Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 146 of 318
Found at i:45391793 original size:17 final size:18
Alignment explanation
Indices: 45391767--45391805 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
45391757 AAACATGTGG
45391767 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
45391783 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
45391801 AAAAT
1 AAAAT
45391806 CAAAAGCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:45391982 original size:15 final size:15
Alignment explanation
Indices: 45391962--45391992 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45391952 AAAACAATAT
45391962 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
45391977 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
45391992 A
1 A
45391993 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:45395364 original size:15 final size:15
Alignment explanation
Indices: 45395354--45395383 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45395344 TCCCTTCTTG
45395354 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
45395369 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
45395384 TCGATCTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:45396151 original size:17 final size:18
Alignment explanation
Indices: 45396125--45396163 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
45396115 CAAATTGTGG
45396125 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
45396141 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
45396159 AAAAT
1 AAAAT
45396164 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:45396340 original size:15 final size:15
Alignment explanation
Indices: 45396320--45396350 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45396310 AAAATAATAT
45396320 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
45396335 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
45396350 A
1 A
45396351 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:45397078 original size:13 final size:13
Alignment explanation
Indices: 45397060--45397085 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45397050 GATATTCCAG
45397060 CAGCTTGATCTTC
1 CAGCTTGATCTTC
45397073 CAGCTTGATCTTC
1 CAGCTTGATCTTC
45397086 AACACTTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (13 bp):
CAGCTTGATCTTC
Found at i:45399985 original size:13 final size:13
Alignment explanation
Indices: 45399967--45399992 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45399957 GATATTCCAA
45399967 CAGCTTGATCTTC
1 CAGCTTGATCTTC
45399980 CAGCTTGATCTTC
1 CAGCTTGATCTTC
45399993 TGCTTCTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (13 bp):
CAGCTTGATCTTC
Found at i:45400265 original size:5 final size:5
Alignment explanation
Indices: 45400257--45400291 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
45400247 TATAATATCC
45400257 ATTTT ATTTT ATTTT ATTTT ATTTT A-TTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A
45400292 GTCAATAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:45406478 original size:36 final size:37
Alignment explanation
Indices: 45406431--45406504 Score: 123
Period size: 36 Copynumber: 2.0 Consensus size: 37
45406421 AAACTATTTT
45406431 GAATTAATTTCATCAGTTTAAG-TTCTTTTTTCCGAA
1 GAATTAATTTCATCAGTTTAAGCTTCTTTTTTCCGAA
*
45406467 GAATTAATTTCATCAGTTTAAGCCTTTTTTTTTCCGAA
1 GAATTAATTTCATCAGTTTAAG-CTTCTTTTTTCCGAA
45406505 CTTAGCTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 22 0.63
38 13 0.37
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.47
Consensus pattern (37 bp):
GAATTAATTTCATCAGTTTAAGCTTCTTTTTTCCGAA
Found at i:45408087 original size:16 final size:15
Alignment explanation
Indices: 45408068--45408110 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
45408058 GTCAAGACTC
45408068 TTTATAACAATCATGT
1 TTTATAACAA-CATGT
*
45408084 TTTATAACAACATTT
1 TTTATAACAACATGT
45408099 TATTATAACAAC
1 T-TTATAACAAC
45408111 TAAATTCGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 5 0.20
16 20 0.80
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (15 bp):
TTTATAACAACATGT
Found at i:45409660 original size:20 final size:20
Alignment explanation
Indices: 45409635--45409684 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
45409625 GGGTACACAC
*
45409635 CCGTGTGGCCTGGGATATGG
1 CCGTGTGGCCTGGGACATGG
45409655 CCGTGTGGCCTGGGACATGG
1 CCGTGTGGCCTGGGACATGG
*
45409675 CCGTGAGGCC
1 CCGTGTGGCC
45409685 AGGCCATGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.10, C:0.26, G:0.44, T:0.20
Consensus pattern (20 bp):
CCGTGTGGCCTGGGACATGG
Found at i:45410808 original size:93 final size:94
Alignment explanation
Indices: 45410710--45410902 Score: 370
Period size: 93 Copynumber: 2.1 Consensus size: 94
45410700 AATAGAAACT
45410710 ACCATACCATAGATCTGACGATATCAGAAACCCATATTTAAAACAATTTTTAAGAAAGAAACTTA
1 ACCATACCATAGATCTGACGATATCAGAAACCCATATTTAAAACAATTTTTAAGAAAGAAACTTA
45410775 TTCATGTTT-AATAAAATATGCAAACTTC
66 TTCATGTTTAAATAAAATATGCAAACTTC
*
45410803 GCCATACCATAGATCTGACGATATCAGAAACCCATATTTAAAACAATTTTTAAGAAAGAAACTTA
1 ACCATACCATAGATCTGACGATATCAGAAACCCATATTTAAAACAATTTTTAAGAAAGAAACTTA
45410868 TTCATGTTTAAATAAAATATGCAAACTTC
66 TTCATGTTTAAATAAAATATGCAAACTTC
45410897 ACCATA
1 ACCATA
45410903 TTCAAATATC
Statistics
Matches: 97, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
93 73 0.75
94 24 0.25
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.30
Consensus pattern (94 bp):
ACCATACCATAGATCTGACGATATCAGAAACCCATATTTAAAACAATTTTTAAGAAAGAAACTTA
TTCATGTTTAAATAAAATATGCAAACTTC
Found at i:45414388 original size:41 final size:41
Alignment explanation
Indices: 45414329--45414410 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
45414319 ATGGAAAGTG
* * *
45414329 TATGTTTAAGCCTGGTATTATGTTAATCTATTTCTAATTAT
1 TATGTTTAAGCCTAGTATTATATTAATCTACTTCTAATTAT
45414370 TATGTTTAAGCCTAGTATTATATTAATCTACTTCTAATTAT
1 TATGTTTAAGCCTAGTATTATATTAATCTACTTCTAATTAT
45414411 CTCCATGTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.50
Consensus pattern (41 bp):
TATGTTTAAGCCTAGTATTATATTAATCTACTTCTAATTAT
Found at i:45415094 original size:14 final size:13
Alignment explanation
Indices: 45415064--45415090 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45415054 AGCCCGGCCG
45415064 TATTAATTTTTTA
1 TATTAATTTTTTA
45415077 TATTAATTTTTTA
1 TATTAATTTTTTA
45415090 T
1 T
45415091 TATTTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTAATTTTTTA
Found at i:45415253 original size:30 final size:30
Alignment explanation
Indices: 45415217--45415279 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
45415207 ACTTAAAAAG
45415217 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
45415247 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
45415277 CAA
1 CAA
45415280 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:45417453 original size:32 final size:32
Alignment explanation
Indices: 45417413--45417493 Score: 128
Period size: 32 Copynumber: 2.5 Consensus size: 32
45417403 TGAAATTAGT
*
45417413 TTGTTGGATTTTGAAATTATTATGTTTTAAAG-
1 TTGTTGGATATTGAAATTATTATGTTTT-AAGC
*
45417445 TTGTTGGATATTGAATTTATTATGTTTTAAGC
1 TTGTTGGATATTGAAATTATTATGTTTTAAGC
45417477 TTGTTGGATATTGAAAT
1 TTGTTGGATATTGAAAT
45417494 GATTGACAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 3 0.07
32 42 0.93
ACGTcount: A:0.27, C:0.01, G:0.20, T:0.52
Consensus pattern (32 bp):
TTGTTGGATATTGAAATTATTATGTTTTAAGC
Found at i:45418611 original size:24 final size:23
Alignment explanation
Indices: 45418583--45418659 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 23
45418573 TTTGTAATAT
*
45418583 TAGTTATGCACTTGGACGATATTG
1 TAGTTATGCACTTGGA-AATATTG
*
45418607 TAGTTAT-CA-TGTGGTATAATA--C
1 TAGTTATGCACT-TGG-A-AATATTG
45418629 TAGTTATGCACTTGGAAAATATTG
1 TAGTTATGCACTTGG-AAATATTG
45418653 TAGTTAT
1 TAGTTAT
45418660 CATGTAGTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
22 12 0.29
23 11 0.26
24 19 0.45
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (23 bp):
TAGTTATGCACTTGGAAATATTG
Found at i:45418644 original size:46 final size:46
Alignment explanation
Indices: 45418577--45418664 Score: 149
Period size: 46 Copynumber: 1.9 Consensus size: 46
45418567 TACTAATTTG
* **
45418577 TAATATTAGTTATGCACTTGGACGATATTGTAGTTATCATGTGGTA
1 TAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTGGTA
45418623 TAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGT
1 TAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGT
45418665 AGTGTACTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (46 bp):
TAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTGGTA
Found at i:45418676 original size:46 final size:46
Alignment explanation
Indices: 45418577--45418676 Score: 146
Period size: 46 Copynumber: 2.2 Consensus size: 46
45418567 TACTAATTTG
* ** *
45418577 TAATATTAGTTATGCACTTGGACGATATTGTAGTTATCATGTGGTA
1 TAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTAGTA
*
45418623 TAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTAGTG
1 TAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTAGTA
*
45418669 TACTACTA
1 TAATACTA
45418677 ATTTGTAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (46 bp):
TAATACTAGTTATGCACTTGGAAAATATTGTAGTTATCATGTAGTA
Found at i:45422600 original size:6 final size:6
Alignment explanation
Indices: 45422583--45422614 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
