377 GTTTGTTGAACATGAATTTCTTTGTACATTTGCACTTTTGCT-AAATTTAGATCATTGAATGGTG
1 GTTTGTTGAACATGAATTTCTTTGTACA-TTGCACTTTTGCTCAAATTT-GACCATTGAATGGTG
* *
885441 ATACATAGGGTACAGACTGAATTAATGATGGGGTAGAATATTTGTATCATTCAATCTTG
64 ATACATAGGGTACAGACTGAATTAATGATGGGGTAGAATATCTGTATCAATCAATCTTG
885500 GTTT
1 GTTT
885504 CCTAGATGTT
Statistics
Matches: 116, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
122 31 0.27
123 85 0.73
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (122 bp):
GTTTGTTGAACATGAATTTCTTTGTACATTGCACTTTTGCTCAAATTTGACCATTGAATGGTGAT
ACATAGGGTACAGACTGAATTAATGATGGGGTAGAATATCTGTATCAATCAATCTTG
Found at i:885533 original size:22 final size:22
Alignment explanation
Indices: 885505--885552 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
885495 TCTTGGTTTC
*
885505 CTAGATGTTAGTGG-CAATCCAG
1 CTAGATGTCAG-GGACAATCCAG
885527 CTAGATGTCAGGGACAATCCAG
1 CTAGATGTCAGGGACAATCCAG
885549 CTAG
1 CTAG
885553 CTTGTGCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (22 bp):
CTAGATGTCAGGGACAATCCAG
Found at i:885785 original size:36 final size:36
Alignment explanation
Indices: 885738--885888 Score: 194
Period size: 36 Copynumber: 4.2 Consensus size: 36
885728 TCTAGTTTAA
*
885738 AAAAGCAGCCATGTGAGTTATGAACTTATCTATTAG
1 AAAAGAAGCCATGTGAGTTATGAACTTATCTATTAG
*
885774 AAAAGAAGCCATGTGAGTTATGAGCTTATCTATTAG
1 AAAAGAAGCCATGTGAGTTATGAACTTATCTATTAG
* ** *
885810 AGAAGTGGCCATGTGAGTTATGAGCTTATCTATTAG
1 AAAAGAAGCCATGTGAGTTATGAACTTATCTATTAG
* ** * *
885846 AGAAGTGGCCATGTGAGTTATGAACCTATCTATTGG
1 AAAAGAAGCCATGTGAGTTATGAACTTATCTATTAG
*
885882 AATAGAA
1 AAAAGAA
885889 TTTAATATCA
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 103 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (36 bp):
AAAAGAAGCCATGTGAGTTATGAACTTATCTATTAG
Found at i:885862 original size:72 final size:72
Alignment explanation
Indices: 885745--885879 Score: 216
Period size: 72 Copynumber: 1.9 Consensus size: 72
885735 TAAAAAAGCA
* *
885745 GCCATGTGAGTTATGAACTTATCTATTAGAAAAGAAGCCATGTGAGTTATGAGCTTATCTATTAG
1 GCCATGTGAGTTATGAACTTATCTATTAGAAAAGAAGCCATGTGAGTTATGAACCTATCTATTAG
885810 AGAAGTG
66 AGAAGTG
* * **
885817 GCCATGTGAGTTATGAGCTTATCTATTAGAGAAGTGGCCATGTGAGTTATGAACCTATCTATT
1 GCCATGTGAGTTATGAACTTATCTATTAGAAAAGAAGCCATGTGAGTTATGAACCTATCTATT
885880 GGAATAGAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 57 1.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (72 bp):
GCCATGTGAGTTATGAACTTATCTATTAGAAAAGAAGCCATGTGAGTTATGAACCTATCTATTAG
AGAAGTG
Found at i:887720 original size:25 final size:25
Alignment explanation
Indices: 887688--887747 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
887678 ATTTGTAGTA
887688 GAAAAATAATATTTATTATAATGAC
1 GAAAAATAATATTTATTATAATGAC
887713 GAAAAATAATATTTATTATAATGAC
1 GAAAAATAATATTTATTATAATGAC
*
887738 AAAAAATAAT
1 GAAAAATAAT
887748 GATACCATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (25 bp):
GAAAAATAATATTTATTATAATGAC
Found at i:887793 original size:38 final size:38
Alignment explanation
Indices: 887751--887856 Score: 169
Period size: 38 Copynumber: 2.8 Consensus size: 38
887741 AAATAATGAT
887751 ACCATTAATAACCCGGGTAGGTTGGTGGTTATTAATTA
1 ACCATTAATAACCCGGGTAGGTTGGTGGTTATTAATTA
887789 ACCATTAATAATCCC-GGTAGGTTGGTGGTTATTAATTA
1 ACCATTAATAA-CCCGGGTAGGTTGGTGGTTATTAATTA
** *
887827 TTCATTAATAATCCGGGTAGGTTGGTGGTT
1 ACCATTAATAACCCGGGTAGGTTGGTGGTT
887857 GAACGGGAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
37 2 0.03
38 58 0.92
39 3 0.05
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (38 bp):
ACCATTAATAACCCGGGTAGGTTGGTGGTTATTAATTA
Found at i:888057 original size:22 final size:25
Alignment explanation
Indices: 888011--888059 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
888001 TAGAAATTTT
*
888011 TTTATTATAATGAAGAAAAATAATA
1 TTTACTATAATGAAGAAAAATAATA
*
888036 TTTACTATAATGAAAAAAAATAAT
1 TTTACTATAATGAAGAAAAATAAT
888060 GGCACCAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (25 bp):
TTTACTATAATGAAGAAAAATAATA
Found at i:888119 original size:45 final size:45
Alignment explanation
Indices: 888068--888155 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
888058 ATGGCACCAG
* * *
888068 TAATTATCCATTAATAACCCGGGTAGGTTGGTTGTTGGTGGTTAT
1 TAATTATCCATTAATAACCAGGGTAGGTTGATGGTTGGTGGTTAT
888113 TAATTATCCATTAATAACCAGGGTAGGTTGATGGTTGGTGGTT
1 TAATTATCCATTAATAACCAGGGTAGGTTGATGGTTGGTGGTT
888156 GAACGGGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.39
Consensus pattern (45 bp):
TAATTATCCATTAATAACCAGGGTAGGTTGATGGTTGGTGGTTAT
Found at i:888207 original size:299 final size:294
Alignment explanation
Indices: 887809--888561 Score: 989
Period size: 299 Copynumber: 2.6 Consensus size: 294
887799 ATCCCGGTAG
*
887809 GTTGGTGGTTATTAATTATTCATTAATAATCC--G-GGTAGGTTGGTGGTTGAACGGGAAAATAT
1 GTTGGTGGTTATTAATTATCCATTAATAA-CCAGGAGGTAGGTTGGTGGTTGAACGGGAAAATAT
* * *
887871 AATGAATTAGAGAGTAATAAATTCGAAGTACTAATAAGTATTTATAAAAAATATCAAGTAATAAA
65 AATGAATTAGAGAGTAATAAATTTGAAGTAATAATAAGTAATTATAAAAAATATCAAGTAATAAA
* *
887936 TTTAATCATTATTATAATGTAATCATAGTATTTAATCCGAACATATTTTGATTTATTATTTGTAG
130 TTTAATCATTATTATAATGTAATCATAGTATTTAATCCGAACATA-TTTGATTTAGTATTTGTAC
* *
888001 TAGAA-ATT-T-T-TTTATTATAATGAAGAAAAATAATATTTACTATAATGAAAAAAAATAATGG
194 TAAAATATTATATATTTATTATAATGAAGAAAAATAATATTTACTATAATGAAAAAAAATAATAG
888062 CACCAGTAATTATCCATTAATAACCCGGGTAGGTTGGTT
259 CACCAGTAATTATCCATTAATAACCCGGGTAGG-T--TT
888101 GTTGGTGGTTATTAATTATCCATTAATAACCAGGGTAGGTTGATGGTTGGTGGTTGAACGGGAAA
1 GTTGGTGGTTATTAATTATCCATTAATAACCA-GG-AGG-T-A-GGTTGGTGGTTGAACGGGAAA
* *
888166 ATATAATGAATTAGAGAGTAATAAATTTGAAGTAATAATAAGCAATTATAAAAAATATGAAGTAA
61 ATATAATGAATTAGAGAGTAATAAATTTGAAGTAATAATAAGTAATTATAAAAAATATCAAGTAA
*
888231 TAAATTTAATCATTATTATAATGTAATCATACTATTTAATCCGAACATATTTGATTTAGTATTTG
126 TAAATTTAATCATTATTATAATGTAATCATAGTATTTAATCCGAACATATTTGATTTAGTATTTG
* * * *
888296 TACTAAAATTTTATTATAATATTTATTATAATGACGAAGAATAATATTTATTATAATGACAAAAA
191 TACTAAAA---TATTAT-ATATTTATTATAATGAAGAAAAATAATATTTACTATAATGAAAAAAA
** * * *
888361 ATAATAGCACCTTTAATTATTCATTAATAATCCGTGTAGGTTT
252 ATAATAGCACCAGTAATTATCCATTAATAACCCGGGTAGGTTT
* * * *
888404 G-TGGTTGG-TATTAATTAACCATTAATAACCAGGA--TAGGTTGGTGGTTAAACAGGAAAGTAT
1 GTTGG-TGGTTATTAATTATCCATTAATAACCAGGAGGTAGGTTGGTGGTTGAACGGGAAAATAT
* *
888465 AATGAATTAGAGAGTAATAAATTTG-A--AATAATAATTAGTTATAAAAAAT-TCGAAGTAATAA
65 AATGAATTAGAGAGTAATAAATTTGAAGTAATAATAAGTAATTATAAAAAATATC-AAGTAATAA
**
888526 ATTTAAT-ATTTAGGATAATGTAATCATAGTATTTAA
129 ATTTAATCA-TTATTATAATGTAATCATAGTATTTAA
888562 GCATTATTTT
Statistics
Matches: 411, Mismatches: 31, Indels: 38
0.86 0.06 0.08
Matches are distributed among these distances:
291 4 0.01
292 88 0.21
294 2 0.00
295 47 0.11
296 3 0.01
297 2 0.00
298 22 0.05
299 129 0.31
300 1 0.00
301 2 0.00
302 28 0.07
303 7 0.02
305 2 0.00
306 74 0.18
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.37
Consensus pattern (294 bp):
GTTGGTGGTTATTAATTATCCATTAATAACCAGGAGGTAGGTTGGTGGTTGAACGGGAAAATATA
ATGAATTAGAGAGTAATAAATTTGAAGTAATAATAAGTAATTATAAAAAATATCAAGTAATAAAT
TTAATCATTATTATAATGTAATCATAGTATTTAATCCGAACATATTTGATTTAGTATTTGTACTA
AAATATTATATATTTATTATAATGAAGAAAAATAATATTTACTATAATGAAAAAAAATAATAGCA
CCAGTAATTATCCATTAATAACCCGGGTAGGTTT
Found at i:888363 original size:22 final size:25
Alignment explanation
Indices: 888311--888366 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
888301 AAATTTTATT
888311 ATAATATTTATTATAATGACGAAGA
1 ATAATATTTATTATAATGACGAAGA
* *
888336 ATAATATTTATTATAATGACAAAAA
1 ATAATATTTATTATAATGACGAAGA
888361 ATAATA
1 ATAATA
888367 GCACCTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.36
Consensus pattern (25 bp):
ATAATATTTATTATAATGACGAAGA
Found at i:888606 original size:29 final size:27
Alignment explanation
Indices: 888570--888623 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 27
888560 AAGCATTATT
888570 TTTTTTAAAATATTGTTAAT-ATATTTACA
1 TTTTTTAAAA-A-T-TTAATAATATTTACA
888599 TTTTTTAAAAATTTAATAATATTTA
1 TTTTTTAAAAATTTAATAATATTTA
888624 TTATAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 5 0.21
27 8 0.33
28 1 0.04
29 10 0.42
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (27 bp):
TTTTTTAAAAATTTAATAATATTTACA
Found at i:891501 original size:27 final size:27
Alignment explanation
Indices: 891463--891737 Score: 154
Period size: 27 Copynumber: 9.5 Consensus size: 27
891453 TATTTTAATG
* *
891463 AATGTTATTAATATCAATAGTTGCATT
1 AATGTGATTAATATCAATAGTTGAATT
*
891490 AATGTGATTAATATCAATATTTGAATT
1 AATGTGATTAATATCAATAGTTGAATT
* * * * * *
891517 AATATGATTGATATTTGTTGACGCTATATTTTAATG
1 AATGTGATT-A-A-----T-A-TCAATAGTTGAATT
* * *
891553 AATATGAGTAATATCAATAGTTGAATG
1 AATGTGATTAATATCAATAGTTGAATT
*
891580 AATGTGAATAATATCAATAGTTGAATT
1 AATGTGATTAATATCAATAGTTGAATT
*
891607 AATGTGATTAATATCAATATTTGAATT
1 AATGTGATTAATATCAATAGTTGAATT
** * * * * *
891634 AATATGATGGATATTTGTTTACGCTATATTTTAATG
1 -A-ATG-T-G--A-TT-AATA-TCAATAGTTGAATT
* *
891670 AATGTGATTAATATCAATAGTTTAATA
1 AATGTGATTAATATCAATAGTTGAATT
* *
891697 AATGTGATTAATATCAATATTTGAATG
1 AATGTGATTAATATCAATAGTTGAATT
*
891724 AATGTGATGAATAT
1 AATGTGATTAATAT
891738 TAATTCAACT
Statistics
Matches: 196, Mismatches: 34, Indels: 36
0.74 0.13 0.14
Matches are distributed among these distances:
27 138 0.70
28 5 0.03
29 7 0.04
30 2 0.01
31 1 0.01
32 1 0.01
33 2 0.01
34 7 0.04
35 5 0.03
36 28 0.14
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.42
Consensus pattern (27 bp):
AATGTGATTAATATCAATAGTTGAATT
Found at i:891538 original size:90 final size:90
Alignment explanation
Indices: 891419--891620 Score: 280
Period size: 90 Copynumber: 2.2 Consensus size: 90
891409 TATATATTTT
* * * * * *
891419 TTTGCATTAATATTA-TGAATATTTTTTGACGCTATATTTTAATGAATGTTATTAATATCAATAG
1 TTTGAATTAATATGATTG-ATATTTGTTGACGCTATATTTTAATGAATATGAGTAATATCAATAG
* * *
891483 TTGCATTAATGTGATTAATATCAATA
65 TTGAATGAATGTGAATAATATCAATA
891509 TTTGAATTAATATGATTGATATTTGTTGACGCTATATTTTAATGAATATGAGTAATATCAATAGT
1 TTTGAATTAATATGATTGATATTTGTTGACGCTATATTTTAATGAATATGAGTAATATCAATAGT
891574 TGAATGAATGTGAATAATATCAATA
66 TGAATGAATGTGAATAATATCAATA
* * *
891599 GTTGAATTAATGTGATTAATAT
1 TTTGAATTAATATGATTGATAT
891621 CAATATTTGA
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
90 97 0.98
91 2 0.02
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.44
Consensus pattern (90 bp):
TTTGAATTAATATGATTGATATTTGTTGACGCTATATTTTAATGAATATGAGTAATATCAATAGT
TGAATGAATGTGAATAATATCAATA
Found at i:891592 original size:117 final size:117
Alignment explanation
Indices: 891459--891737 Score: 450
Period size: 117 Copynumber: 2.4 Consensus size: 117
891449 GCTATATTTT
* *
891459 AATGAATGTTATTAATATCAATAGTTGCATTAATGTGATTAATATCAATATTTGAATTAATATGA
1 AATGAATGTGATTAATATCAATAGTTGAATTAATGTGATTAATATCAATATTTGAATTAATATGA
*
891524 TTGATATTTGTTGACGCTATATTTTAATGAATATGAGTAATATCAATAGTTG
66 TGGATATTTGTTGACGCTATATTTTAATGAATATGAGTAATATCAATAGTTG
*
891576 AATGAATGTGAATAATATCAATAGTTGAATTAATGTGATTAATATCAATATTTGAATTAATATGA
1 AATGAATGTGATTAATATCAATAGTTGAATTAATGTGATTAATATCAATATTTGAATTAATATGA
* * * *
891641 TGGATATTTGTTTACGCTATATTTTAATGAATGTGATTAATATCAATAGTTT
66 TGGATATTTGTTGACGCTATATTTTAATGAATATGAGTAATATCAATAGTTG
* * * *
891693 AATAAATGTGATTAATATCAATATTTGAATGAATGTGATGAATAT
1 AATGAATGTGATTAATATCAATAGTTGAATTAATGTGATTAATAT
891738 TAATTCAACT
Statistics
Matches: 149, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
117 149 1.00
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.42
Consensus pattern (117 bp):
AATGAATGTGATTAATATCAATAGTTGAATTAATGTGATTAATATCAATATTTGAATTAATATGA
TGGATATTTGTTGACGCTATATTTTAATGAATATGAGTAATATCAATAGTTG
Found at i:891755 original size:90 final size:90
Alignment explanation
Indices: 891576--891755 Score: 245
Period size: 90 Copynumber: 2.0 Consensus size: 90
891566 TCAATAGTTG
* *
891576 AATGAATGTGAATAATATCAATAGTTGAATTAATGTGATTAATATCAATATTTGAATTAATATGA
1 AATGAATGTGAATAATATCAATAGTTGAATAAATGTGATTAATATCAATATTTGAATGAATATGA
* ** * *
891641 TGGATATTTGTTTACGCTATATTTT
66 TGAATATTAATTAACGCTAAATTTT
* * *
891666 AATGAATGTGATTAATATCAATAGTTTAATAAATGTGATTAATATCAATATTTGAATGAATGTGA
1 AATGAATGTGAATAATATCAATAGTTGAATAAATGTGATTAATATCAATATTTGAATGAATATGA
*
891731 TGAATATTAATTCAAC-TTAAATTTT
66 TGAATATTAATT-AACGCTAAATTTT
891756 TAAAATTCAA
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
90 76 0.97
91 2 0.03
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.42
Consensus pattern (90 bp):
AATGAATGTGAATAATATCAATAGTTGAATAAATGTGATTAATATCAATATTTGAATGAATATGA
TGAATATTAATTAACGCTAAATTTT
Found at i:894378 original size:327 final size:324
Alignment explanation
Indices: 893777--894381 Score: 824
Period size: 327 Copynumber: 1.8 Consensus size: 324
893767 ATAAAAAACC
* * *
893777 AAAATTAAAATAAATAGTCTCATAATTTATATTACTCAATAAAAAAAGAAAAATTATAATTTGAA
1 AAAATAAAAATAAATAGTCTCATAATTTATATTACTCAATAAAAAAAGAAAAATAATAATTTAAA
* * **
893842 CTAAACTTACCAAGCTACTCAAATACAACTTAATATGTAAAATCAAAATAAATAGTTTAATATTT
66 CTAAACTTACCAAACTACTCAAATACAACTTAAAATGTAAAATCAAAATAAATAGAATAATATTT
*
893907 ATAATTTAAATTAAAAACCAAAATTATACTAAAATACATGAAAATATAAATTAAACTTACCAAAT
131 ATAATTCAAATTAAAAACCAAAATTATACTAAAATACATGAAAATATAAATTAAACTTACCAAAT
*** * *
893972 CACTTGGATACAATTTAATCTCTAAAATCAAAATAAATAGTATAATTACTTTATATTTACAATAA
196 CACTCAAATACAATTTAATATCTAAAATAAAAATAAATAGTATAATTACTTTATATTTACAAT-A
894037 AACCCTAAACCCTAAACAATATATTTTTCACTAAACTTACCAAACCACTCAAATACGATTTAATC
260 AA--C-AAACCCTAAACAATATATTTTTCACTAAACTTACCAAACCACTCAAATACGATTTAATC
894102 CCT
322 CCT
* **
894105 AAAATAAAAATAATTAGTCTCATAATTTATATTACTCAATAAAAAATTAAAAA-AATAATTTAAA
1 AAAATAAAAATAAATAGTCTCATAATTTATATTACTCAATAAAAAAAGAAAAATAATAATTTAAA
* *
894169 CTAAACTTATCAAACTACTCAAATACAACTTAAAATTTAAAATCAAAATAAATAGAATAATAATT
66 CTAAACTTACCAAACTACTCAAATACAACTTAAAATGTAAAATCAAAATAAATAGAATAAT-ATT
*
894234 T-TAATTCAAATTAAAAACCAAAATTATATATTAAAAATAACATGAAAATATAAATTAAACTTAC
130 TATAATTCAAATTAAAAACCAAAA-T-TATACT-AAAAT-ACATGAAAATATAAATTAAACTTAC
**** * *
894298 TTGTTTCCACTCAAATACAATTTAATATGTAAAATAAAAATAAATAGTCTAATTGA-TTTATATT
191 -CAAAT-CACTCAAATACAATTTAATATCTAAAATAAAAATAAATAGTATAATT-ACTTTATATT
**
894362 TATGAT-AA-AAACCCTAAACA
253 TACAATAAACAAACCCTAAACA
894382 CTAAATAATA
Statistics
Matches: 242, Mismatches: 27, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
327 97 0.40
328 54 0.22
329 5 0.02
330 5 0.02
331 27 0.11
332 1 0.00
333 52 0.21
334 1 0.00
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.32
Consensus pattern (324 bp):
AAAATAAAAATAAATAGTCTCATAATTTATATTACTCAATAAAAAAAGAAAAATAATAATTTAAA
CTAAACTTACCAAACTACTCAAATACAACTTAAAATGTAAAATCAAAATAAATAGAATAATATTT
ATAATTCAAATTAAAAACCAAAATTATACTAAAATACATGAAAATATAAATTAAACTTACCAAAT
CACTCAAATACAATTTAATATCTAAAATAAAAATAAATAGTATAATTACTTTATATTTACAATAA
ACAAACCCTAAACAATATATTTTTCACTAAACTTACCAAACCACTCAAATACGATTTAATCCCT
Found at i:894876 original size:25 final size:25
Alignment explanation
Indices: 894848--894899 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
894838 CATGCATTGA
*
894848 ATTATTGGTGCATAATAATGGCACC
1 ATTATTAGTGCATAATAATGGCACC
*
894873 ATTATTAGTGCCTAATAATGGCACC
1 ATTATTAGTGCATAATAATGGCACC
894898 AT
1 AT
894900 GATTTGGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (25 bp):
ATTATTAGTGCATAATAATGGCACC
Found at i:895709 original size:24 final size:26
Alignment explanation
Indices: 895674--895737 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
895664 TTACTTTAAG
895674 AAATAT-TGTTTAT-ATTAACTT-GTT
1 AAATATAT-TTTATAATTAACTTAGTT
*
895698 AAATATATTTTATAATTAATTTCAGTT
1 AAATATATTTTATAATTAACTT-AGTT
*
895725 AAAAATATTTTAT
1 AAATATATTTTAT
895738 TTTTATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 11 0.32
25 8 0.24
27 15 0.44
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.52
Consensus pattern (26 bp):
AAATATATTTTATAATTAACTTAGTT
Found at i:895752 original size:26 final size:27
Alignment explanation
Indices: 895695--895757 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
895685 ATATTAACTT
* *
895695 GTTAAATATATTTTATAATTAATTTCA
1 GTTAAAAATATTTTATAATTAATTTAA
* *
895722 GTTAAAAATATTTTAT-TTTTATTTAA
1 GTTAAAAATATTTTATAATTAATTTAA
*
895748 TTTAAAAATA
1 GTTAAAAATA
895758 AATAATTTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 16 0.52
27 15 0.48
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (27 bp):
GTTAAAAATATTTTATAATTAATTTAA
Found at i:900210 original size:9 final size:8
Alignment explanation
Indices: 900190--900268 Score: 56
Period size: 8 Copynumber: 9.4 Consensus size: 8
900180 TCAAAACAAT
900190 TAATAAACA
1 TAATAAA-A
900199 TAATTAAAA
1 TAA-TAAAA
900208 TAATAAAA
1 TAATAAAA
*
900216 TAACAATAA
1 TAATAA-AA
900225 TAA-AAAA
1 TAATAAAA
900232 T-ATAAAAA
1 TAAT-AAAA
*
900240 CAAATAAAA
1 -TAATAAAA
900249 -AATAAAA
1 TAATAAAA
900256 TAAAATAAAA
1 T--AATAAAA
900266 TAA
1 TAA
900269 ACACAAATAC
Statistics
Matches: 59, Mismatches: 2, Indels: 19
0.74 0.03 0.24
Matches are distributed among these distances:
6 1 0.02
7 10 0.17
8 18 0.31
9 16 0.27
10 14 0.24
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (8 bp):
TAATAAAA
Found at i:900217 original size:23 final size:21
Alignment explanation
Indices: 900191--900263 Score: 82
Period size: 19 Copynumber: 3.5 Consensus size: 21
900181 CAAAACAATT
900191 AATAAACATAATTAAAATAATAA
1 AATAAACATAA-TAAAA-AATAA
*
900214 AAT-AACAATAATAAAAAATAT
1 AATAAAC-ATAATAAAAAATAA
900235 AA-AAACA-AATAAAAAATAA
1 AATAAACATAATAAAAAATAA
900254 AATAAA-ATAA
1 AATAAACATAA
900264 AATAAACACA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
19 14 0.32
20 6 0.14
21 9 0.20