45422573 ACGCTTCTTC
45422583 TCCCCTT TCCCCT TCCCCT TCCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT T
45422615 GGGTTGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
TCCCCT
Found at i:45422717 original size:25 final size:25
Alignment explanation
Indices: 45422689--45422738 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
45422679 CAAGTAAGGC
45422689 TCCTTCTCCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTTCTTCAT
* * *
45422714 TCCTTTTCCTTCTTTCGTTTTTCAT
1 TCCTTCTCCTTCTTCCGTTCTTCAT
45422739 CTTCTCTTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.04, C:0.34, G:0.04, T:0.58
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCGTTCTTCAT
Found at i:45425756 original size:18 final size:18
Alignment explanation
Indices: 45425735--45425777 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
45425725 ATAATTTAAA
45425735 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
45425753 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
45425771 ATGTAAA
1 ATATAAA
45425778 AACAGCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:45425879 original size:19 final size:19
Alignment explanation
Indices: 45425855--45425891 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
45425845 TCCAAACACC
45425855 AGAAAAGTAAATCATTTTT
1 AGAAAAGTAAATCATTTTT
45425874 AGAAAAGTAAATCATTTT
1 AGAAAAGTAAATCATTTT
45425892 CCAGAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (19 bp):
AGAAAAGTAAATCATTTTT
Found at i:45425901 original size:14 final size:14
Alignment explanation
Indices: 45425882--45425919 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
45425872 TTAGAAAAGT
45425882 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
45425896 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
45425910 AAAGCATTTT
1 AAATCATTTT
45425920 ACTGGCTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:45432251 original size:6 final size:6
Alignment explanation
Indices: 45432219--45432262 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
45432209 ACAGTACCTA
* *
45432219 AACAGT AATCAGT AACGGT AGCAGT AACAGT AACAGT AACAGT A
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT A
45432263 TTCAACACAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.18
Consensus pattern (6 bp):
AACAGT
Found at i:45432338 original size:45 final size:45
Alignment explanation
Indices: 45432242--45432352 Score: 127
Period size: 45 Copynumber: 2.5 Consensus size: 45
45432232 AACGGTAGCA
*
45432242 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCT
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCT
** * * *
45432287 ACAACAGTTACGGTAACAGTATTCGACATACAAAGTG-TCGAAT-T
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGCT-GAATCT
*
45432331 GGTAACAGTAATGGTAACAGTA
1 -GTAACAGTAACGGTAACAGTA
45432353 ACAGTAGTCA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
44 2 0.04
45 52 0.96
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (45 bp):
GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGCTGAATCT
Found at i:45432609 original size:40 final size:40
Alignment explanation
Indices: 45432560--45432646 Score: 120
Period size: 40 Copynumber: 2.2 Consensus size: 40
45432550 ATTCGTTTCA
* * *
45432560 TCAGAAATTTTACAGTTCAATGCAGTATACATAACAATAT
1 TCAGTAATTTCACAGTTCAATGCAGTATACAAAACAATAT
* * *
45432600 TCAGTAATTTCACAGTTCAATTCGGTATTCAAAACAATAT
1 TCAGTAATTTCACAGTTCAATGCAGTATACAAAACAATAT
45432640 TCAGTAA
1 TCAGTAA
45432647 CCTATAATCC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.33
Consensus pattern (40 bp):
TCAGTAATTTCACAGTTCAATGCAGTATACAAAACAATAT
Found at i:45433474 original size:18 final size:18
Alignment explanation
Indices: 45433451--45433492 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
45433441 TTTATTAACT
45433451 TAATAATAATAATTATTA
1 TAATAATAATAATTATTA
* *
45433469 TTATAATAATTATTATTA
1 TAATAATAATAATTATTA
45433487 TAATAA
1 TAATAA
45433493 ATATCTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TAATAATAATAATTATTA
Found at i:45433476 original size:15 final size:15
Alignment explanation
Indices: 45433456--45433492 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
45433446 TAACTTAATA
45433456 ATAATAATTATTATT
1 ATAATAATTATTATT
45433471 ATAATAATTATTATT
1 ATAATAATTATTATT
45433486 ATAATAA
1 ATAATAA
45433493 ATATCTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATAATAATTATTATT
Found at i:45433688 original size:23 final size:23
Alignment explanation
Indices: 45433651--45433699 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
45433641 GAAAAGTAAT
*
45433651 TAAATAAATATATTACAAATGTA
1 TAAATAAATACATTACAAATGTA
* **
45433674 TAAATATATACATTACACTTGTA
1 TAAATAAATACATTACAAATGTA
45433697 TAA
1 TAA
45433700 TTTAATCACC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (23 bp):
TAAATAAATACATTACAAATGTA
Found at i:45433747 original size:3 final size:3
Alignment explanation
Indices: 45433739--45433811 Score: 55
Period size: 3 Copynumber: 24.7 Consensus size: 3
45433729 AATTTATTTT
* *
45433739 TAA TAA TAA TAA TCA TAA T-T TAA T-A TCAA TAA TAA TAA CTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA -TAA TAA
* *
45433784 TTA TAA TAA TCAA TTA T-A TAA T-A TAA TA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TA
45433812 TATATAATCT
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
2 7 0.12
3 41 0.73
4 8 0.14
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:45433760 original size:20 final size:20
Alignment explanation
Indices: 45433737--45433811 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 20
45433727 TTAATTTATT
*
45433737 TTTAATAATAATAATCATAA
1 TTTAATAATAATAATAATAA
45433757 TTTAAT-ATCAATAATAATAA
1 TTTAATAAT-AATAATAATAA
* *
45433777 -CTAATAATTATAATAATCAA
1 TTTAATAATAATAATAAT-AA
45433797 -TTATATAAT-ATAATA
1 TTTA-ATAATAATAATA
45433812 TATATAATCT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
19 14 0.30
20 28 0.60
21 5 0.11
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
TTTAATAATAATAATAATAA
Found at i:45433795 original size:29 final size:27
Alignment explanation
Indices: 45433740--45433820 Score: 89
Period size: 26 Copynumber: 3.0 Consensus size: 27
45433730 ATTTATTTTT
45433740 AATAATAATAATCATAATT-TAAT-ATC
1 AATAATAATAAT-ATAATTATAATAATC
45433766 AATAATAATAACTAATAATTATAATAATC
1 AATAATAATAA-T-ATAATTATAATAATC
*
45433795 AATTAT-ATAATATAA-TATATATAATC
1 AATAATAATAATATAATTATA-ATAATC
45433821 TAAATAAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.08
26 21 0.43
27 8 0.16
28 8 0.16
29 8 0.16
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (27 bp):
AATAATAATAATATAATTATAATAATC
Found at i:45436390 original size:13 final size:13
Alignment explanation
Indices: 45436372--45436396 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45436362 ATAAAAGAAC
45436372 ATATAGAATACCA
1 ATATAGAATACCA
45436385 ATATAGAATACC
1 ATATAGAATACC
45436397 CAGAAGAGAT
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:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (13 bp):
ATATAGAATACCA
Found at i:45443470 original size:39 final size:38
Alignment explanation
Indices: 45443401--45443535 Score: 94
Period size: 39 Copynumber: 3.4 Consensus size: 38
45443391 ACCAATATGG
* * *
45443401 CACCCAGTGCCTCATCGGATAGTTCAAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGTAATAGTTGA
* *
45443440 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGTAATAGTTGA
* * * * * *
45443478 TACCTAGTACCTCATCGAATCTATCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGTAATAGT--TGA
*
45443519 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
45443536 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
38 18 0.25
39 36 0.49
40 4 0.05
41 15 0.21
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGTAATAGTTGA
Found at i:45445261 original size:8 final size:8
Alignment explanation
Indices: 45445248--45445273 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
45445238 AAAAAATCTC
45445248 ATAATTTA
1 ATAATTTA
45445256 ATAATTTA
1 ATAATTTA
45445264 ATAATTTA
1 ATAATTTA
45445272 AT
1 AT
45445274 TAACAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATAATTTA
Found at i:45445478 original size:21 final size:20
Alignment explanation
Indices: 45445414--45445479 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 20
45445404 ATCAATTAAG
45445414 TAATCATAATAATTTAATATA
1 TAAT-ATAATAATTTAATATA
*
45445435 AAACTATAATAA--TAATCATTA
1 TAA-TATAATAATTTAAT-A-TA
45445456 TAATATATATAATTTAATATA
1 TAATATA-ATAATTTAATATA
45445477 TAA
1 TAA
45445480 AACCTAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
19 4 0.11
20 5 0.14
21 22 0.59
22 2 0.05
23 4 0.11
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
TAATATAATAATTTAATATA
Found at i:45449724 original size:21 final size:21
Alignment explanation
Indices: 45449700--45449739 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
45449690 TAATGTCACA
*
45449700 TCAGTAATTTT-ATTTTGAATT
1 TCAG-AATTTTCATATTGAATT
45449721 TCAGAATTTTCATATTGAA
1 TCAGAATTTTCATATTGAA
45449740 AATGTTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (21 bp):
TCAGAATTTTCATATTGAATT
Found at i:45450181 original size:107 final size:108
Alignment explanation
Indices: 45449974--45450201 Score: 336
Period size: 107 Copynumber: 2.1 Consensus size: 108
45449964 TAAAAAAGAG
* * *
45449974 ATACAAAT-AACATGAAGTTACTATTTTATACAATTATTTCCCTATGCATTTATGCCATAAATGG