22 8 0.18
23 7 0.16
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (21 bp):
AATAAACATAATAAAAAATAA
Found at i:900226 original size:17 final size:16
Alignment explanation
Indices: 900206--900269 Score: 60
Period size: 15 Copynumber: 3.9 Consensus size: 16
900196 ACATAATTAA
900206 AATAATAAAATAACAAT
1 AATAATAAAATAA-AAT
* *
900223 AATAAAAAATATAAAAACA
1 AATAATAAA-AT-AAAA-T
900242 AATAA-AAAATAAAAT
1 AATAATAAAATAAAAT
900257 AA-AATAAAATAAA
1 AATAATAAAATAAA
900270 CACAAATACA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 2 0.05
15 10 0.25
16 4 0.10
17 10 0.25
18 7 0.17
19 7 0.17
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
AATAATAAAATAAAAT
Found at i:900257 original size:5 final size:5
Alignment explanation
Indices: 900209--900269 Score: 52
Period size: 5 Copynumber: 11.2 Consensus size: 5
900199 TAATTAAAAT
*
900209 AATAA AATAA CAATAA TAA-AA AATATA AAAACA AATAAAA AATAA AATAA
1 AATAA AATAA -AATAA -AATAA AATA-A AATA-A AAT--AA AATAA AATAA
900259 AATAA AATAA A
1 AATAA AATAA A
900270 CACAAATACA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
4 2 0.04
5 26 0.55
6 14 0.30
7 4 0.09
8 1 0.02
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:900266 original size:22 final size:21
Alignment explanation
Indices: 900204--900269 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 21
900194 AAACATAATT
*
900204 AAAATAATAAAATAACAATAATA
1 AAAAAAATAAAATAA-AATAA-A
*
900227 AAAAATATAAAA-ACAAATAAA
1 AAAAAAATAAAATA-AAATAAA
900248 AAATAAAATAAAATAAAATAAA
1 AAA-AAAATAAAATAAAATAAA
900270 CACAAATACA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 4 0.11
22 21 0.57
23 12 0.32
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (21 bp):
AAAAAAATAAAATAAAATAAA
Found at i:900275 original size:32 final size:36
Alignment explanation
Indices: 900205--900277 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 36
900195 AACATAATTA
900205 AAATAATAAAATAACAATAATAAAAAATATAAAAAC
1 AAATAATAAAATAACAATAATAAAAAATATAAAAAC
* *
900241 AAATAA-AAAATAA-AATAA-AATAAA-ATAAACAC
1 AAATAATAAAATAACAATAATAAAAAATATAAAAAC
900273 AAATA
1 AAATA
900278 CAAGGACCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 12 0.34
33 5 0.14
34 5 0.14
35 7 0.20
36 6 0.17
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (36 bp):
AAATAATAAAATAACAATAATAAAAAATATAAAAAC
Found at i:902070 original size:59 final size:59
Alignment explanation
Indices: 901924--902116 Score: 167
Period size: 59 Copynumber: 3.3 Consensus size: 59
901914 GGAATGTTGG
* * * * * * * *
901924 TCCCTCAGGTGAGGCATGGCTAATTCGAAGTGTTGTGAATCGAGCACATGAAAA-G-TCA
1 TCCCTCAAGTGAGGCGTCGCTGATTCGAAGTATTGTGAATCAAGCA-AAGAAAATGTTAA
** * * * ** * *
901982 TCCCCTCTGGTG-GGCATTGTTGATTCGAAGTATTGTGTGTCAAGCAAAGGAAATGTTGA
1 T-CCCTCAAGTGAGGCGTCGCTGATTCGAAGTATTGTGAATCAAGCAAAGAAAATGTTAA
* * *
902041 TCCCTCAAGTGGGGCGTCGCTGATTCGAAGTGTTGTGAATCTAGCAAAGAAAATGTTAA
1 TCCCTCAAGTGAGGCGTCGCTGATTCGAAGTATTGTGAATCAAGCAAAGAAAATGTTAA
902100 TCCCTCAAGTGAGGCGT
1 TCCCTCAAGTGAGGCGT
902117 AATTTGTTTT
Statistics
Matches: 108, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
57 5 0.05
58 37 0.34
59 66 0.61
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.27
Consensus pattern (59 bp):
TCCCTCAAGTGAGGCGTCGCTGATTCGAAGTATTGTGAATCAAGCAAAGAAAATGTTAA
Found at i:902247 original size:39 final size:38
Alignment explanation
Indices: 902132--902538 Score: 548
Period size: 39 Copynumber: 10.6 Consensus size: 38
902122 GTTTTAAGAA
* * * *
902132 AAACGATCTCAAGGGAGATAAATCTTATGTTTTGAGTG
1 AAACTATCTCAAGCGAGATAAATCTTCTGTTTCGAGTG
* *
902170 AAACTATCTCAAGCGAGATAAATCTTCCGTTTCAAGTG
1 AAACTATCTCAAGCGAGATAAATCTTCTGTTTCGAGTG
* * *
902208 AAACTATCTTC-AGCAATATCAAATCTTCTGTTCCGAGTG
1 AAACTATC-TCAAGCGAGAT-AAATCTTCTGTTTCGAGTG
902247 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGAT-AAATCTTCTGTTTCGAGTG
* *
902286 AAACTATCTCAAGCGATATAAATCTTTTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAATCTTCTGTTTCGAGTG
* *
902324 AAACTATCTAAAGCGAGATAAAATCTTTTGTTTCGAGTG
1 AAACTATCTCAAGCGAGAT-AAATCTTCTGTTTCGAGTG
* * * *
902363 AAACTATATCAAACGAGATAAATATTTTGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAATCTTCTGTTTCGAGTG
*
902401 AAACTATCTCAAGCGAGATAAATCTTCTATTTCGAGTG
1 AAACTATCTCAAGCGAGATAAATCTTCTGTTTCGAGTG
*
902439 AAACTATCTTAAGCGAGATAAAATCTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGAT-AAATCTTCTGTTTCGAGTG
*
902478 AAACTATCTCAAGCGAGATAAAATCTTCT-TCTTCCAGTG
1 AAACTATCTCAAGCGAGAT-AAATCTTCTGT-TTCGAGTG
*
902517 AAAATATCTCAAGCGAGATAAA
1 AAACTATCTCAAGCGAGATAAA
902539 CAAGATTTCA
Statistics
Matches: 330, Mismatches: 33, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
38 156 0.47
39 174 0.53
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (38 bp):
AAACTATCTCAAGCGAGATAAATCTTCTGTTTCGAGTG
Found at i:902309 original size:77 final size:77
Alignment explanation
Indices: 902132--902538 Score: 561
Period size: 77 Copynumber: 5.3 Consensus size: 77
902122 GTTTTAAGAA
* * * *
902132 AAACGATCTCAAGGGAGATAAATCTTATGTTTTGAGTGAAACTATCTCAAGCGAGAT-AAATCTT
1 AAACTATCTCAAGCGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAAATCTT
* *
902196 CCGTTTCAAGTG
66 CTGTTTCGAGTG
* * *
902208 AAACTATCTTC-AGCAATATCAAATCTTCTGTTCCGAGTGAAACTATCTCAAGCGAGATAAAATC
1 AAACTATC-TCAAGCGAGAT-AAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAAATC
902272 TTCTGTTTCGAGTG
64 TTCTGTTTCGAGTG
* * *
902286 AAACTATCTCAAGCGATATAAATCTTTTGTTTCGAGTGAAACTATCTAAAGCGAGATAAAATCTT
1 AAACTATCTCAAGCGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAAATCTT
*
902351 TTGTTTCGAGTG
66 CTGTTTCGAGTG
* * * *
902363 AAACTATATCAAACGAGATAAATATTTTGTTTCGAGTGAAACTATCTCAAGCGAGAT-AAATCTT
1 AAACTATCTCAAGCGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAAATCTT
*
902427 CTATTTCGAGTG
66 CTGTTTCGAGTG
*
902439 AAACTATCTTAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAAATCT
1 AAACTATCTCAAGCGAGAT-AAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAAATCT
*
902504 TCT-TCTTCCAGTG
65 TCTGT-TTCGAGTG
*
902517 AAAATATCTCAAGCGAGATAAA
1 AAACTATCTCAAGCGAGATAAA
902539 CAAGATTTCA
Statistics
Matches: 295, Mismatches: 29, Indels: 13
0.88 0.09 0.04
Matches are distributed among these distances:
76 45 0.15
77 185 0.63
78 65 0.22
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (77 bp):
AAACTATCTCAAGCGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAAATCTT
CTGTTTCGAGTG
Found at i:902417 original size:19 final size:19
Alignment explanation
Indices: 902395--902494 Score: 55
Period size: 19 Copynumber: 5.2 Consensus size: 19
902385 TATTTTGTTT
902395 CGAGTGAAACTATCTCAAG
1 CGAGTGAAACTATCTCAAG
**
902414 CGAGAT-AAATCT-TCT-ATTT
1 CGAG-TGAAA-CTATCTCA-AG
*
902433 CGAGTGAAACTATCTTAAG
1 CGAGTGAAACTATCTCAAG
* ****
902452 CGAGATAAAATCT-TCTGTTT
1 CGAG-TGAAA-CTATCTCAAG
902472 CGAGTGAAACTATCTCAAG
1 CGAGTGAAACTATCTCAAG
902491 CGAG
1 CGAG
902495 ATAAAATCTT
Statistics
Matches: 58, Mismatches: 14, Indels: 18
0.64 0.16 0.20
Matches are distributed among these distances:
18 6 0.10
19 35 0.60
20 15 0.26
21 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (19 bp):
CGAGTGAAACTATCTCAAG
Found at i:902577 original size:115 final size:113
Alignment explanation
Indices: 902132--902561 Score: 471
Period size: 116 Copynumber: 3.8 Consensus size: 113
902122 GTTTTAAGAA
* * * *
902132 AAACGATCTCAAGGGAGAT-AAATCTTATGTTTTGAGTGAAACTATCTCAAGCGAGATAAATCTT
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAATCTT
* * * * * * *
902196 CCG-TTTCAAGTGAAACTATCTTCAGCAATATCAAATCTTCTGTTCCGAGTG
66 -AGATTTCGAGTG-AA--ATCTTAAGCGAGATAAAATCTTCTGTTTCGAGTG
*
902247 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGATATAAATCTT
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAATC-T
* * *
902312 TTG-TTTCGAGTGAAACTATCTAAAGCGAGATAAAATCTTTTGTTTCGAGTG
65 TAGATTTCGAGTG-AA--ATCTTAAGCGAGATAAAATCTTCTGTTTCGAGTG
* *
902363 AAACTATATCAAACGAGATAAATAT-TT-TGTTTCGAGTGAAACTATCTCAAGCGAGATAAATCT
1 AAACTATCTCAAGCGAGATAAA-ATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAATCT
**
902426 TCTATTTCGAGTGAAACTATCTTAAGCGAGATAAAATCTTCTGTTTCGAGTG
65 TAGATTTCGAGTG-AA--ATCTTAAGCGAGATAAAATCTTCTGTTTCGAGTG
* *
902478 AAACTATCTCAAGCGAGATAAAATCTTCT-TCTTCCAGTGAAAATATCTCAAGCGAGATAAA-C-
1 AAACTATCTCAAGCGAGATAAAATCTTCTGT-TTCGAGTGAAACTATCTCAAGCGAGATAAATCT
* * *
902540 AAGATTTCAAGAGAAATCTTAA
65 TAGATTTCGAGTGAAATCTTAA
902562 TGGTACCCTT
Statistics
Matches: 278, Mismatches: 30, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
111 7 0.03
113 2 0.01
114 12 0.04
115 121 0.44
116 132 0.47
117 4 0.01
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (113 bp):
AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAATCTT
AGATTTCGAGTGAAATCTTAAGCGAGATAAAATCTTCTGTTTCGAGTG