1 ATACAAATAAACATG-AGTTACTATTTCATACAATTATTTCCCTATGCATTCATGCCATAAATAG
45450038 AATACAACGTGCTTTAAGTATTTATTCACGCAGATTTGAAATTA
65 AATACAACGTGCTTTAAGTATTTATTCACGCAGATTTGAAATTA
*
45450082 ATACAAATAAACATG-GTTATTATTTCATACAATTATTTCCCTATGCATTCATGCCATAAATAGA
1 ATACAAATAAACATGAGTTACTATTTCATACAATTATTTCCCTATGCATTCATGCCATAAATAGA
* * * *
45450146 ATCCAACGTGCTTT-AGCTATTTATTCTCGCGGATTTGGAATTA
66 ATACAACGTGCTTTAAG-TATTTATTCACGCAGATTTGAAATTA
*
45450189 ATGCAAATAAACA
1 ATACAAATAAACA
45450202 ACATAACCGA
Statistics
Matches: 109, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
106 2 0.02
107 93 0.85
108 8 0.07
109 6 0.06
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (108 bp):
ATACAAATAAACATGAGTTACTATTTCATACAATTATTTCCCTATGCATTCATGCCATAAATAGA
ATACAACGTGCTTTAAGTATTTATTCACGCAGATTTGAAATTA
Found at i:45450804 original size:21 final size:21
Alignment explanation
Indices: 45450770--45450813 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
45450760 AAATTTCTAC
*
45450770 AATTTCTCCCTAAAGCTCTCA
1 AATTTCTCACTAAAGCTCTCA
* **
45450791 AATTTCTCATTAAATTTCTCA
1 AATTTCTCACTAAAGCTCTCA
45450812 AA
1 AA
45450814 GCTCTTTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCTCACTAAAGCTCTCA
Found at i:45454123 original size:7 final size:7
Alignment explanation
Indices: 45454113--45454137 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
45454103 ATTCATTTCA
45454113 TATTTAG
1 TATTTAG
45454120 TATTTAG
1 TATTTAG
45454127 TATTTAG
1 TATTTAG
45454134 TATT
1 TATT
45454138 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:45458035 original size:30 final size:30
Alignment explanation
Indices: 45457979--45458035 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
45457969 ATGGCCATGA
* *
45457979 CACATGGGCGTGTGGTCTGCCGATGTGCCT
1 CACATGGGCGTGTGGTCTACCCATGTGCCT
*
45458009 CACATGGGCGTGTGGTTTACCCATGTG
1 CACATGGGCGTGTGGTCTACCCATGTG
45458036 GAAGTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.25, G:0.35, T:0.28
Consensus pattern (30 bp):
CACATGGGCGTGTGGTCTACCCATGTGCCT
Found at i:45460049 original size:251 final size:251
Alignment explanation
Indices: 45459596--45460098 Score: 772
Period size: 251 Copynumber: 2.0 Consensus size: 251
45459586 CTAAGGCCAA
** *
45459596 TCATGAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTG
1 TCATGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACAATG
45459661 CATCCTGCTTGAAACATTTTTGACACTAGTTGTTCAGAAACATCTTCTCAAAATTATATTTTCAA
66 CATCCTGCTTGAAACATTTTTGACACTAGTTGTTCAGAAACATCTTCTCAAAATTATATTTTCAA
* *
45459726 GAACTACTGTAGAATAAGAGCGTCCACGTGGGAGCTTTTTTCTGTAAGTTTGCTGACAATGCATC
131 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAAGTTTGCTGACAATGCATC
* *
45459791 CTGCTTGAAGTGTTTTTGACACTATTTGTTAAGAAACATCTTCTCAAAATTATTTT
196 CTGCTTGAAGCGTTTTTGACACTATTTATTAAGAAACATCTTCTCAAAATTATTTT
* * * *
45459847 TCATGAACTACTGTAGAAAAAGAGCATCCACGTGGTAGTTTTTTTCCGTAATTTTGCTGACAATG
1 TCATGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACAATG
* * * * * *
45459912 CATCCTGCTTGAAGCTTTTTTGACACTATTTGTTCAGAAATATCTTCTCAAAATTATTTTTTCAG
66 CATCCTGCTTGAAACATTTTTGACACTAGTTGTTCAGAAACATCTTCTCAAAATTATATTTTCAA
* * ** * *
45459977 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGTTTTTTTTTGTATTTTTGCTGATAGTGCATC
131 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAAGTTTGCTGACAATGCATC
* * *
45460042 TTGCTTGAAGCGTTTTTGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTT
196 CTGCTTGAAGCGTTTTTGACACTATTTATTAAGAAACATCTTCTCAAAATTATTTT
45460098 T
1 T
45460099 TCAGGGTACA
Statistics
Matches: 226, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
251 226 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (251 bp):
TCATGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACAATG
CATCCTGCTTGAAACATTTTTGACACTAGTTGTTCAGAAACATCTTCTCAAAATTATATTTTCAA
GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAAGTTTGCTGACAATGCATC
CTGCTTGAAGCGTTTTTGACACTATTTATTAAGAAACATCTTCTCAAAATTATTTT
Found at i:45460102 original size:126 final size:126
Alignment explanation
Indices: 45459600--45460103 Score: 740
Period size: 126 Copynumber: 4.0 Consensus size: 126
45459590 GGCCAATCAT
** * * *
45459600 GAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAATGCATC
* * * * *
45459665 CTGCTTGAAACATTTTTGACACTAGTTGTTCAGAAACATCTTCTCAAAATTATATTTTCAA
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * *
45459726 GAACTACTGTAGAATAAGAGCGTCCACGTGGGAGCTTTTTTCTGTAAGTTTGCTGACAATGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAATGCATC
* * *
45459791 CTGCTTGAAGTGTTTTTGACACTATTTGTTAAGAAACATCTTCTCAAAATTA-TTTTTCAT
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * *
45459851 GAACTACTGTAGAAAAAGAGCATCCACGTGGTAGTTTTTTTCCGTAATTTTGCTGACAATGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAATGCATC
* *
45459916 CTGCTTGAAGCTTTTTTGACACTATTTGTTCAGAAATATCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * * *
45459977 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGTTTTTTTTTGTATTTTTGCTGATAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAATGCATC
* * *
45460042 TTGCTTGAAGCGTTTTTGACACTATTTATTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
45460103 G
1 G
45460104 GTACAAAATA
Statistics
Matches: 342, Mismatches: 35, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
125 113 0.33
126 229 0.67
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAATGCATC
CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAG
Found at i:45460182 original size:30 final size:29
Alignment explanation
Indices: 45460148--45460245 Score: 88
Period size: 30 Copynumber: 3.1 Consensus size: 29
45460138 CAATGTTATC
45460148 TTTAAAAAACTAAACCCTAATTTAATTAAA
1 TTTAAAAAACTAAACCCTAATTTAATT-AA
*
45460178 TTTAACCTTAAACACTAAACCCTAATTTAATTTA
1 TTTAA----AAA-ACTAAACCCTAATTTAATTAA
** * *
45460212 TTTAAAACCCTAAAACCTTAATTTACTTAA
1 TTTAAAAAACT-AAACCCTAATTTAATTAA
45460242 TTTA
1 TTTA
45460246 TTTAAAACCA
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
29 2 0.04
30 26 0.46
34 9 0.16
35 19 0.34
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (29 bp):
TTTAAAAAACTAAACCCTAATTTAATTAA
Found at i:45460270 original size:57 final size:60
Alignment explanation
Indices: 45460205--45460408 Score: 208
Period size: 66 Copynumber: 3.3 Consensus size: 60
45460195 AACCCTAATT
45460205 TAATTTATTTAAAACCCTAAAACCTTAATTTACTTAATTTATTT-AAAACCATA-C-ACCC
1 TAATTTATTTAAAACCCTAAAACC-TAATTTACTTAATTTATTTAAAAACCATACCAACCC
* *
45460263 TAA-TTATTTAATACCCTAAACCCT-A---ACTTAATTTATTTAAAAACCATAAATCCTAAACCC
1 TAATTTATTTAAAACCCTAAAACCTAATTTACTTAATTTATTTAAAAACCAT--A-CC--AACCC
* *
45460323 TAATTTATTTAAAACCCTAGAACACTAATTTGCTTAATTTATTTAAAAACCATAAACTCTAAACC
1 TAATTTATTTAAAACCCTAAAAC-CTAATTTACTTAATTTATTTAAAAACCAT--AC-C--AACC
45460388 C
60 C
45460389 TAATTTATTTAAAACCCTAA
1 TAATTTATTTAAAACCCTAA
45460409 CTTAATTTAT
Statistics
Matches: 124, Mismatches: 7, Indels: 22
0.81 0.05 0.14
Matches are distributed among these distances:
52 13 0.10
53 8 0.06
55 2 0.02
56 1 0.01
57 19 0.15
58 3 0.02
60 7 0.06
61 16 0.13
62 2 0.02
63 1 0.01
65 1 0.01
66 51 0.41
ACGTcount: A:0.43, C:0.21, G:0.01, T:0.36
Consensus pattern (60 bp):
TAATTTATTTAAAACCCTAAAACCTAATTTACTTAATTTATTTAAAAACCATACCAACCC
Found at i:45460272 original size:23 final size:24
Alignment explanation
Indices: 45460243--45460297 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
45460233 TTTACTTAAT
*
45460243 TTATTTAAAACCATACACCCTAA-
1 TTATTTAAAACCATAAACCCTAAC
* *
45460266 TTATTTAATACCCTAAACCCTAAC
1 TTATTTAAAACCATAAACCCTAAC
45460290 TTAATTTA
1 TT-ATTTA
45460298 TTTAAAAACC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 20 0.74
24 2 0.07
25 5 0.19
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (24 bp):
TTATTTAAAACCATAAACCCTAAC
Found at i:45460284 original size:30 final size:29
Alignment explanation
Indices: 45460250--45460461 Score: 124
Period size: 32 Copynumber: 7.2 Consensus size: 29
45460240 AATTTATTTA
*
45460250 AAACCATACACCCTAA-TTATTTAATACCCT
1 AAACC-TA-ACCCTAATTTATTTAAAACCCT
* *
45460280 AAACCCTAA-CTTAATTTATTTAAAAACCAT
1 AAA-CCTAACCCTAATTTATTT-AAAACCCT
45460310 AAATCCTAAACCCTAATTTATTTAAAACCCT
1 AAA-CCT-AACCCTAATTTATTTAAAACCCT
* * *
45460341 AGAACACTAATTTGCTTAATTTATTTAAAAACCAT
1 A-AAC-CTAA---CCCTAATTTATTT-AAAACCCT
45460376 AAACTCTAAACCCTAATTTATTTAAAACCCT
1 AAAC-CT-AACCCTAATTTATTTAAAACCCT
*
45460407 -AA-CT-----TAATTTATTTAAACCCCT
1 AAACCTAACCCTAATTTATTTAAAACCCT
* *
45460429 AAA---AACTCTAATTTACTTAAAAACCCT
1 AAACCTAACCCTAATTTA-TTTAAAACCCT
45460456 AAACCT
1 AAACCT
45460462 TAATTTAAAT
Statistics
Matches: 144, Mismatches: 16, Indels: 44
0.71 0.08 0.22
Matches are distributed among these distances:
22 17 0.12
23 2 0.01
26 7 0.05
27 12 0.08
28 6 0.04
29 7 0.05
30 19 0.13
31 22 0.15
32 26 0.18
34 16 0.11
35 10 0.07
ACGTcount: A:0.43, C:0.23, G:0.01, T:0.33
Consensus pattern (29 bp):
AAACCTAACCCTAATTTATTTAAAACCCT
Found at i:45460330 original size:32 final size:32
Alignment explanation
Indices: 45460259--45460402 Score: 129
Period size: 32 Copynumber: 4.6 Consensus size: 32
45460249 AAAACCATAC
* * *
45460259 ACCCTAA-TTATTT-AATACCCTAAACCCT-A
1 ACCCTAATTTATTTAAAAACCATAAACACTAA
*
45460288 A-CTTAATTTATTTAAAAACCATAAATC-CTAA
1 ACCCTAATTTATTTAAAAACCATAAA-CACTAA
*
45460319 ACCCTAATTTATTT-AAAACCCTAGAACACTAA
1 ACCCTAATTTATTTAAAAACCATA-AACACTAA
** * *
45460351 TTTGCTTAATTTATTTAAAAACCATAAACTCTAA