Found at i:904134 original size:64 final size:64
Alignment explanation
Indices: 904066--904283 Score: 201
Period size: 64 Copynumber: 3.4 Consensus size: 64
904056 AATGTGCACT
* * ** *
904066 GATGCATTGGTAGTGCATCGATGTA-CTCTTTTAA-AATAAAGACATCGAATACAATTCATGCAT
1 GATGCATAGGTAGTGCATCGATGCATC-CCATTAATAAGAAA-ACATCGAATACAATTCATGCAT
904129 C
64 C
* * **
904130 GATGCATAAGTAGTGCATCAATGCATCCCATTAATAAGAAAACATCGAATACAATTGGTGCATC
1 GATGCATAGGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATACAATTCATGCATC
** * ** ** * *
904194 GATGCATAAGG-AGTGCATCGATGCATCCCAGCAATAATACTACATCGAATACCTTTTATGCACC
1 GATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATACAATTCATGCATC
*
904258 GATGCATCA-GTAGTGCGTCGATGCAT
1 GATGCAT-AGGTAGTGCATCGATGCAT
904284 ACCTTCATTA
Statistics
Matches: 127, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
63 1 0.01
64 118 0.93
65 8 0.06
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (64 bp):
GATGCATAGGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATACAATTCATGCATC
Found at i:904674 original size:29 final size:29
Alignment explanation
Indices: 904641--904714 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
904631 TGATATGAAG
904641 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
904670 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
904699 TGACATGAG-TACATGA
1 TGACATGAGCTACATGA
904715 ACATATGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 7 0.16
29 38 0.84
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAGAGAAA
Found at i:904817 original size:15 final size:15
Alignment explanation
Indices: 904799--904831 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
904789 GAGGGTATAA
904799 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
*
904814 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
904829 TAG
1 TAG
904832 GAGTCCTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.30
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:911810 original size:60 final size:60
Alignment explanation
Indices: 911668--911810 Score: 151
Period size: 60 Copynumber: 2.4 Consensus size: 60
911658 TAGTGTAAAA
* * * * * * *
911668 TACACAAATGGTCACTTAATTAAAGGATATTATTTTGTTGAGTTCCCTAACTATTAAAAGT
1 TACA-AAATGGTCACTCAACTATAGGATAATATTTTATTGAGTCCCCCAACTATTAAAAGT
* * * * * * *
911729 TATAAAATGATCTCCCGACTATAGGGTAATATTTTATTGAGTCCCCCGACTATTAAAAGT
1 TACAAAATGGTCACTCAACTATAGGATAATATTTTATTGAGTCCCCCAACTATTAAAAGT
911789 TACAAAATGGTCACTCAACTAT
1 TACAAAATGGTCACTCAACTAT
911811 TCATATATTT
Statistics
Matches: 63, Mismatches: 19, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
60 60 0.95
61 3 0.05
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (60 bp):
TACAAAATGGTCACTCAACTATAGGATAATATTTTATTGAGTCCCCCAACTATTAAAAGT
Found at i:917155 original size:55 final size:55
Alignment explanation
Indices: 917041--917159 Score: 150
Period size: 55 Copynumber: 2.2 Consensus size: 55
917031 AATGGCACTA
* * * * *
917041 TGTGTGCAAAACTAAGAAATTCATAATATGTTTATGAATTTCCTTATGAGCACTT
1 TGTGTGCAAAAATAAGAAATTCATAATAAGTTTATGAATTTCCGTATGAGCAATG
* * *
917096 TGTGTGCAAAAATAATAAATTCATAATAAGTTTATGAATTTCGGTATTG-GTAATG
1 TGTGTGCAAAAATAAGAAATTCATAATAAGTTTATGAATTTCCGTA-TGAGCAATG
917151 TGTGTGCAA
1 TGTGTGCAA
917160 CCCGTGTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 53 0.96
56 2 0.04
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (55 bp):
TGTGTGCAAAAATAAGAAATTCATAATAAGTTTATGAATTTCCGTATGAGCAATG
Found at i:917944 original size:81 final size:81
Alignment explanation
Indices: 917291--917922 Score: 915
Period size: 81 Copynumber: 7.8 Consensus size: 81
917281 TATTCCAAAA
* ** * *
917291 TAAAATATTAATGGCCTAGCTGTGCATTTGGCAGAATTGTGTCAATTATGCAAGTTAGATGAAAT
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
917356 GTTAAGTACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
917372 TAAAATATTAATGGTCTAGCTGTTCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATAAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
917437 GTTAAATACCATTGAG
66 GTTAAATACCTTTGAG
* * *
917453 TAAAAGATTAATGGCCTAGTTGTGCATTTGGTAGGAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
917518 GTTAAATACCTTAGAG
66 GTTAAATACCTTTGAG
* * * *
917534 TAAAAGATTAATGGTCTA-CTTGTGCATTTGGCAAAAAGGTGTCAATTATTCTAGTTAGATGAAA
1 TAAAAGATTAATGGCCTAGC-TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
917598 GGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
** *
917615 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAATTGTGTGAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
917680 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * **
917696 TAAAAGATTAATGGCCTAGCCGTGCATTTGGTAGAAAGGTGTCAATTATGAAAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
917761 GTTAAATACTTTTGAG
66 GTTAAATACCTTTGAG
*
917777 TACAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
917842 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * ** * * * * *
917858 TAAAAGATTAATGGTCTAGTTGTGCATTTTACAGGAAGATGTCAATCATGCAAGTTAGATAAAAG
1 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
917923 ACTATATGCC
Statistics
Matches: 492, Mismatches: 57, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
81 491 1.00
82 1 0.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (81 bp):
TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:919743 original size:21 final size:22
Alignment explanation
Indices: 919717--919762 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
919707 ATAAATCACT
919717 ATTTAA-ATGATTTAGA-AATTA
1 ATTTAATAT-ATTTAGATAATTA
*
919738 ATTTAATATTTTTAGATAATTA
1 ATTTAATATATTTAGATAATTA
919760 ATT
1 ATT
919763 AATGGAATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (22 bp):
ATTTAATATATTTAGATAATTA
Found at i:919765 original size:86 final size:84
Alignment explanation
Indices: 919631--919796 Score: 201
Period size: 86 Copynumber: 2.0 Consensus size: 84
919621 TCTTAATTTA
* * * *
919631 ATTTAAATAGTTTGGAAACTAATTTAGTAATTTTGAATTATTAGTTAATGAAAATATAAAATGAA
1 ATTTAAATAGTTTAGAAACTAATTTAATAATTTTGAATAATTAATTAATG-AAATATAAAAT-AA
919696 ATATTAAATTAATAAATCACT
64 ATATTAAATTAATAAATCACT
* * * * *
919717 ATTTAAAT-GATTTAGAAATTAATTTAAT-ATTTTTAGATAATTAATTAATGGAATCTAAAATAG
1 ATTTAAATAG-TTTAGAAACTAATTTAATAATTTTGA-ATAATTAATTAATGAAATATAAAATAA
919780 ATATTAAATTAATAAAT
64 ATATTAAATTAATAAAT
919797 TATTATTAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
84 18 0.26
85 16 0.23
86 35 0.51
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.41
Consensus pattern (84 bp):
ATTTAAATAGTTTAGAAACTAATTTAATAATTTTGAATAATTAATTAATGAAATATAAAATAAAT
ATTAAATTAATAAATCACT
Found at i:920255 original size:16 final size:16
Alignment explanation
Indices: 920231--920270 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
920221 TTGCTTTCGA
*
920231 TTCGGGTTACTTTCAG
1 TTCGAGTTACTTTCAG
* *
920247 TTTGAGTTACTTTCGG
1 TTCGAGTTACTTTCAG
920263 TTCGAGTT
1 TTCGAGTT
920271 CATATCAGTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.12, C:0.15, G:0.25, T:0.47
Consensus pattern (16 bp):
TTCGAGTTACTTTCAG
Found at i:927476 original size:20 final size:20
Alignment explanation
Indices: 927434--927477 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
927424 TTGGGATCAA
*
927434 CATTTTTGCATCTGCATTTG
1 CATTTTTGCATCTGCATTGG
*
927454 CATTTTTGCATTCTGTA-TGG
1 CATTTTTGCA-TCTGCATTGG
927474 CATT
1 CATT
927478 CATTTAAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.16, C:0.18, G:0.16, T:0.50
Consensus pattern (20 bp):
CATTTTTGCATCTGCATTGG
Found at i:931042 original size:37 final size:37
Alignment explanation
Indices: 930919--931060 Score: 171
Period size: 37 Copynumber: 3.9 Consensus size: 37
930909 CTTTATCTCG
* * *
930919 AAACAAATTTTGTCTCACTTAAGACAGTTTTCTCTAA
1 AAACAAATTTCGTCTCACTTGAGACAGTTTTTTCTAA
* *
930956 AAACAAATTTTGTCTCACTTGAAACAGTTTTTTCTAA
1 AAACAAATTTCGTCTCACTTGAGACAGTTTTTTCTAA
*
930993 AAACAAACTTCGTCTCACTTGAGAC-GTTTTTTTCTAA
1 AAACAAATTTCGTCTCACTTGAGACAG-TTTTTTCTAA
* * * *
931030 AAACGAATTTCGTATCGCTTGACACA-TTTTT
1 AAACAAATTTCGTCTCACTTGAGACAGTTTTT
931061 CCTTTGAGAT
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
36 6 0.07
37 86 0.93
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (37 bp):
AAACAAATTTCGTCTCACTTGAGACAGTTTTTTCTAA
Found at i:931540 original size:68 final size:67
Alignment explanation
Indices: 931379--931548 Score: 184
Period size: 67 Copynumber: 2.5 Consensus size: 67
931369 TTTAAAATTG
* * * *
931379 TTTCTCTTGAAACAAGTTGTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAGAACATTGAGAT
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACATAAGAACATTGAGAT
931444 TA
66 TA
* * * * * *
931446 TTTCCTTTGAAGCAAAATTTTTTCTCTGTTGAGGCAATTTCTCTTGAAACA-AA-AATCTTTGAG
1 TTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACATAAGAA-CATTGAG
931509 -TCTA
64 AT-TA
* *
931513 TTTCCCTTGAAACAAATTTTGACTCTCTTGAAACAA
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAA
931549 AAATCTTTGA
Statistics
Matches: 83, Mismatches: 17, Indels: 7
0.78 0.16 0.07
Matches are distributed among these distances:
66 21 0.25
67 31 0.37
68 31 0.37
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (67 bp):
TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACATAAGAACATTGAGAT
TA
Found at i:931544 original size:51 final size:52
Alignment explanation
Indices: 931485--931595 Score: 188
Period size: 51 Copynumber: 2.2 Consensus size: 52
931475 TGAGGCAATT
931485 TCTCTTGAAACAAAAATCTTTGAGTCTATTTCCCTTGAAACAAA-TTTTGAC
1 TCTCTTGAAACAAAAATCTTTGAGTCTATTTCCCTTGAAACAAAGTTTTGAC
* * *
931536 TCTCTTGAAACAAAAATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTC
1 TCTCTTGAAACAAAAATCTTTGAGTCTATTTCCCTTGAAACAAAGTTTTGAC
931588 TCTCTTGA
1 TCTCTTGA
931596 GATAATTTCT
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 42 0.75
52 14 0.25
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.40
Consensus pattern (52 bp):
TCTCTTGAAACAAAAATCTTTGAGTCTATTTCCCTTGAAACAAAGTTTTGAC
Found at i:931644 original size:67 final size:66
Alignment explanation
Indices: 931536--931682 Score: 213
Period size: 67 Copynumber: 2.2 Consensus size: 66
931526 AAATTTTGAC
* * * *
931536 TCTCTTGAAACAAAAATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGATAA
1 TCTCTTGAAACAAAAATCTTTGAGTCTGTTTCCCTTGAAACAAA-TTTTGTCTCGCTTGAAACAA
931601 TT
65 TT
* * **
931603 TCTCTTGAAACAAAAGTCTTTGAGTCTGTTTCCCTTGAAACAAATTTTGTCTCGGTTGAAACCGT
1 TCTCTTGAAACAAAAATCTTTGAGTCTGTTTCCCTTGAAACAAATTTTGTCTCGCTTGAAACAAT
931668 T
66 T
931669 TCTCTTGAAACAAA
1 TCTCTTGAAACAAA
931683 TTATCCCTAA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
66 30 0.42
67 42 0.58
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (66 bp):
TCTCTTGAAACAAAAATCTTTGAGTCTGTTTCCCTTGAAACAAATTTTGTCTCGCTTGAAACAAT
T
Found at i:931645 original size:118 final size:119
Alignment explanation
Indices: 931417--931651 Score: 339
Period size: 118 Copynumber: 2.0 Consensus size: 119
931407 TGAGACAGTT
* * * * *
931417 TCTCTTGAAACATAAGAACATTGAGATTATTTCCTTTGAAGCAAAATTTTTTCTCTGTTGAGGCA
1 TCTCTTGAAACATAAGAACATTGAGATTATTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACA
931482 ATTTCTCTTGAAACAAAAATCTTTGAGTCTATTTCCCTTGAAACAAATTTTGAC
66 ATTTCTCTTGAAACAAAAATCTTTGAGTCTATTTCCCTTGAAACAAATTTTGAC
* * * * *
931536 TCTCTTGAAACA-AA-AATCTTTGAGTTTGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGAT
1 TCTCTTGAAACATAAGAA-CATTGAGATTATTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGAC
* *
931599 AATTTCTCTTGAAACAAAAGTCTTTGAGTCTGTTTCCCTTGAAACAAATTTTG
65 AATTTCTCTTGAAACAAAAATCTTTGAGTCTATTTCCCTTGAAACAAATTTTG
931652 TCTCGGTTGA
Statistics
Matches: 103, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
117 2 0.02
118 89 0.86
119 12 0.12
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (119 bp):
TCTCTTGAAACATAAGAACATTGAGATTATTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACA
ATTTCTCTTGAAACAAAAATCTTTGAGTCTATTTCCCTTGAAACAAATTTTGAC
Found at i:931895 original size:40 final size:42
Alignment explanation
Indices: 931836--932032 Score: 129
Period size: 40 Copynumber: 4.5 Consensus size: 42
931826 AAGATGGTCA
* *
931836 ACCGTCCTCATCGCATAGGAACCGTGTCATCCA-CCGACCAG
1 ACCGTCCTCATCACGTAGGAACCGTGTCATCCATCCGACCAG
* * * **
931877 ATC-TCCTCATCACGTAGGAGCCGCGTCA-CCATTAGATAACCAG
1 ACCGTCCTCATCACGTAGGAACCGTGTCATCCATCCG---ACCAG
* * *
931920 -CCTTCCTCATCACGTAGTAACCGTGTTATCATCATCCATAAAGATGGCCA-
1 ACCGTCCTCATCACGTAGGAACCGTGTCATC--CATCC-----GA---CCAG
931970 ACCGTCCTCATCACGTAGGAACCGTGTCATCCA-CCGACCAG
1 ACCGTCCTCATCACGTAGGAACCGTGTCATCCATCCGACCAG
*
932011 ATC-TCCTCATCACGTAGGAACC
1 ACCGTCCTCATCACGTAGGAACC
932033 ACCTCGTCAA
Statistics
Matches: 120, Mismatches: 18, Indels: 37
0.69 0.10 0.21
Matches are distributed among these distances:
39 3 0.03
40 44 0.37
41 4 0.03
42 1 0.01
43 28 0.23
44 1 0.01
46 3 0.03
48 3 0.03
49 2 0.02
51 31 0.26
ACGTcount: A:0.26, C:0.35, G:0.17, T:0.21
Consensus pattern (42 bp):
ACCGTCCTCATCACGTAGGAACCGTGTCATCCATCCGACCAG
Found at i:931947 original size:134 final size:134
Alignment explanation
Indices: 931682--932210 Score: 587
Period size: 134 Copynumber: 4.0 Consensus size: 134
931672 CTTGAAACAA
* *
931682 ATTATCCCTAAAGATGGCCAGCCGTCCTCATCA-AGTAGGAACCGTGTCATCCACCGACCAAATC
1 ATTATCCCTAAAGATGGCCAACCGTCCTCATCACA-TAGGAACCGTGTCATCCACCGACCAGATC
* * * * * *
931746 TCCTCATCACGTAGGAGCCGCGTCAACCATAGATAACCATCCGTCCTTATCATGTAGGAATCATG
65 TCCTCATCACGTAGGAGCCGCGTCAACCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTG
931811 TTATC
130 TTATC
* *
931816 ATTATCCCTAAAGATGGTCAACCGTCCTCATCGCATAGGAACCGTGTCATCCACCGACCAGATCT
1 ATTATCCCTAAAGATGGCCAACCGTCCTCATCACATAGGAACCGTGTCATCCACCGACCAGATCT
* *
931881 CCTCATCACGTAGGAGCCGCGTC-ACCATTAGATAACCAGCCTTCCTCATCACGTAGTAACCGTG
66 CCTCATCACGTAGGAGCCGCGTCAACC-TTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTG
931945 TTATC
130 TTATC
* * *
931950 ATCATCCATAAAGATGGCCAACCGTCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCT
1 ATTATCCCTAAAGATGGCCAACCGTCCTCATCACATAGGAACCGTGTCATCCACCGACCAGATCT
* * *
932015 CCTCATCACGTAGGAACCACCTCGTCAACCTTAGATAGCCAGCCGTCCTCATCACGT---AA---
66 CCTCATCACGTAGG-A--GCCGCGTCAACCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCG
*
932074 T-CT-TC
128 TGTTATC
* * * * * * * * *
932079 ATTATCCCTAAAGATGGCTAGCCGTCTTAATCACGTAAGAATCATGTCATCCACCAACCAGATCT
1 ATTATCCCTAAAGATGGCCAACCGTCCTCATCACATAGGAACCGTGTCATCCACCGACCAGATCT
** * * * *** * *
932144 TTTCATCA--TAGGAGTCACGTCATCCTTAGATAACCAGATTTCCTTATCAAGTAGGAACCGTGT
66 CCTCATCACGTAGGAGCCGCGTCAACCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGT
932207 TATC
131 TATC
932211 TCCCAATTTA
Statistics
Matches: 336, Mismatches: 45, Indels: 30
0.82 0.11 0.07
Matches are distributed among these distances:
124 29 0.09
126 1 0.00
127 6 0.02
129 63 0.19
130 2 0.01
131 2 0.01
132 2 0.01
133 3 0.01
134 192 0.57
135 2 0.01
137 31 0.09
138 3 0.01
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (134 bp):
ATTATCCCTAAAGATGGCCAACCGTCCTCATCACATAGGAACCGTGTCATCCACCGACCAGATCT
CCTCATCACGTAGGAGCCGCGTCAACCTTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGT
TATC
Found at i:934749 original size:24 final size:23
Alignment explanation
Indices: 934721--934776 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
934711 AAATCCTCAA
934721 TTTTTAAAATAAAATCATAATTGT
1 TTTTTAAAATAAAAT-ATAATTGT
* * *
934745 TTTTTTAAATAATATTTAATTGT
1 TTTTTAAAATAAAATATAATTGT
934768 TTTTTAAAA
1 TTTTTAAAA
934777 AAATTATTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (23 bp):
TTTTTAAAATAAAATATAATTGT
Found at i:936333 original size:5 final size:5
Alignment explanation
Indices: 936316--936354 Score: 51
Period size: 5 Copynumber: 7.2 Consensus size: 5
936306 TTTAACATTA
936316 TTTAT TATTAT TTTAT TTTAT TATTAAT TTTAT TTTAT T
1 TTTAT T-TTAT TTTAT TTTAT T-TT-AT TTTAT TTTAT T
936355 ATTTTCAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 19 0.61
6 9 0.29
7 3 0.10
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:936347 original size:17 final size:16
Alignment explanation
Indices: 936316--936357 Score: 75
Period size: 17 Copynumber: 2.6 Consensus size: 16
936306 TTTAACATTA
936316 TTTATTATTATTTTAT
1 TTTATTATTATTTTAT
936332 TTTATTATTAATTTTAT
1 TTTATTATT-ATTTTAT
936349 TTTATTATT
1 TTTATTATT
936358 TTCAGATTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTATTATTATTTTAT
Found at i:938847 original size:21 final size:21
Alignment explanation
Indices: 938823--938864 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
938813 ACTTCAAGTT
938823 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
938844 CGATAATTGAAATAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
938865 AAAATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:942808 original size:14 final size:13
Alignment explanation
Indices: 942785--942814 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
942775 TAACATGTGA
942785 TTTACATGTTTGT
1 TTTACATGTTTGT
942798 TTTAGCATGTTTGT
1 TTTA-CATGTTTGT
942812 TTT
1 TTT
942815 TGGATTGAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.13, C:0.07, G:0.17, T:0.63
Consensus pattern (13 bp):
TTTACATGTTTGT
Found at i:943804 original size:21 final size:20
Alignment explanation
Indices: 943756--943813 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 20
943746 TTATCTCAAG
943756 TAAAAC-TATCATATGATATT
1 TAAAACATAT-ATATGATATT
943776 TAAAACATATATATG-TATAT
1 TAAAACATATATATGATAT-T
943796 TAAATACATATACTATGA
1 TAAA-ACATATA-TATGA
943814 ATAATAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
19 3 0.09
20 16 0.48
21 10 0.30
22 4 0.12