1 --ACCCTAATTTATTTAAAAACCATAAACACTAA
45460385 ACCCTAATTTATTTAAAA
1 ACCCTAATTTATTTAAAA
45460403 CCCTAACTTA
Statistics
Matches: 92, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
28 4 0.04
29 7 0.08
30 11 0.12
31 12 0.13
32 32 0.35
34 18 0.20
35 8 0.09
ACGTcount: A:0.43, C:0.21, G:0.01, T:0.35
Consensus pattern (32 bp):
ACCCTAATTTATTTAAAAACCATAAACACTAA
Found at i:45460360 original size:86 final size:85
Alignment explanation
Indices: 45460184--45460360 Score: 193
Period size: 86 Copynumber: 2.1 Consensus size: 85
45460174 TAAATTTAAC
* * *
45460184 CTTAA-ACACTAAACCCTAATTTAATTTATTTAAAACCCTAAAACCTTAATTTACTTAATTTATT
1 CTTAATACACTAAACCCTAACTTAATTTATTTAAAACCATAAAACCTTAA--TACCTAATTTATT
* *
45460248 TAAAACCATACACCCTAATTAT
64 TAAAACCATAAACACTAATTAT
* *
45460270 -TTAATACCCTAAACCCTAACTTAATTTATTTAAAAACCATAAATCC-TAA-ACCCTAATTTATT
1 CTTAATACACTAAACCCTAACTTAATTTATTT-AAAACCATAAAACCTTAATA-CCTAATTTATT
*
45460332 TAAAACCCTAGAACACTAATT-T
64 TAAAACCATA-AACACTAATTAT
45460354 GCTTAAT
1 -CTTAAT
45460361 TTATTTAAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
83 1 0.01
84 20 0.26
85 12 0.16
86 32 0.42
87 12 0.16
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.36
Consensus pattern (85 bp):
CTTAATACACTAAACCCTAACTTAATTTATTTAAAACCATAAAACCTTAATACCTAATTTATTTA
AAACCATAAACACTAATTAT
Found at i:45460368 original size:66 final size:61
Alignment explanation
Indices: 45460259--45460408 Score: 214
Period size: 66 Copynumber: 2.4 Consensus size: 61
45460249 AAAACCATAC
* *
45460259 ACCCTAA-TTATTTAATACCCTAAACCCTAACTTAATTTATTTAAAAACCATAAA-TCCTAA
1 ACCCTAATTTATTTAAAACCCTAAACACTAACTTAATTTATTTAAAAACCATAAACT-CTAA
45460319 ACCCTAATTTATTTAAAACCCTAGAACACTAATTTGCTTAATTTATTTAAAAACCATAAACTCTA
1 ACCCTAATTTATTTAAAACCCTA-AACACTAA----CTTAATTTATTTAAAAACCATAAACTCTA
45460384 A
61 A
45460385 ACCCTAATTTATTTAAAACCCTAA
1 ACCCTAATTTATTTAAAACCCTAA
45460409 CTTAATTTAT
Statistics
Matches: 81, Mismatches: 2, Indels: 9
0.88 0.02 0.10
Matches are distributed among these distances:
60 7 0.09
61 14 0.17
62 7 0.09
65 1 0.01
66 51 0.63
67 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.01, T:0.34
Consensus pattern (61 bp):
ACCCTAATTTATTTAAAACCCTAAACACTAACTTAATTTATTTAAAAACCATAAACTCTAA
Found at i:45460417 original size:22 final size:23
Alignment explanation
Indices: 45460389--45460468 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 23
45460379 CTCTAAACCC
45460389 TAATTTATTTAAAACCCT-AACT
1 TAATTTATTTAAAACCCTAAACT
*
45460411 TAATTTATTTAAACCCCTAAAAACT
1 TAATTTATTTAAAACCCT--AAACT
*
45460436 CTAATTTACTTAAAAACCCTAAACCT
1 -TAATTTA-TTTAAAACCCTAAA-CT
45460462 TAATTTA
1 TAATTTA
45460469 AATAATTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
22 17 0.35
25 14 0.29
26 9 0.18
27 9 0.18
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (23 bp):
TAATTTATTTAAAACCCTAAACT
Found at i:45465277 original size:59 final size:61
Alignment explanation
Indices: 45465210--45465326 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
45465200 ATCACTTTAA
* * * * *
45465210 TATTAAATTAATATAATATTTA-T-CAATATAAATATTAGATTGAATTTAATATTAAATCT
1 TATTAAATTAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
45465269 TATTAAATTAATAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAATTAATAGAATATTTA-CTACAAGATAAACATTAAATTAAATTTAATATTAA
45465327 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 21 0.42
61 1 0.02
62 28 0.56
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (61 bp):
TATTAAATTAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:45465352 original size:20 final size:18
Alignment explanation
Indices: 45465305--45465353 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
45465295 CAAGATAAAC
45465305 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
45465322 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
45465342 ATTAAATTAATA
1 ATTAAATTAATA
45465354 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:45465838 original size:94 final size:94
Alignment explanation
Indices: 45465677--45465865 Score: 324
Period size: 94 Copynumber: 2.0 Consensus size: 94
45465667 AGTTCAATCA
* *
45465677 CCCATTGAACCAATTGTCTGACTTAAAAATTAGTTTCTAAAAACATCTTATTAATTTGATTAATT
1 CCCATTGAACCAATTGTCTGACTTAAAAATTAATTTCTAAAAACATATTATTAATTTGATTAATT
45465742 TAATTTTACTTTATCAAAATTAATTTTCC
66 TAATTTTACTTTATCAAAATTAATTTTCC
** * *
45465771 CCCATTGGGCCAATTGTCTGACTTAAAAATTAATTTCTAAAAATATATTATTAATTTGCTTAATT
1 CCCATTGAACCAATTGTCTGACTTAAAAATTAATTTCTAAAAACATATTATTAATTTGATTAATT
45465836 TAATTTTACTTTATCAAAATTAATTTTCC
66 TAATTTTACTTTATCAAAATTAATTTTCC
45465865 C
1 C
45465866 AAAAATCATT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 89 1.00
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (94 bp):
CCCATTGAACCAATTGTCTGACTTAAAAATTAATTTCTAAAAACATATTATTAATTTGATTAATT
TAATTTTACTTTATCAAAATTAATTTTCC
Found at i:45467604 original size:57 final size:58
Alignment explanation
Indices: 45467524--45467643 Score: 161
Period size: 57 Copynumber: 2.1 Consensus size: 58
45467514 AAATTGGTGA
* * * * *
45467524 AAAATGGATAAATGAGAAACATTTGGAAATGATTATGGTTTTATCCAAAATGAAAATG
1 AAAATAGAGAAATGAGAAACATTTGAAAATGAATATGGTTTTATCCAAAATAAAAATG
* * *
45467582 AAAATAGAGAAATG-GAATCATTTGAAAATGAATGTGGTTTTCTCCAAAATAAAAATG
1 AAAATAGAGAAATGAGAAACATTTGAAAATGAATATGGTTTTATCCAAAATAAAAATG
45467639 AAAAT
1 AAAAT
45467644 GACCTGGAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
57 42 0.78
58 12 0.22
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.28
Consensus pattern (58 bp):
AAAATAGAGAAATGAGAAACATTTGAAAATGAATATGGTTTTATCCAAAATAAAAATG
Found at i:45468972 original size:21 final size:21
Alignment explanation
Indices: 45468946--45468996 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
45468936 GAAGCTCAAA
* * *
45468946 AGCTGAATAGAAGCTCGTAGG
1 AGCTGAACAGAAACTCGTAAG
45468967 AGCTGAACAGAAACTCGTAAG
1 AGCTGAACAGAAACTCGTAAG
*
45468988 AGTTGAACA
1 AGCTGAACA
45468997 AAAAATAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.16, G:0.27, T:0.18
Consensus pattern (21 bp):
AGCTGAACAGAAACTCGTAAG
Found at i:45476766 original size:15 final size:15
Alignment explanation
Indices: 45476746--45476777 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
45476736 CTCGTTATAG
45476746 GTACATTGTGCTTGA
1 GTACATTGTGCTTGA
45476761 GTACATTGTGCTTGA
1 GTACATTGTGCTTGA
45476776 GT
1 GT
45476778 TTGAATAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.12, G:0.28, T:0.41
Consensus pattern (15 bp):
GTACATTGTGCTTGA
Found at i:45479714 original size:23 final size:21
Alignment explanation
Indices: 45479682--45479723 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
45479672 ACATATAACA
45479682 CTCATACTCATATCACAATATAC
1 CTCATACTCATA-C-CAATATAC
*
45479705 CTCATTCTCATACCAATAT
1 CTCATACTCATACCAATAT
45479724 GTAAGTTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 1 0.06
23 11 0.61
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (21 bp):
CTCATACTCATACCAATATAC
Found at i:45480200 original size:19 final size:21
Alignment explanation
Indices: 45480176--45480219 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
45480166 CAAATATGCC
*
45480176 AACAGAAGTTCG-AA-AGCTG
1 AACAGAAGGTCGTAAGAGCTG
45480195 AACAGAAGGTCGTAAGAGCTG
1 AACAGAAGGTCGTAAGAGCTG
45480216 AACA
1 AACA
45480220 TAAAGTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 2 0.09
21 9 0.41
ACGTcount: A:0.43, C:0.16, G:0.27, T:0.14
Consensus pattern (21 bp):
AACAGAAGGTCGTAAGAGCTG
Found at i:45483451 original size:18 final size:18
Alignment explanation
Indices: 45483419--45483453 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45483409 TAAAATTTTT
*
45483419 AATTTTTTTGGAAAAATC
1 AATTTTTTTGAAAAAATC
*
45483437 AATTTTTTTTAAAAAAT
1 AATTTTTTTGAAAAAAT
45483454 AAGGAATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (18 bp):
AATTTTTTTGAAAAAATC
Found at i:45488046 original size:23 final size:22
Alignment explanation
Indices: 45488020--45488062 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
45488010 CTCGTGATTG
*
45488020 GTATTTAATTTTATTATTAAAAT
1 GTATCTAATTTT-TTATTAAAAT
*
45488043 GTATCTAATTTTTTTTTAAA
1 GTATCTAATTTTTTATTAAA
45488063 TTGATGCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (22 bp):
GTATCTAATTTTTTATTAAAAT
Found at i:45489077 original size:41 final size:42
Alignment explanation
Indices: 45489026--45489106 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 42
45489016 TCTGAAAGTA
45489026 AAAAAATTAAAATCCTTGAAATAAAAGTATAAAAA-TAAAAT
1 AAAAAATTAAAATCCTTGAAATAAAAGTATAAAAACTAAAAT
45489067 AAAAAATTAAAATCCTTGAAATAAAAGTATAAAAACTAAA
1 AAAAAATTAAAATCCTTGAAATAAAAGTATAAAAACTAAA
45489107 TTCTAAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
41 35 0.90
42 4 0.10
ACGTcount: A:0.65, C:0.06, G:0.05, T:0.23
Consensus pattern (42 bp):
AAAAAATTAAAATCCTTGAAATAAAAGTATAAAAACTAAAAT
Found at i:45489099 original size:22 final size:22
Alignment explanation
Indices: 45489033--45489100 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
45489023 GTAAAAAAAT
45489033 TAAAATCCTTGAAATAAAAGTA
1 TAAAATCCTTGAAATAAAAGTA
* * *
45489055 TAAAA---ATAAAATAAAA-AA
1 TAAAATCCTTGAAATAAAAGTA
45489073 TTAAAATCCTTGAAATAAAAGTA
1 -TAAAATCCTTGAAATAAAAGTA
45489096 TAAAA
1 TAAAA
45489101 ACTAAATTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
18 1 0.03
19 14 0.40
22 19 0.54
23 1 0.03
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.25