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAACATATATATGATATT
Found at i:943822 original size:21 final size:21
Alignment explanation
Indices: 943776--943820 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
943766 ATATGATATT
* *
943776 TAAA-ACATATATATGTATAT
1 TAAATACATATATATGAATAA
943796 TAAATACATATACTATGAATAA
1 TAAATACATATA-TATGAATAA
943818 TAA
1 TAA
943821 TATTGGTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 7 0.33
22 10 0.48
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (21 bp):
TAAATACATATATATGAATAA
Found at i:951267 original size:19 final size:20
Alignment explanation
Indices: 951243--951280 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
951233 AATTGAAAAT
951243 GCATGAAAGGATG-CATAAG
1 GCATGAAAGGATGCCATAAG
*
951262 GCATGAACGGATGCCATAA
1 GCATGAAAGGATGCCATAA
951281 TTGAAAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.39, C:0.16, G:0.29, T:0.16
Consensus pattern (20 bp):
GCATGAAAGGATGCCATAAG
Found at i:951280 original size:46 final size:47
Alignment explanation
Indices: 951090--951302 Score: 313
Period size: 47 Copynumber: 4.6 Consensus size: 47
951080 AAATCAATTT
*
951090 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGC
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACAGATGC
* * * * *
951137 CATAATTGAAAATGCATGAAATGATGCATAAAGGTATAAACATATGC
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACAGATGC
* * *
951184 CATAATTGAAAATGCATGAAATGATACATTAAGGCATGAACATATG-
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACAGATGC
*
951230 CATAATTGAAAATGCATGAAAGGATGCA-TAAGGCATGAACGGATGC
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACAGATGC
*
951276 CATAATTGAAAATTCATGAAAGGATGC
1 CATAATTGAAAATGCATGAAAGGATGC
951303 CTTAGTTGAT
Statistics
Matches: 150, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
45 15 0.10
46 52 0.35
47 83 0.55
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (47 bp):
CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACAGATGC
Found at i:955140 original size:2 final size:2
Alignment explanation
Indices: 955129--955157 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
955119 GCATGGTTAC
955129 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
955158 CATCCCTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:955456 original size:81 final size:81
Alignment explanation
Indices: 955219--955442 Score: 367
Period size: 81 Copynumber: 2.8 Consensus size: 81
955209 CTTTATTATC
955219 TTACTCAACAGTGTTTAACCCTTTATCTAACTGGCATAATTAACACATTTCTCCCAATTGCATAG
1 TTACTCAACAGTGTTTAACCCTTTATCTAACTGGCATAATTAACACATTTCTCCCAATTGCATAG
955284 TTAGACCATTATTCTT
66 TTAGACCATTATTCTT
955300 TTACTCAACAGTGTTTAACCCTTTATCTAACTGGCATAATTAACACATTTCTCCCAATTGCATAG
1 TTACTCAACAGTGTTTAACCCTTTATCTAACTGGCATAATTAACACATTTCTCCCAATTGCATAG
955365 TTAGACCATTATTCTT
66 TTAGACCATTATTCTT
* ** * * * * **
955381 TTACTCAACGGTACTTAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGTCAATTGCA
1 TTACTCAACAGTGTTTAACCCTTTATCTAACTGGCATAATTAACACATTTCTCCCAATTGCA
955443 CAACTAGGTC
Statistics
Matches: 134, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 134 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.38
Consensus pattern (81 bp):
TTACTCAACAGTGTTTAACCCTTTATCTAACTGGCATAATTAACACATTTCTCCCAATTGCATAG
TTAGACCATTATTCTT
Found at i:956018 original size:27 final size:27
Alignment explanation
Indices: 955980--956155 Score: 92
Period size: 20 Copynumber: 7.3 Consensus size: 27
955970 CAGCTAAGGA
* *
955980 ATCCTTTCATGCATTTTCAATTATGGT
1 ATCCGTTCATGCATTTTCAATTATGGC
* *
956007 ATCCGTTCATGC-----C-TTTAT-GA
1 ATCCGTTCATGCATTTTCAATTATGGC
* *
956027 ATCCTTTCATCCATTTTCAATTATGGC
1 ATCCGTTCATGCATTTTCAATTATGGC
*
956054 ATCCGTTCATGC-----C-TTTAT-GC
1 ATCCGTTCATGCATTTTCAATTATGGC
*
956074 ATCCTTTCATGCATTTTCAATTATGGC
1 ATCCGTTCATGCATTTTCAATTATGGC
*
956101 AT-CGTTCATGC-----C-TTTAT-GC
1 ATCCGTTCATGCATTTTCAATTATGGC
*
956120 A-CCTTTTCATGCATTTTCAATTATGGC
1 ATCC-GTTCATGCATTTTCAATTATGGC
956147 ATCCGTTCA
1 ATCCGTTCA
956156 AACCTTAATG
Statistics
Matches: 108, Mismatches: 17, Indels: 48
0.62 0.10 0.28
Matches are distributed among these distances:
19 4 0.04
20 35 0.32
21 9 0.08
22 2 0.02
25 3 0.03
26 20 0.19
27 33 0.31
28 2 0.02
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.43
Consensus pattern (27 bp):
ATCCGTTCATGCATTTTCAATTATGGC
Found at i:956047 original size:47 final size:47
Alignment explanation
Indices: 955980--956178 Score: 321
Period size: 47 Copynumber: 4.3 Consensus size: 47
955970 CAGCTAAGGA
* *
955980 ATCCTTTCATGCATTTTCAATTATGGTATCCGTTCATGCCTTTATGA
1 ATCCTTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTTATGC
*
956027 ATCCTTTCATCCATTTTCAATTATGGCATCCGTTCATGCCTTTATGC
1 ATCCTTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTTATGC
956074 ATCCTTTCATGCATTTTCAATTATGGCAT-CGTTCATGCCTTTATGC
1 ATCCTTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTTATGC
** *
956120 A-CCTTTTCATGCATTTTCAATTATGGCATCCGTTCAAACCTTAATGC
1 ATCC-TTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTTATGC
956167 ATCCTTTCATGC
1 ATCCTTTCATGC
956179 CTTAATGCAT
Statistics
Matches: 142, Mismatches: 7, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
45 2 0.01
46 43 0.30
47 95 0.67
48 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (47 bp):
ATCCTTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTTATGC
Found at i:956140 original size:93 final size:94
Alignment explanation
Indices: 955980--956178 Score: 321
Period size: 93 Copynumber: 2.1 Consensus size: 94
955970 CAGCTAAGGA
*
955980 ATCCTTTCATGCATTTTCAATTATGGTATCCGTTCATGCCTTTATGAATCCTTTCATCCATTTTC
1 ATCCTTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTTATGAATCCTTTCATCCATTTTC
** *
956045 AATTATGGCATCCGTTCATGCCTTTATGC
66 AATTATGGCATCCGTTCAAACCTTAATGC
* *
956074 ATCCTTTCATGCATTTTCAATTATGGCAT-CGTTCATGCCTTTATGCA-CCTTTTCATGCATTTT
1 ATCCTTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTTATGAATCC-TTTCATCCATTTT
956137 CAATTATGGCATCCGTTCAAACCTTAATGC
65 CAATTATGGCATCCGTTCAAACCTTAATGC
956167 ATCCTTTCATGC
1 ATCCTTTCATGC
956179 CTTAATGCAT
Statistics
Matches: 98, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
92 2 0.02
93 68 0.69
94 28 0.29
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (94 bp):
ATCCTTTCATGCATTTTCAATTATGGCATCCGTTCATGCCTTTATGAATCCTTTCATCCATTTTC
AATTATGGCATCCGTTCAAACCTTAATGC
Found at i:956170 original size:20 final size:20
Alignment explanation
Indices: 956145--956190 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
956135 TTCAATTATG
956145 GCATCCGTTCAAACCTTAAT
1 GCATCCGTTCAAACCTTAAT
* **
956165 GCATCCTTTCATGCCTTAAT
1 GCATCCGTTCAAACCTTAAT
956185 GCATCC
1 GCATCC
956191 TATCATGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.33, G:0.11, T:0.33
Consensus pattern (20 bp):
GCATCCGTTCAAACCTTAAT
Found at i:956191 original size:20 final size:20
Alignment explanation
Indices: 956158--956198 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
956148 TCCGTTCAAA
*
956158 CCTTAATGCATCCTTTCATG
1 CCTTAATGCATCCTATCATG
956178 CCTTAATGCATCCTATCATG
1 CCTTAATGCATCCTATCATG
956198 C
1 C
956199 ATTTTTAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.32, G:0.10, T:0.37
Consensus pattern (20 bp):
CCTTAATGCATCCTATCATG
Found at i:956645 original size:22 final size:20
Alignment explanation
Indices: 956603--956658 Score: 85
Period size: 22 Copynumber: 2.7 Consensus size: 20
956593 TGGCCTTTCA
956603 GTATCGATACCCCTACCATG
1 GTATCGATACCCCTACCATG
*
956623 GTATCGATACTACCCTACTATG
1 GTATCGATAC--CCCTACCATG
956645 GTATCGATACCCCT
1 GTATCGATACCCCT
956659 TCCAGTATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 14 0.42
22 19 0.58
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (20 bp):
GTATCGATACCCCTACCATG
Found at i:956767 original size:94 final size:92
Alignment explanation
Indices: 956602--956821 Score: 239
Period size: 94 Copynumber: 2.3 Consensus size: 92
956592 CTGGCCTTTC
* *
956602 AGTATCGATACCC-CTACCATGGTATCGATACTACCCTACTATGGTATCGATACCCCTTCCAGTA
1 AGTATCGATACCCTC-ACCATGGTATCGATAC--CCCTACTATGGTACCGATACCCCCTCCAGTA
* *
956666 TCAATACCAAAATTAGCTTAGATGTAGT-CT
63 TCAATACCAAAATTAGATCAGATGT-GTACT
**
956696 AGTATCGATACCCTCACCATGGTATCGATACCCCTATGCTATGGTACCG-TACCCCCTCTTGGTA
1 AGTATCGATACCCTCACCATGGTATCGATACCCCTA--CTATGGTACCGATACCCCCTC-CAGTA
* ** * *
956760 TCGATACCCGAATTAGATCCGATGTTTACT
63 TCAATACCAAAATTAGATCAGATGTGTACT
* *
956790 GGTATCGATACCCTTACCATGGTATCGATACC
1 AGTATCGATACCCTCACCATGGTATCGATACC
956822 ACATTGCTTG
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
92 5 0.05
93 9 0.08
94 93 0.86
95 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (92 bp):
AGTATCGATACCCTCACCATGGTATCGATACCCCTACTATGGTACCGATACCCCCTCCAGTATCA
ATACCAAAATTAGATCAGATGTGTACT
Found at i:956860 original size:26 final size:26
Alignment explanation
Indices: 956824--956877 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
956814 TCGATACCAC
956824 ATTGCTTGGGTACCGATACTGGTTGA
1 ATTGCTTGGGTACCGATACTGGTTGA
956850 ATTGCTTGGGTACCGATACTGGTTGA
1 ATTGCTTGGGTACCGATACTGGTTGA
956876 AT
1 AT
956878 CAGTATCGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.20, C:0.15, G:0.30, T:0.35
Consensus pattern (26 bp):
ATTGCTTGGGTACCGATACTGGTTGA
Found at i:961122 original size:20 final size:21
Alignment explanation
Indices: 961097--961148 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
961087 TTATCTCAAG
961097 TAAAAC-TATCATATG-ATATT
1 TAAAACATAT-ATATGTATATT
961117 TAAAACATATATATGTATA-T
1 TAAAACATATATATGTATATT
961137 TAAATACATATA
1 TAAA-ACATATA
961149 CTCAAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (21 bp):
TAAAACATATATATGTATATT
Found at i:962578 original size:27 final size:28
Alignment explanation
Indices: 962546--962610 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
962536 AACTATTCAC
* *
962546 AATTTTCTAAAATT-GAATTGGTCCCCA
1 AATTTTCTAAAATTAAAAATGGTCCCCA
* *
962573 ACTTTTCAAAAATTACAAAATGGTCCCCA
1 AATTTTCTAAAATTA-AAAATGGTCCCCA
962602 AATTTTCTA
1 AATTTTCTA
962611 GTCTTGTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 12 0.40
29 18 0.60
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (28 bp):
AATTTTCTAAAATTAAAAATGGTCCCCA
Found at i:967451 original size:27 final size:27
Alignment explanation
Indices: 967417--967476 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
967407 ATAAAGTCAT
* *
967417 AAAAATGGAGAAAA-GATAGAAAAATAA
1 AAAAATGGAAAAAATGA-AAAAAAATAA
*
967444 AAAAATGGAAAAAATGAAAAAAAATGA
1 AAAAATGGAAAAAATGAAAAAAAATAA
967471 AAAAAT
1 AAAAAT
967477 AATAGAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (27 bp):
AAAAATGGAAAAAATGAAAAAAAATAA
Found at i:967482 original size:46 final size:44
Alignment explanation
Indices: 967425--967561 Score: 118
Period size: 49 Copynumber: 3.0 Consensus size: 44
967415 ATAAAAATGG
*
967425 AGAAAAGATAGAAAAATAAAAAAATGGAAAAAATGAAAAAAAATGA
1 AGAAAAAATAGAAAAATAAAAAAATGGAAAAAA-GAAAAAAAA-GA
* *
967471 A-AAAATAATAGAGAAAAAAGAAAAAAAT-GAAAAGGAAGAAAAAGAAGA
1 AGAAAA-AAT--AG-AAAAATAAAAAAATGGAAAA--AAGAAAAAAAAGA
* *
967519 AGAAAAAAGAGAAAAATAAAAAGA-GGAAAAAAGATAAAGAAAA
1 AGAAAAAATAGAAAAATAAAAAAATGGAAAAAAGA-AAA-AAAA
967562 TAAATCAAGT
Statistics
Matches: 74, Mismatches: 7, Indels: 21
0.73 0.07 0.21
Matches are distributed among these distances:
43 4 0.05
44 3 0.04
45 23 0.31
46 5 0.07
48 12 0.16
49 25 0.34
50 2 0.03
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (44 bp):
AGAAAAAATAGAAAAATAAAAAAATGGAAAAAAGAAAAAAAAGA
Found at i:967502 original size:9 final size:9
Alignment explanation
Indices: 967436--967550 Score: 69
Period size: 9 Copynumber: 12.4 Consensus size: 9
967426 GAAAAGATAG
967436 AAAAAT-AA
1 AAAAATGAA
*
967444 AAAAATGGA
1 AAAAATGAA
967453 AAAAATGAAA
1 AAAAATG-AA
967463 AAAAATGAAA
1 AAAAATG-AA
967473 AAATAATAGAGA
1 AAA-AAT-GA-A
967485 AAAAA-GAA
1 AAAAATGAA
967493 AAAAATGAA
1 AAAAATGAA
*
967502 AAGGAA-GAA
1 AA-AAATGAA
967511 AAAGAA-GAA
1 AAA-AATGAA
* *
967520 GAAAAAAGAG
1 -AAAAATGAA
967530 AAAAAT-AA
1 AAAAATGAA
* *
967538 AAAGAGGAA
1 AAAAATGAA
967547 AAAA
1 AAAA
967551 GATAAAGAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 21
0.74 0.09 0.18
Matches are distributed among these distances:
8 17 0.20
9 37 0.43
10 21 0.24
11 6 0.07
12 5 0.06
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.07
Consensus pattern (9 bp):
AAAAATGAA
Found at i:967512 original size:39 final size:38
Alignment explanation
Indices: 967443--967561 Score: 118
Period size: 37 Copynumber: 3.1 Consensus size: 38
967433 TAGAAAAATA
* * * *
967443 AAAAAATGGAAAAAATGAAAAAAAATGAAAAAATAATAGAG
1 AAAAAA-GAAAAAAATGAAAAAGAA-GAAAAAAGAAGA-AG
*
967484 AAAAAAGAAAAAAATGAAAAGGAAG-AAAAAGAAGAAG
1 AAAAAAGAAAAAAATGAAAAAGAAGAAAAAAGAAGAAG
* *
967521 AAAAAAGAGAAAAAT-AAAAAGAGGAAAAAAGATA-AAG
1 AAAAAAGAAAAAAATGAAAAAGAAGAAAAAAGA-AGAAG
967558 AAAA
1 AAAA
967562 TAAATCAAGT
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
36 7 0.10
37 30 0.44
38 9 0.13
39 1 0.01
40 15 0.22
41 6 0.09
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.07
Consensus pattern (38 bp):
AAAAAAGAAAAAAATGAAAAAGAAGAAAAAAGAAGAAG
Found at i:970001 original size:41 final size:42
Alignment explanation
Indices: 969900--970006 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 42
969890 CAAAAATTGG
* * ** *
969900 TAAGTCCTTCGGGCCATC-AGTAAGTCTTTCAAGTGTGATGCT
1 TAAGTCCTTCGGTCCATCTA-TAAGTCTTTCAAGCGAAATGCA
* *
969942 TAAATCCTTCGGGT-CATCTATAAGTCTTTCGAGCGAAATG-A
1 TAAGTCCTTC-GGTCCATCTATAAGTCTTTCAAGCGAAATGCA
969983 TAAGTCCTTCGGTCCATCTATAAG
1 TAAGTCCTTCGGTCCATCTATAAG
970007 ACCTTCTCGC
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
40 3 0.06
41 19 0.35
42 29 0.54
43 3 0.06
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (42 bp):
TAAGTCCTTCGGTCCATCTATAAGTCTTTCAAGCGAAATGCA
Found at i:970173 original size:232 final size:233
Alignment explanation
Indices: 969574--970516 Score: 1333
Period size: 232 Copynumber: 4.1 Consensus size: 233
969564 TTTATAAGTT
* * *
969574 AAAAATTGAGAACAGTTTCTCATTTAAATCTAAAAATTGAAA-TTTTGAAAAGTAAGAAAAGTTT
1 AAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTT
* * *
969638 CTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTTGAACCATTAATAAGTCTTTCGAGCAT
66 CTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGACCATCAATAAGTCTTTCGAGCAT
* * * *
969703 GATGCTTAAATTCTTTGGGTCATCTGTAAGTCTTTTGAGCAAGATGATAAGTCTTTCGGGCAATC
131 GATGCTTAAATTCTTTGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATC
* * *
969768 CATAAGACCTTCGAGTATGATGTTTTCACATGTTTTTA
196 CATAAGACCTTCGAGCAGGATGTTTTCACATGTTTTTC
* * * *
969806 AAAAAATGAGAAGAGTTTCTCATTTAAATATGAAAATTGAAATTTTTTAAAAGAAAGAAAAGTTT
1 AAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTT
* * * * * **
969871 CTTACCTAGTAAATTATTTCAAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGTGT
66 CTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGACCATCAATAAGTCTTTCGAGCAT
* * *
969936 GATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCGAA-ATGATAAGTCCTTCGGTCCAT
131 GATGCTTAAATTCTTTGGGTCATCTATAAGTCTTTCGAGC-AAGATGATAAGTCCTTCGGGCCAT
* **
970000 CTATAAGACCTTCTCGCAGGATGTTTTCACATGTTTTTC
195 CCATAAGACCTTCGAGCAGGATGTTTTCACATGTTTTTC
*
970039 AAAAAATG-GAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAACAAAAGTTT
1 AAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTT
* * *
970103 CTTACCTGGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAATAAGTCTTTCTAGCAT
66 CTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGACCATCAATAAGTCTTTCGAGCAT
* *
970168 GATGCTTAAATGC-TTGGGTCATTTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATC
131 GATGCTTAAATTCTTTGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATC
* *
970232 CATAAGACCTTTGAGCAGGATTTTTTCACAT-TTTTTC
196 CATAAGACCTTCGAGCAGGATGTTTTCACATGTTTTTC
* *
970269 AAAAAATGAGAAATGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAAGGAAA-TT
1 AAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGT-AAGAAAAGTT
* * *
970333 TCTTACATAGTAAACTATTTCCAAAGTTGGTAAGTCCTTCAGACCATCAGA-AAGTCTTTCGAGC
65 TCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGACCATCA-ATAAGTCTTTCGAGC
* * * *
970397 ATGATGCTTAAGTTCTTTGGGTCATCTATAAGCCTTTCAAGCAAGATGATAAGTCATTCGGGCCA
129 ATGATGCTTAAATTCTTTGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCA
* * * *
970462 TCCATAAGACCTTCGGGCAGGATGTTTTCGCATGATTGTCC
194 TCCATAAGACCTTCGAGCAGGATGTTTTCACATG-TTTTTC
*
970503 GAAAAATGAGAAAA
1 AAAAAATGAGAAAA
970517 CAATTTCAAA
Statistics
Matches: 629, Mismatches: 73, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
230 16 0.03
231 186 0.30
232 239 0.38
233 170 0.27
234 18 0.03
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (233 bp):
AAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTT
CTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGACCATCAATAAGTCTTTCGAGCAT
GATGCTTAAATTCTTTGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATC
CATAAGACCTTCGAGCAGGATGTTTTCACATGTTTTTC
Found at i:970237 original size:41 final size:42
Alignment explanation
Indices: 970132--970237 Score: 117
Period size: 41 Copynumber: 2.6 Consensus size: 42
970122 CCAAAATTGG
* * *
970132 TAAGTCCTTCGGGCCATCAATAAGTCTTTCTAGCATGATGCT
1 TAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCAAGATGCA
* * * **
970174 TAAATGCTT-GGGTCATTTATAAGTCTTTCGAGCAAGATG-A
1 TAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCAAGATGCA
*
970214 TAAGTCCTTCGGGCCATCCATAAG
1 TAAGTCCTTCGGGCCATCAATAAG
970238 ACCTTTGAGC
Statistics
Matches: 50, Mismatches: 13, Indels: 3
0.76 0.20 0.05