Consensus pattern (22 bp):
TAAAATCCTTGAAATAAAAGTA
Found at i:45489724 original size:6 final size:6
Alignment explanation
Indices: 45489713--45489740 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
45489703 TTTAAATTAT
45489713 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
45489741 GATGAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:45492775 original size:29 final size:29
Alignment explanation
Indices: 45492742--45492808 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
45492732 ATGTACATGA
*
45492742 CCGTGTGTCACACAGGCTGAGACACACAC
1 CCGTGTCTCACACAGGCTGAGACACACAC
45492771 CCGTGTCTCACACAGGCTGAGACACACAC
1 CCGTGTCTCACACAGGCTGAGACACACAC
45492800 CCGTGTCTC
1 CCGTGTCTC
45492809 CACTCGTGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.24, C:0.37, G:0.22, T:0.16
Consensus pattern (29 bp):
CCGTGTCTCACACAGGCTGAGACACACAC
Found at i:45493645 original size:105 final size:105
Alignment explanation
Indices: 45493521--45493790 Score: 427
Period size: 105 Copynumber: 2.6 Consensus size: 105
45493511 TACACTCGTA
* * * * * *
45493521 ATGCCATAACCCAGTTATGGTCTTATCA-TTAGGATGCTATAGCCTAGCTATGGTCTTACACTTA
1 ATGCTATAACCTAGTTATGGTCTTTTCACTGA-AATGCCATAGCCTAGCTATGGTCTTACACTTA
*
45493585 TACATATACTGTCGTGGTTCAATCATAGTCTTACGTTCATG
65 TACATATACTGTCGTGGTTCAATCATAGTCTTACGTTCACG
45493626 ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAG-CTCAGCTATGGTCTTACACTTA
1 ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAGCCT-AGCTATGGTCTTACACTTA
*
45493690 TACATATACTGTCGTGGTTCAATCATGGTCTTACGTTCACG
65 TACATATACTGTCGTGGTTCAATCATAGTCTTACGTTCACG
*
45493731 ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAGCCCAGCTATGGTCTTACA
1 ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAGCCTAGCTATGGTCTTACA
45493791 TTTAACACTT
Statistics
Matches: 153, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
104 2 0.01
105 148 0.97
106 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.36
Consensus pattern (105 bp):
ATGCTATAACCTAGTTATGGTCTTTTCACTGAAATGCCATAGCCTAGCTATGGTCTTACACTTAT
ACATATACTGTCGTGGTTCAATCATAGTCTTACGTTCACG
Found at i:45497729 original size:56 final size:56
Alignment explanation
Indices: 45497640--45497793 Score: 245
Period size: 56 Copynumber: 2.8 Consensus size: 56
45497630 AGGGTGTTAA
*
45497640 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTATTAGGATATTATAG
1 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTATAG
* ** * *
45497696 GATATTATTATGAGATATTATCTCATAGAAATTTGATTCCTAATGGGATATTATAG
1 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTATAG
*
45497752 AATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
1 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
45497794 CGTAACTACT
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 87 1.00
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (56 bp):
GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTATAG
Found at i:45500772 original size:39 final size:39
Alignment explanation
Indices: 45500521--45500777 Score: 390
Period size: 39 Copynumber: 6.6 Consensus size: 39
45500511 GCTCTGATGA
* *
45500521 GCTTCACTTAGCCTTCTGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
45500560 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
45500599 GCTTCAGTTAGCATTCGGGCTTTCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
45500638 GCTTCAGTTAGCC-TCTGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTC-GGGCTTCCGTTTAGCACTTATGT
* * *
45500677 GCTTCAGTTAGCCTCCGGGATTTCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
45500716 GCTTCAGTTAGCCTTCGGGCTTCCGTTAAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* **
45500755 GCTTCAGCTAGATTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
45500778 AGATCACGAT
Statistics
Matches: 198, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
38 2 0.01
39 195 0.98
40 1 0.01
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:45504694 original size:24 final size:24
Alignment explanation
Indices: 45504641--45504686 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
45504631 TATTTCTAGA
* * *
45504641 ATATTTAGTATTTATTAGTATAAT
1 ATATTTAGCATGTATTAGCATAAT
45504665 ATATTTAGCATGTATTAGCATA
1 ATATTTAGCATGTATTAGCATA
45504687 GTTTATTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (24 bp):
ATATTTAGCATGTATTAGCATAAT
Found at i:45506661 original size:24 final size:24
Alignment explanation
Indices: 45506608--45506653 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
45506598 TCTTTCTAGA
*
45506608 ATATTTAGTATTTATTAGTATAAT
1 ATATTTAGTATTTATTAGCATAAT
45506632 ATATTTAGTATTTATTAGCATA
1 ATATTTAGTATTTATTAGCATA
45506654 GTTTATTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (24 bp):
ATATTTAGTATTTATTAGCATAAT
Found at i:45514284 original size:5 final size:5
Alignment explanation
Indices: 45514274--45514306 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
45514264 ATTATAAAAA
*
45514274 AATTT AATTT AATTT AA-TT AATTT AATTA AATT
1 AATTT AATTT AATTT AATTT AATTT AATTT AATT
45514307 GAATATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
AATTT
Found at i:45514296 original size:9 final size:9
Alignment explanation
Indices: 45514274--45514303 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
45514264 ATTATAAAAA
45514274 AATTTAATTT
1 AATTTAA-TT
45514284 AATTTAATT
1 AATTTAATT
45514293 AATTTAATT
1 AATTTAATT
45514302 AA
1 AA
45514304 ATTGAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
AATTTAATT
Found at i:45514296 original size:14 final size:14
Alignment explanation
Indices: 45514277--45514306 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
45514267 ATAAAAAAAT
*
45514277 TTAATTTAATTTAA
1 TTAATTTAATTAAA
45514291 TTAATTTAATTAAA
1 TTAATTTAATTAAA
45514305 TT
1 TT
45514307 GAATATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAATTTAATTAAA
Found at i:45514316 original size:19 final size:19
Alignment explanation
Indices: 45514274--45514310 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
45514264 ATTATAAAAA
* *
45514274 AATTTAATTTAATTTAATT
1 AATTTAATTAAATTGAATT
45514293 AATTTAATTAAATTGAAT
1 AATTTAATTAAATTGAAT
45514311 ATATTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
AATTTAATTAAATTGAATT
Found at i:45514513 original size:13 final size:13
Alignment explanation
Indices: 45514495--45514519 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45514485 TGAGTAACGA
45514495 ATGACAATTAATC
1 ATGACAATTAATC
45514508 ATGACAATTAAT
1 ATGACAATTAAT
45514520 TTTTTCATCA
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:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (13 bp):
ATGACAATTAATC
Found at i:45522922 original size:13 final size:13
Alignment explanation
Indices: 45522904--45522929 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45522894 TCGGTAGGGA
45522904 CATGCCCGTGTGC
1 CATGCCCGTGTGC
45522917 CATGCCCGTGTGC
1 CATGCCCGTGTGC
45522930 GATTATTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.38, G:0.31, T:0.23
Consensus pattern (13 bp):
CATGCCCGTGTGC
Found at i:45524329 original size:22 final size:22
Alignment explanation
Indices: 45524301--45524342 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
45524291 GGGACGAAAC
*
45524301 AGGGTGTGCGTGTTGCGACACA
1 AGGGTGTGCGTGTTACGACACA
*
45524323 AGGGTGTGTGTGTTACGACA
1 AGGGTGTGCGTGTTACGACA
45524343 TAGACACCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.14, G:0.40, T:0.26
Consensus pattern (22 bp):
AGGGTGTGCGTGTTACGACACA
Found at i:45528556 original size:79 final size:81
Alignment explanation
Indices: 45528454--45528638 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
45528444 GCTCCTCATT
* *
45528454 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
45528517 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
45528534 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
45528598 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
45528614 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45528639 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:45528638 original size:40 final size:40
Alignment explanation
Indices: 45528454--45528638 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
45528444 GCTCCTCATT
* *
45528454 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
45528494 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
45528534 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
45528573 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
45528614 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45528639 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:45548693 original size:65 final size:66
Alignment explanation
Indices: 45548587--45548721 Score: 191
Period size: 65 Copynumber: 2.1 Consensus size: 66
45548577 TTTTTCAAAA
* * * * * *
45548587 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGTT-
1 TCAACTCATATGGAGAGAAGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTCAAATTCTCTTG
45548651 T
66 T
* *
45548652 TCAACTCATGTGGAGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCTCTTG
1 TCAACTCATATGGAGAGAAGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTCAAATTCTCTTG
45548717 T
66 T
45548718 TCAA
1 TCAA
45548722 ATCCTGTCTT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
65 56 0.92
66 5 0.08
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (66 bp):
TCAACTCATATGGAGAGAAGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTCAAATTCTCTTG
T
Found at i:45549005 original size:73 final size:74
Alignment explanation
Indices: 45548748--45549043 Score: 409
Period size: 73 Copynumber: 3.9 Consensus size: 74
45548738 TCACTTTTCC
* *
45548748 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGC-CACACGCTGAGGTATTTTCAATTT
* *
45548813 CTGTTCGTAAAAAA
65 CTGTTTGT----CA
*
45548827 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTTAAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCCACACGCTGAGGTA-TTTTCAATT
*
45548890 TCTGTTTTTCA
64 TCTGTTTGTCA
* *
45548901 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GACACGCTGAGGTAATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCCACACGCTGAGGTATTTTCAATTTC
45548965 TGTTTGTCA
66 TGTTTGTCA
* *
45548974 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGC-CACACGCTGAGGTATTTTCAATTT
45549039 CTGTT
65 CTGTT
45549044 CTTCAATTTC
Statistics
Matches: 199, Mismatches: 13, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
73 58 0.29
74 51 0.26
75 25 0.13
77 11 0.06
78 15 0.08
79 37 0.19
80 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCCACACGCTGAGGTATTTTCAATTTC
TGTTTGTCA
Found at i:45549328 original size:54 final size:54
Alignment explanation
Indices: 45549118--45549396 Score: 391
Period size: 54 Copynumber: 5.0 Consensus size: 54
45549108 GCTGAGGTAT
*
45549118 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTT-AATTTTTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
45549175 TTTCAATTTATATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTT-T-TGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
45549232 TTTTAATTTCTGTTTTTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGCA-CC
1 TTTTAATTT-T-TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCC
45549288 TTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGTA-CC
1 TTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCC
* *
45549342 TTTTAATTTCTGTTTTTCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
45549396 T
1 T
45549397 CGGGGCACGC
Statistics
Matches: 205, Mismatches: 13, Indels: 11
0.90 0.06 0.05
Matches are distributed among these distances:
53 1 0.00
54 92 0.45
55 1 0.00
56 47 0.23
57 57 0.28
58 7 0.03
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.39
Consensus pattern (54 bp):
TTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:45549514 original size:57 final size:54
Alignment explanation
Indices: 45549439--45549705 Score: 367
Period size: 54 Copynumber: 4.8 Consensus size: 54
45549429 TTTCAATTCC
* *
45549439 TGTTTTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTAT
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTT-T
*
45549494 ATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGT
1 -TGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA-TT-T-T
* * *
45549553 TTTTTTTCAAAAAGCAACTCATATTGCAAGAGGTGAGTTGCA-CCTTTTAATTTT
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTTTAATTTT
*
45549607 TGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGTA-CCTTTTAATTTT
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTTTAATTTT
* *
45549661 TGTTTTTCAAAAATCAACCCATATTGCGAGAAGTGAGTTGAGCCT
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
45549706 CGGGTCACGC
Statistics
Matches: 191, Mismatches: 15, Indels: 12
0.88 0.07 0.06
Matches are distributed among these distances:
53 1 0.01
54 90 0.47
55 1 0.01
56 9 0.05
57 78 0.41
58 10 0.05
59 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (54 bp):
TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTT
Found at i:45549653 original size:111 final size:111
Alignment explanation
Indices: 45549439--45549705 Score: 373
Period size: 114 Copynumber: 2.4 Consensus size: 111
45549429 TTTCAATTCC
*
45549439 TGTTTTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATATTTTTCA
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATATTTTTCA
45549504 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGT
66 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAA-TT-T-T
* * * * *
45549553 TTTTTTTCAAAAAGCAACTCATATTGCAAGAGGTGAGTTGCA-CCTTTTAATTT-T-TGTTTTTC
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTTCAATTTATATATTTTTC
*
45549615 -AAAAATCAACTCATATTGTGAGAGGTGAGTTGTA-CCTTTTAATTTT
65 AAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTTTAATTTT
* *
45549661 TGTTTTTCAAAAATCAACCCATATTGCGAGAAGTGAGTTGAGCCT
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
45549706 CGGGTCACGC
Statistics
Matches: 138, Mismatches: 12, Indels: 12
0.85 0.07 0.07
Matches are distributed among these distances:
107 1 0.01
108 39 0.28
109 1 0.01
110 2 0.01
111 39 0.28
112 8 0.06
113 1 0.01
114 46 0.33
115 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (111 bp):
TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATATTTTTCA
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTT
Found at i:45549667 original size:309 final size:308
Alignment explanation
Indices: 45549118--45549926 Score: 1447
Period size: 309 Copynumber: 2.6 Consensus size: 308
45549108 GCTGAGGTAT
* * *
45549118 TTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATT
1 TTTTCAATTCCTGTTTTTC--AACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATT
45549183 TATATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTT
64 TATATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTT
45549248 TTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGCACCTTTTAATTTTTGTTTTTCAAAAATC
129 TTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGCACCTTTTAATTTTTGTTTTTCAAAAATC
**
45549313 AACTCATATTGCGAGAGGTGAGTTGTACCTTTTAATTTCTGTTTTTCAAAAATCAATTCATATTG
194 AACTCATATTGCGAGAGGTGAGTTGTACCTTTTAATTTCTGTTTTTCAAAAATCAACCCATATTG
*
45549378 CGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTAC
259 CGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTAC
45549428 TTTTCAATTCCTGTTTTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTA
1 TTTTCAATTCCTGTTTTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTA
45549493 TATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTT
66 TATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTG-TTTTT
*
45549558 TTCAAAAAGCAACTCATATTGCAAGAGGTGAGTTGCACCTTTTAATTTTTGTTTTTCAAAAATCA
130 TTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGCACCTTTTAATTTTTGTTTTTCAAAAATCA
* *
45549623 ACTCATATTGTGAGAGGTGAGTTGTACCTTTTAATTTTTGTTTTTCAAAAATCAACCCATATTGC
195 ACTCATATTGCGAGAGGTGAGTTGTACCTTTTAATTTCTGTTTTTCAAAAATCAACCCATATTGC
*
45549688 GAGAAGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTCAATTTCTAC
260 GAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTAC
* *
45549737 TTTCCAATTCCCGTTTTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTA
1 TTTTCAATTCCTGTTTTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTA
*
45549802 TATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTT
66 TATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTT
* * *
45549867 TCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTATCTTTTAATTTTTGTCTTTCAAAA
131 TCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGCACCTTTTAATTTTTGTTTTTCAAAA
45549927 TCTGCTTTTC
Statistics
Matches: 481, Mismatches: 17, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
308 166 0.35
309 298 0.62
310 17 0.04
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.39
Consensus pattern (308 bp):
TTTTCAATTCCTGTTTTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTA
TATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTT
TCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGCACCTTTTAATTTTTGTTTTTCAAAAATCAA
CTCATATTGCGAGAGGTGAGTTGTACCTTTTAATTTCTGTTTTTCAAAAATCAACCCATATTGCG
AGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTCTAC
Found at i:45549908 original size:56 final size:56
Alignment explanation
Indices: 45549750--45549913 Score: 249
Period size: 57 Copynumber: 2.9 Consensus size: 56
45549740 CCAATTCCCG
* *
45549750 TTTTTCAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATA
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTATATA
* *
45549806 TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATT
1 TTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTATATA
* *
45549863 TTTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-TCTTTTAATTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTTTAATTT
45549914 TTGTCTTTCA
Statistics
Matches: 100, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
56 47 0.47
57 53 0.53
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (56 bp):
TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTATATA
Found at i:45552131 original size:10 final size:9
Alignment explanation
Indices: 45552064--45552133 Score: 58
Period size: 9 Copynumber: 7.7 Consensus size: 9
45552054 TTATTACTAG
45552064 TATTA-GTA
1 TATTATGTA
45552072 TCATTAT-TCA
1 T-ATTATGT-A
45552082 TATTA-GTA
1 TATTATGTA
45552090 TATATATGT-
1 TAT-TATGTA
*
45552099 TATTATATA
1 TATTATGTA
45552108 TATATATGTA
1 TAT-TATGTA
45552118 TATTATGTA
1 TATTATGTA
45552127 GTATTAT
1 -TATTAT
45552134 CTTTTTCTAC
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
8 9 0.18
9 24 0.47
10 18 0.35
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.53
Consensus pattern (9 bp):
TATTATGTA
Found at i:45555299 original size:14 final size:15
Alignment explanation
Indices: 45555280--45555308 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