Matches are distributed among these distances:
40 7 0.14
41 36 0.72
42 7 0.14
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (42 bp):
TAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCAAGATGCA
Found at i:970471 original size:463 final size:464
Alignment explanation
Indices: 969587--970495 Score: 1360
Period size: 463 Copynumber: 2.0 Consensus size: 464
969577 AATTGAGAAC
*
969587 AGTTTCTCATTTAAATCTAAAAATTGAAATTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAAC
1 AGTTTCTCATTTAAATCTAAAAATTGAAATTTTGAAAAGTAACAAAAGTTTCTTACCTAGTAAAC
* * *
969652 TATTTCCAAAATTGGTAAGTCCTTTGAACCATTAATAAGTCTTTCGAGCATGATGCTTAAATTCT
66 TATTTCCAAAATTGGTAAGTCCTTCGAACCATCAATAAGTCTTTCGAGCATGATGCTTAAATGCT
* * *
969717 TTGGGTCATCTGTAAGTCTTTTGAGCAAGATGATAAGTCTTTCGGGCAATCCATAAGACCTTCGA
131 TTGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCAATCCATAAGACCTTCGA
* *
969782 GTATGATGTTTTCACATGTTTTTAAAAAAATGAGAAGAGTTTCTCATTTAAATATGAAAATTGAA
196 GCAGGATGTTTTCACATGTTTTTAAAAAAATGAGAAGAGTTTCTCATTTAAATATGAAAATTGAA
* * * *
969847 ATTTTTTAAAAGAAAGAAAAGTTTCTTACCTAGTAAATTATTTCAAAAATTGGTAAGTCCTTCGG
261 ATTTTTGAAAAGAAAGAAAAGTTTCTTACATAGTAAACTATTTCAAAAATTGGTAAGTCCTTCAG
* * ** * *
969912 GCCATCAGTAAGTCTTTCAAGTGTGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCG
326 ACCATCAGAAAGTCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGCCTTTCAAGCG
* * * *
969977 AAATGATAAGTCCTTCGGTCCATCTATAAGACCTTCTCGCAGGATGTTTTCACATGTTTTTCAAA
391 AAATGATAAGTCATTCGGGCCATCCATAAGACCTTCGCGCAGGATGTTTTCACATGTTTTTCAAA
970042 AAATGGAAA
456 AAATGGAAA
* *
970051 AGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAACAAAAGTTTCTTACCTGGTAAA
1 AGTTTCTCATTTAAATCTAAAAATTGAAA-TTTTGAAAAGTAACAAAAGTTTCTTACCTAGTAAA
** *
970116 CTATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAATAAGTCTTTCTAGCATGATGCTTAAATGC
65 CTATTTCCAAAATTGGTAAGTCCTTCGAACCATCAATAAGTCTTTCGAGCATGATGCTTAAATGC
* * *
970181 -TTGGGTCATTTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTTG
130 TTTGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCAATCCATAAGACCTTCG
* * *
970245 AGCAGGATTTTTTCACAT-TTTTTCAAAAAATGAGAA-ATGTTTCTCATTTAAATCTGAAAATTG
195 AGCAGGATGTTTTCACATGTTTTTAAAAAAATGAGAAGA-GTTTCTCATTTAAATATGAAAATTG
* * *
970308 AAATTTTTGAAAAGTAAAGGAAA-TTTCTTACATAGTAAACTATTTCCAAAGTTGGTAAGTCCTT
259 AAATTTTTGAAAAG-AAAGAAAAGTTTCTTACATAGTAAACTATTTCAAAAATTGGTAAGTCCTT
* * * *
970372 CAGACCATCAGAAAGTCTTTCGAGCATGATGCTTAAGTTCTTTGGGTCATCTATAAGCCTTTCAA
323 CAGACCATCAGAAAGTCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGCCTTTCAA
* *
970437 GC-AAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCGCATG
388 GCGAA-ATGATAAGTCATTCGGGCCATCCATAAGACCTTCGCGCAGGATGTTTTCACATG
970496 ATTGTCCGAA
Statistics
Matches: 398, Mismatches: 43, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
462 3 0.01
463 195 0.49
464 108 0.27
465 92 0.23
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.35
Consensus pattern (464 bp):
AGTTTCTCATTTAAATCTAAAAATTGAAATTTTGAAAAGTAACAAAAGTTTCTTACCTAGTAAAC
TATTTCCAAAATTGGTAAGTCCTTCGAACCATCAATAAGTCTTTCGAGCATGATGCTTAAATGCT
TTGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCAATCCATAAGACCTTCGA
GCAGGATGTTTTCACATGTTTTTAAAAAAATGAGAAGAGTTTCTCATTTAAATATGAAAATTGAA
ATTTTTGAAAAGAAAGAAAAGTTTCTTACATAGTAAACTATTTCAAAAATTGGTAAGTCCTTCAG
ACCATCAGAAAGTCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGCCTTTCAAGCG
AAATGATAAGTCATTCGGGCCATCCATAAGACCTTCGCGCAGGATGTTTTCACATGTTTTTCAAA
AAATGGAAA
Found at i:971062 original size:134 final size:134
Alignment explanation
Indices: 970822--971300 Score: 556
Period size: 134 Copynumber: 3.6 Consensus size: 134
970812 ATCTACCTCA
970822 ATTTGATATTCCCTGAGT-AGCAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTAAAGAATAG
1 ATTTGATATTCCCTGAGTGA-CAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTAAAGAATAG
* * * *
970886 TAGAATGAATCAACGTCCCTAGAT-TTGATTTACCCTTAAGAAGAAGCGGAACAAATCCTTCTGT
65 TAGAATGAATCAACATCCCTAGATCTT-ATTTACCCTTAAGAAGAAGAGGAACAAATCCCTCTCT
970950 TTCAAG
129 TTCAAG
*
970956 ATTTGATATTCCCTGAGT-AGCAGTGGAACAAGTCTACCTCAATTCAATCTTCCCTAAAGAATAG
1 ATTTGATATTCCCTGAGTGA-CAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTAAAGAATAG
* *
971020 TAGAATGAATCAACATCCTTAGGTCTTATTTACCCTTAAGAAGAAGTA-GAACAAATCCCTCTCT
65 TAGAATGAATCAACATCCCTAGATCTTATTTACCCTTAAGAAGAAG-AGGAACAAATCCCTCTCT
971084 TT-AATG
129 TTCAA-G
* * * * *
971090 ATTTGATATTCCCTAAGTGACAATGGAACAAGTCTACCTCGATTTAATCTTTCTTGAAA-AATAG
1 ATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCT-AAAGAATAG
* * * * ** * * * *
971154 TGGGATGAATCAAAATCCCCATCTCTGATTTTCCCTCAAGAAGAAGAGGAACAGATCCCTCTCTT
65 TAGAATGAATCAACATCCCTAGATCTTATTTACCCTTAAGAAGAAGAGGAACAAATCCCTCTCTT
*
971219 ACAAG
130 TCAAG
* * * * * * * * *
971224 ATTTGATATTCCTTGAGTGATAGTGAAACAAGCCTACCTTGATTCAATATTACCTAAATAACAGT
1 ATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTAAAGAATAGT
* *
971289 GGAATGAGTCAA
66 AGAATGAATCAA
971301 TGTTTCTTGA
Statistics
Matches: 298, Mismatches: 39, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
133 6 0.02
134 284 0.95
135 8 0.03
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (134 bp):
ATTTGATATTCCCTGAGTGACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTAAAGAATAGT
AGAATGAATCAACATCCCTAGATCTTATTTACCCTTAAGAAGAAGAGGAACAAATCCCTCTCTTT
CAAG
Found at i:971506 original size:13 final size:14
Alignment explanation
Indices: 971488--971527 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
971478 TAACATCATT
971488 TATTATTAT-TTAA
1 TATTATTATATTAA
971501 TATTATTATTATTAA
1 TATTATTA-TATTAA
*
971516 TTTTATTATATT
1 TATTATTATATT
971528 TTCATATTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTATTATATTAA
Found at i:972518 original size:12 final size:12
Alignment explanation
Indices: 972481--972543 Score: 67
Period size: 12 Copynumber: 5.4 Consensus size: 12
972471 GAAATCAGAA
972481 CAGAATTCATAT
1 CAGAATTCATAT
* *
972493 -A-AAATCATAA
1 CAGAATTCATAT
972503 CAGAATTCATAT
1 CAGAATTCATAT
* *
972515 CAGAAATCATAA
1 CAGAATTCATAT
*
972527 CAGAATTCAGAT
1 CAGAATTCATAT
972539 CAGAA
1 CAGAA
972544 ATTAGATAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
10 7 0.17
11 2 0.05
12 31 0.77
ACGTcount: A:0.51, C:0.16, G:0.10, T:0.24
Consensus pattern (12 bp):
CAGAATTCATAT
Found at i:972526 original size:24 final size:24
Alignment explanation
Indices: 972468--972545 Score: 124
Period size: 24 Copynumber: 3.3 Consensus size: 24
972458 AACGGAGATG
*
972468 TCAGAAATCAGAACAGAATTCATA
1 TCAGAAATCATAACAGAATTCATA
972492 T-A-AAATCATAACAGAATTCATA
1 TCAGAAATCATAACAGAATTCATA
*
972514 TCAGAAATCATAACAGAATTCAGA
1 TCAGAAATCATAACAGAATTCATA
972538 TCAGAAAT
1 TCAGAAAT
972546 TAGATAAAAC
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
22 20 0.40
23 2 0.04
24 28 0.56
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.23
Consensus pattern (24 bp):
TCAGAAATCATAACAGAATTCATA
Found at i:976673 original size:24 final size:24
Alignment explanation
Indices: 976632--976702 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 24
976622 GTAAATGGAG
* * *
976632 ATATCATAAATCAAAACAGAATTC
1 ATATCAGAAACCAGAACAGAATTC
* * *
976656 ATATCAGACACCATAACAGAATCC
1 ATATCAGAAACCAGAACAGAATTC
*
976680 ATATCAGAAATCAGAACAGAATT
1 ATATCAGAAACCAGAACAGAATT
976703 TAGATCGGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.51, C:0.20, G:0.08, T:0.21
Consensus pattern (24 bp):
ATATCAGAAACCAGAACAGAATTC
Found at i:985689 original size:15 final size:15
Alignment explanation
Indices: 985650--985682 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
985640 GTTCTTCGAG
985650 AATTATTTTAT-GAAC
1 AATTATTTT-TGGAAC
985665 AATTATTTTTGGAAC
1 AATTATTTTTGGAAC
985680 AAT
1 AAT
985683 ATCTTTTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 1 0.06
15 16 0.94
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (15 bp):
AATTATTTTTGGAAC
Found at i:987264 original size:46 final size:44
Alignment explanation
Indices: 987159--987336 Score: 247
Period size: 46 Copynumber: 4.1 Consensus size: 44
987149 TTATTTTGGT
*
987159 TATAT-ATATAGTTTTGAAAATAAATATAGTTTTGAAATATATA
1 TATATAATATAGTTTTGAAAATAAATATAGTTTTGAAAAATATA
**
987202 TATATAGCATAGTTTTGAAAATAAATATAGTTTTGGAAAACATATA
1 TATATAATATAGTTTTGAAAATAAATATAGTTTT-GAAAA-ATATA
*
987248 TATATAATATAGTTTTGAAAATAAATATAGTTTT-AAAAAAATA
1 TATATAATATAGTTTTGAAAATAAATATAGTTTTGAAAAATATA
* * *
987291 TATATAATATAG-TTTGAAAATAAATCTAGTATTAAAAAAT-TA
1 TATATAATATAGTTTTGAAAATAAATATAGTTTTGAAAAATATA
987333 TATA
1 TATA
987337 GATATATAAT
Statistics
Matches: 122, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
42 25 0.20
43 26 0.21
44 30 0.25
45 4 0.03
46 37 0.30
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (44 bp):
TATATAATATAGTTTTGAAAATAAATATAGTTTTGAAAAATATA
Done.