45555270 AAATAAAGGC
45555280 AAGATTAAAT-AAAA
1 AAGATTAAATCAAAA
45555294 AAGATTAAATCAAAA
1 AAGATTAAATCAAAA
45555309 CCATAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.21
Consensus pattern (15 bp):
AAGATTAAATCAAAA
Found at i:45557148 original size:94 final size:93
Alignment explanation
Indices: 45557066--45557517 Score: 557
Period size: 94 Copynumber: 4.8 Consensus size: 93
45557056 CATTTCGACT
* ** * ** *
45557066 CACTGTAACTTCAGAGAGATAAGATTTGCTATGATAACTTCAATCCAACCCATTGCAACTTTAGG
1 CACTGCAACTTCAGAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTTAGG
*
45557131 GGTATAGGACTTGTAGTTTTATCTTGCTC
66 GGTATAGGATTTGTAG-TTTATCTTGCTC
* * * *
45557160 CACTGCAACTTCAGGGAGATAAGATTCCCCATGGTAACTTCAATCTAACCCACTGCAACTTTAGG
1 CACTGCAACTTCAGAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTTAGG
*
45557225 GGTATAGGATTTGTAGCTTTTTCTTGC-C
66 GGTATAGGATTTGTAG-TTTATCTTGCTC
* * * ** * * *
45557253 CTACTACAACTTCATAGAGATAAGAATCGTTATGGTAACTTCAATCTGATCCACTACAACTTTAA
1 C-ACTGCAACTTCAGAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTTAG
* *
45557318 GGATACAGGATTTGTAGCTTTATCTTGCTC
65 GGGTATAGGATTTGTAG-TTTATCTTGCTC
* * *
45557348 CACTCCAACTTCAAAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTCAGG
1 CACTGCAACTTCAGAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTTAGG
* *
45557413 GGTATAGGATTTGTCACTTTATCTTTCTC
66 GGTATAGGATTTGT-AGTTTATCTTGCTC
* * *
45557442 CACTGCATCTTCAG-GAAGGTAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTCAG
1 CACTGCAACTTCAGAG-AGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTTAG
45557506 GGGTATAGGATT
65 GGGTATAGGATT
45557518 AGCTATGGCA
Statistics
Matches: 312, Mismatches: 42, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
93 3 0.01
94 306 0.98
95 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (93 bp):
CACTGCAACTTCAGAGAGATAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTTAGG
GGTATAGGATTTGTAGTTTATCTTGCTC
Found at i:45557214 original size:144 final size:143
Alignment explanation
Indices: 45556960--45557663 Score: 503
Period size: 144 Copynumber: 4.9 Consensus size: 143
45556950 TTGTTCTAGT
* * * * *
45556960 TTCAATCCAACCCACTGCAACTTCAAGAGTATAAGATTTGTAGCTTCGTCTTGCTCCACTGCAAC
1 TTCAATCCAACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAAC
* ** ** * * *
45557025 TTTAAGGAGATAAGCTTCACCATTATAGTTTC-ATTTCGACTCACTGTAACTTCAGAGAGATAAG
66 TTTAAGGAGATAAGATTCACCATGGTAACTTCAATCT-GACCCACTGCAACTTCAG-GAGATAAG
*
45557089 ATTTGCTATGATAAC
129 ATTTGCTATGGTAAC
* * * *
45557104 TTCAATCCAACCCATTGCAACTTTAGGGGTATAGGACTTGTAGTTTTATCTTGCTCCACTGCAAC
1 TTCAATCCAACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAAC
* * * * * * *
45557169 TTCAGGGAGATAAGATTCCCCATGGTAACTTCAATCTAACCCACTGCAACTTTAGGGGTATAGGA
66 TTTAAGGAGATAAGATTCACCATGGTAACTTCAATCTGACCCACTGCAACTTCAGGAG-ATAAGA
* **
45557234 TTTG-TA-GCT-TT
130 TTTGCTATGGTAAC
* * * * * * * * *
45557245 TTC-TTGC--CCTACTACAACTTCATAGAGATA-AGAATCGTTATGGTAACTTCAATC-TGATCC
1 TTCAATCCAACCCACTGCAACTT--TAGGGGTATAGGA---TT-T-GTAGCTTC-ATCTTGCTCC
* * * * * * *
45557305 ACTACAACTTTAAGGATACAGGATT-----T-GTAGCTT-TATCTTG-CTCCACTCCAACTTCAA
58 ACTGCAACTTTAAGGAGATAAGATTCACCATGGTAACTTCAATC-TGAC-CCACTGCAACTTC-A
* **
45557362 AGAGATAAGATTCACTATGGTAAC
120 GGAGATAAGATTTGCTATGGTAAC
** * * * *
45557386 TTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTCA-CTTTATCTTTCTCCACTGCAT
1 TTCAATCCAACCCACTGCAACTTTAGGGGTATAGGATTTGT-AGCTTCATCTTGCTCCACTGCAA
* * * * *
45557450 C-TTCAGGAAGGTAAGATTCACTATGGTAACTTCAATCTGACCCACTGCAACTTCAGGGGTATAG
65 CTTTAAGG-AGATAAGATTCACCATGGTAACTTCAATCTGACCCACTGCAACTTCAGGAG-ATAA
* *
45557514 GATTAGCTATGGCAAC
128 GATTTGCTATGGTAAC
* * *
45557530 TTCAATCCGACCCACTGTAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGTAAC
1 TTCAATCCAACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAAC
* * *
45557595 TTTAAGGAGATAAGATT-AGCTATGGTAACTTCAATCTGACCAACTACAACTTCAGGGAGATAAG
66 TTTAAGGAGATAAGATTCA-CCATGGTAACTTCAATCTGACCCACTGCAACTTCA-GGAGATAAG
45557659 ATTTG
129 ATTTG
45557664 TAGCTTCATC
Statistics
Matches: 423, Mismatches: 101, Indels: 72
0.71 0.17 0.12
Matches are distributed among these distances:
137 12 0.03
138 56 0.13
139 11 0.03
140 12 0.03
141 6 0.01
142 9 0.02
143 14 0.03
144 285 0.67
145 18 0.04
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (143 bp):
TTCAATCCAACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAAC
TTTAAGGAGATAAGATTCACCATGGTAACTTCAATCTGACCCACTGCAACTTCAGGAGATAAGAT
TTGCTATGGTAAC
Found at i:45557584 original size:238 final size:238
Alignment explanation
Indices: 45557283--45557742 Score: 602
Period size: 238 Copynumber: 1.9 Consensus size: 238
45557273 TAAGAATCGT
* * * *
45557283 TATGGTAACTTCAATCTGATCCACTACAACTTTAAGGATACAGGATTTGTAGCTTTATCTTGCTC
1 TATGGCAACTTCAATCCGACCCACTACAACTTTAAGGATACAGGATTTGTAGCTTCATCTTGCTC
* *
45557348 CACTCCAACTTCAAAGAGATAAGATTCA-CTATGGTAACTTCAATCTGACCCACTGCAACTTCAG
66 CACTCCAACTTCAAAGAGATAAGATT-AGCTATGGTAACTTCAATCTGACCAACTACAACTTCAG
* * * * * * *
45557412 GG-GTATAGGATTTGTCA-CTTTATCTTTCTCCACTGCATCTTCAGGAAGGTAAGATTCACTATG
130 GGAG-ATAAGATTTGT-AGCTTCATCTTGCTCCACTGCAACTTCAGGAAGATAAGATTCACCATC
45557475 GTAACTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTAGC
193 GTAACTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTAGC
** * * *
45557521 TATGGCAACTTCAATCCGACCCACTGTAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCTC
1 TATGGCAACTTCAATCCGACCCACTACAACTTTAAGGATACAGGATTTGTAGCTTCATCTTGCTC
** * *
45557586 CACTGTAACTTTAAGGAGATAAGATTAGCTATGGTAACTTCAATCTGACCAACTACAACTTCAGG
66 CACTCCAACTTCAAAGAGATAAGATTAGCTATGGTAACTTCAATCTGACCAACTACAACTTCAGG
* * ** *
45557651 GAGATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCCTCGTA
131 GAGATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGAAGATAAGATTCACCATCGTA
** *
45557716 GTTTCATTCTGACCCACTGCAACTTCA
196 ACTTCAATCTGACCCACTGCAACTTCA
45557743 AAGGTATAAG
Statistics
Matches: 189, Mismatches: 30, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
237 2 0.01
238 186 0.98
239 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (238 bp):
TATGGCAACTTCAATCCGACCCACTACAACTTTAAGGATACAGGATTTGTAGCTTCATCTTGCTC
CACTCCAACTTCAAAGAGATAAGATTAGCTATGGTAACTTCAATCTGACCAACTACAACTTCAGG
GAGATAAGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGAAGATAAGATTCACCATCGTA
ACTTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTAGC
Found at i:45557654 original size:50 final size:49
Alignment explanation
Indices: 45557159--45557742 Score: 229
Period size: 50 Copynumber: 12.3 Consensus size: 49
45557149 TTATCTTGCT
* * *
45557159 CCACTGCAACTTCAGGGAGATAAGATTCCCCATGGTAACTTCAATCTAAC
1 CCACTGCAACTTCAGGGAGATAAGATT-ACTATGGTAACTTCAATCTGAC
* * * **
45557209 CCACTGCAACTTTAGGG-GTATAGGA-T--T-T-GTAGCTT-TTTCTTG-C
1 CCACTGCAACTTCAGGGAG-ATAAGATTACTATGGTAACTTCAATC-TGAC
* ** * *
45557252 CCTACTACAACTTCATAGAGATAAGAAT-CGTTATGGTAACTTCAATCTGAT
1 CC-ACTGCAACTTCAGGGAGATAAGATTAC--TATGGTAACTTCAATCTGAC
* * * * * * * *
45557303 CCACTACAACTTTAAGGATACAGGA-T--T-T-GTAGCTT-TATCTTG-C
1 CCACTGCAACTTCAGGGAGATAAGATTACTATGGTAACTTCAATC-TGAC
* **
45557346 TCCACTCCAACTTCAAAGAGATAAGATTCACTATGGTAACTTCAATCTGAC
1 -CCACTGCAACTTCAGGGAGATAAGATT-ACTATGGTAACTTCAATCTGAC
* * * **
45557397 CCACTGCAACTTCAGGG-GTATAGGA-T--T-T-GTCACTT-TATCTTTC
1 CCACTGCAACTTCAGGGAG-ATAAGATTACTATGGTAACTTCAATCTGAC
* * *
45557440 TCCACTGCATCTTCAGGAAGGTAAGATTCACTATGGTAACTTCAATCTGAC
1 -CCACTGCAACTTCAGGGAGATAAGATT-ACTATGGTAACTTCAATCTGAC
* * *
45557491 CCACTGCAACTTCAGGG-GTATAGGATTAGCTATGGCAACTTCAATCCGAC
1 CCACTGCAACTTCAGGGAG-ATAAGATTA-CTATGGTAACTTCAATCTGAC
* * * *
45557541 CCACTGTAACTTTAGGG-GTATAGGA-T--T-T-GTAGCTTC-ATCTTG-C
1 CCACTGCAACTTCAGGGAG-ATAAGATTACTATGGTAACTTCAATC-TGAC
* * *
45557584 TCCACTGTAACTTTAAGGAGATAAGATTAGCTATGGTAACTTCAATCTGAC
1 -CCACTGCAACTTCAGGGAGATAAGATTA-CTATGGTAACTTCAATCTGAC
* * *
45557635 CAACTACAACTTCAGGGAGATAAGA-T--T-T-GTAGCTTC-ATCTTG-C
1 CCACTGCAACTTCAGGGAGATAAGATTACTATGGTAACTTCAATC-TGAC
* * ** * ** *
45557678 TCCACTGCAACTTTAGGGAGATAAGATTTGCCCTCGTAGTTTCATTCTGAC
1 -CCACTGCAACTTCAGGGAGATAAGA-TTACTATGGTAACTTCAATCTGAC
45557729 CCACTGCAACTTCA
1 CCACTGCAACTTCA
45557743 AAGGTATAAG
Statistics
Matches: 403, Mismatches: 76, Indels: 110
0.68 0.13 0.19
Matches are distributed among these distances:
43 21 0.05
44 134 0.33
45 12 0.03
46 5 0.01
48 4 0.01
49 14 0.03
50 193 0.48
51 20 0.05
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (49 bp):
CCACTGCAACTTCAGGGAGATAAGATTACTATGGTAACTTCAATCTGAC
Found at i:45557696 original size:44 final size:44
Alignment explanation
Indices: 45557541--45557707 Score: 160
Period size: 44 Copynumber: 3.7 Consensus size: 44
45557531 TCAATCCGAC
* *
45557541 CCACTGTAACTTTAGGG-GTATAGGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTTAGGGAG-ATAAGATTTGTAGCTTCATCTTGCT
* * *
45557585 CCACTGTAACTTTAAGGAGATAAGATTAGCTATGGTAACTTCAATC-TGAC-
1 CCACTGCAACTTTAGGGAGATAAGA-T---T-T-GTAGCTTC-ATCTTG-CT
* * *
45557635 CAACTACAACTTCAGGGAGATAAGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCATCTTGCT
45557679 CCACTGCAACTTTAGGGAGATAAGATTTG
1 CCACTGCAACTTTAGGGAGATAAGATTTG
45557708 CCCTCGTAGT
Statistics
Matches: 100, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
43 4 0.04
44 56 0.56
45 3 0.03
46 1 0.01
48 1 0.01
49 2 0.02
50 29 0.29
51 4 0.04
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (44 bp):
CCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCATCTTGCT
Found at i:45557752 original size:94 final size:94
Alignment explanation
Indices: 45557491--45557763 Score: 289
Period size: 94 Copynumber: 2.9 Consensus size: 94
45557481 TCAATCTGAC
* * * * * * * * *
45557491 CCACTGCAAC-TTCAGGGGTATAGGATTAGCTATGGCAACTTCAATCCGACCCACTGTAACTTTA
1 CCACTGCAACTTTAAGGAG-ATAAGATTAGCCATCGTAACTTCAATCTGACCCACTGCAACTTCA
* *
45557555 GGGGTATAGGATTTGTAGCTTCATCTTGCT
65 AGGGTATAAGATTTGTAGCTTCATCTTGCT
* * * * *
45557585 CCACTGTAACTTTAAGGAGATAAGATTAGCTATGGTAACTTCAATCTGACCAACTACAACTTC-A
1 CCACTGCAACTTTAAGGAGATAAGATTAGCCATCGTAACTTCAATCTGACCCACTGCAACTTCAA
*
45557649 GGGAGATAAGATTTGTAGCTTCATCTTGCT
66 GGG-TATAAGATTTGTAGCTTCATCTTGCT
* * * ** *
45557679 CCACTGCAACTTTAGGGAGATAAGATTTGCCCTCGTAGTTTCATTCTGACCCACTGCAACTTCAA
1 CCACTGCAACTTTAAGGAGATAAGATTAGCCATCGTAACTTCAATCTGACCCACTGCAACTTCAA
* *
45557744 AGGTATAAGAATTGTAGCTT
66 GGGTATAAGATTTGTAGCTT
45557764 TAATCCAATC
Statistics
Matches: 149, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
93 3 0.02
94 137 0.92
95 9 0.06
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (94 bp):
CCACTGCAACTTTAAGGAGATAAGATTAGCCATCGTAACTTCAATCTGACCCACTGCAACTTCAA
GGGTATAAGATTTGTAGCTTCATCTTGCT
Found at i:45569908 original size:5 final size:5
Alignment explanation
Indices: 45569897--45569939 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
45569887 AAATAGAAAG
* *
45569897 ATTTT GTTTT GTTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
45569940 AATTTAGGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:45578116 original size:5 final size:5
Alignment explanation
Indices: 45578102--45578139 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
45578092 AAATAGAAAG
*
45578102 ATTTT ATTTT GTTTT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
45578140 AATTTAGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:45583284 original size:21 final size:21
Alignment explanation
Indices: 45583258--45583309 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
45583248 TTACTCGAAG
45583258 GAAGCCGATTGATCCATCTCA
1 GAAGCCGATTGATCCATCTCA
45583279 GAAGCCGATTGATCCATCTCA
1 GAAGCCGATTGATCCATCTCA
45583300 GAAGCCGATT
1 GAAGCCGATT
45583310 AGGCCCTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (21 bp):
GAAGCCGATTGATCCATCTCA
Found at i:45588618 original size:21 final size:21
Alignment explanation
Indices: 45588592--45588633 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
45588582 CAAGGAGGAG
45588592 AATGACTTACATGCTCTCAAC
1 AATGACTTACATGCTCTCAAC
45588613 AATGACTTACATGCTCTCAAC
1 AATGACTTACATGCTCTCAAC
45588634 CGCCACATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.10, T:0.29
Consensus pattern (21 bp):
AATGACTTACATGCTCTCAAC
Found at i:45593019 original size:93 final size:93
Alignment explanation
Indices: 45592906--45593077 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
45592896 CGCCCATAAG
* *
45592906 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCTATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
45592970 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
* *
45592999 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
45593064 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
45593078 TCAATCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:45593072 original size:46 final size:46
Alignment explanation
Indices: 45592899--45593074 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
45592889 TGTAACCCGC
* *
45592899 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* * *
45592945 CTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
45592995 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
45593038 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
45593075 TGCTCAATCA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 59 0.55
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:45600746 original size:31 final size:30
Alignment explanation
Indices: 45600703--45600760 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
45600693 TATCAAAATT
*
45600703 AACAATAAAATAAGAATTATA-CAATATTCA
1 AACAATAAAATAA-AATAATAGCAATATTCA
*
45600733 AACAGTAACAATAAAATAATAGCAATAT
1 AACAATAA-AATAAAATAATAGCAATAT
45600761 AATAGTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.60, C:0.10, G:0.05, T:0.24
Consensus pattern (30 bp):
AACAATAAAATAAAATAATAGCAATATTCA
Found at i:45603414 original size:57 final size:57
Alignment explanation
Indices: 45603343--45603457 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
45603333 AAAACACTCT
45603343 TGGCTGGCAGAGCAGTAAATAGCAGAATAGCGGAACTACAGTTAATTTATGGCCCTA
1 TGGCTGGCAGAGCAGTAAATAGCAGAATAGCGGAACTACAGTTAATTTATGGCCCTA
45603400 TGGCTGGCAGAGCAGTAAATAGCAGAATAGCGGAACTACAGTTAATTTATGGCCCTA
1 TGGCTGGCAGAGCAGTAAATAGCAGAATAGCGGAACTACAGTTAATTTATGGCCCTA
45603457 T
1 T
45603458 ATGTAGGAGG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (57 bp):
TGGCTGGCAGAGCAGTAAATAGCAGAATAGCGGAACTACAGTTAATTTATGGCCCTA
Found at i:45604091 original size:41 final size:40
Alignment explanation
Indices: 45604015--45604100 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
45604005 CAAATACATT
*
45604015 TAAAACAACTATTAAAACAAGAAACAAATAAAAAATGATAC
1 TAAAACAACTATTAAAACAAGAAACAAATAAAAAAT-ATAA
* * * * **
45604056 TAAAACAATTGTTAAAACAATACACAAATTGAAAATATAA
1 TAAAACAACTATTAAAACAAGAAACAAATAAAAAATATAA
45604096 TAAAA
1 TAAAA
45604101 AGTGATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.64, C:0.10, G:0.05, T:0.21
Consensus pattern (40 bp):
TAAAACAACTATTAAAACAAGAAACAAATAAAAAATATAA
Found at i:45604151 original size:28 final size:27
Alignment explanation
Indices: 45604087--45604151 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
45604077 ACACAAATTG
* * *
45604087 AAAATATAATAAAAAGTGATTATATTA
1 AAAATAAAATAAAAAGTAAATATATTA
* *
45604114 AAATTGAAAATAAAATGTAAATATGATTA
1 AAAAT-AAAATAAAAAGTAAATAT-ATTA
45604143 AAAATAAAA
1 AAAATAAAA
45604152 AATATAAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 4 0.13
28 18 0.60
29 8 0.27
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATAAAATAAAAAGTAAATATATTA
Found at i:45605468 original size:18 final size:18
Alignment explanation
Indices: 45605447--45605507 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
45605437 TTTAAAATCA
45605447 TTTTAAAAAAAATAGTCT
1 TTTTAAAAAAAATAGTCT
*
45605465 TTTTAAAAATTTAAA-A-TCA
1 TTTTAAAAA---AAATAGTCT
45605484 TTTTAAAAAAAATAGTCT
1 TTTTAAAAAAAATAGTCT
45605502 TTTTAA
1 TTTTAA
45605508 GTTATCACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
16 3 0.08
17 1 0.03
18 17 0.47
19 11 0.31
20 1 0.03
21 3 0.08
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (18 bp):
TTTTAAAAAAAATAGTCT
Found at i:45605475 original size:37 final size:37
Alignment explanation
Indices: 45605433--45605507 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
45605423 AAGCTACTAT
45605433 AAAATTTAAAATCATTTTAAAAAAAATAGTCTTTTTA
1 AAAATTTAAAATCATTTTAAAAAAAATAGTCTTTTTA
45605470 AAAATTTAAAATCATTTTAAAAAAAATAGTCTTTTTA
1 AAAATTTAAAATCATTTTAAAAAAAATAGTCTTTTTA
45605507 A
1 A
45605508 GTTATCACTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (37 bp):
AAAATTTAAAATCATTTTAAAAAAAATAGTCTTTTTA
Found at i:45605789 original size:21 final size:21
Alignment explanation
Indices: 45605741--45605789 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
45605731 CAATTTAATA
*
45605741 TTAATTATCATATTTTTAAAT
1 TTAATTATCATATTATTAAAT
*
45605762 TTAAATTAT-ATATTATTATGAT
1 TT-AATTATCATATTATTA-AAT
45605784 TTAATT
1 TTAATT
45605790 TCGTAACTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TTAATTATCATATTATTAAAT
Found at i:45608073 original size:142 final size:142
Alignment explanation
Indices: 45607825--45608108 Score: 523
Period size: 142 Copynumber: 2.0 Consensus size: 142
45607815 ATGTTGATAT
45607825 TATTATTTAAGATTGGTATTGATGTTGAATCAAGGGATTGAAATGTAAAGTATAAAAATTATATG
1 TATTATTTAAGATTGGTATTGATGTTGAATCAAGGGATTGAAATGTAAAGTATAAAAATTATATG
*
45607890 TATTTGAAATGAATTATATTATTATAAGGTATGCAAATGACCATGTTGAGTATGGTGCTATATTG
66 TATTTGAAATGAATTATATTATTATAAGGTATGCAAATGACCATGTTGAGTATGGCGCTATATTG
*
45607955 TATAGTTGAAAA
131 TAAAGTTGAAAA
* *
45607967 TATTATTTGAGATTGGTATTGATGTTGAATCAAGGGATTGAAATGTAAAGTATAGAAATTATATG
1 TATTATTTAAGATTGGTATTGATGTTGAATCAAGGGATTGAAATGTAAAGTATAAAAATTATATG
*
45608032 TATTTGAAATGAATTATATTATTATAAGGTATGCTAATGACCATGTTGAGTATGGCGCTATATTG
66 TATTTGAAATGAATTATATTATTATAAGGTATGCAAATGACCATGTTGAGTATGGCGCTATATTG
45608097 TAAAGTTGAAAA
131 TAAAGTTGAAAA
45608109 GAATATGGGA
Statistics
Matches: 137, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 137 1.00
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.38
Consensus pattern (142 bp):
TATTATTTAAGATTGGTATTGATGTTGAATCAAGGGATTGAAATGTAAAGTATAAAAATTATATG
TATTTGAAATGAATTATATTATTATAAGGTATGCAAATGACCATGTTGAGTATGGCGCTATATTG
TAAAGTTGAAAA
Found at i:45610839 original size:46 final size:45
Alignment explanation
Indices: 45610734--45610953 Score: 183
Period size: 46 Copynumber: 4.7 Consensus size: 45
45610724 GGGTATAATA
* * * *
45610734 CCGATGCCATGCCCCAGACATGGTCTTACACTGACTTTAACATATCCG-TG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-TT--CGTAT-CGAGG
* * * *
45610784 CCGATGCATGTCTCAAACATGTCTTACACTGGCTTACATCTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTATCGAGG
* * * *
45610830 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTTTCCATG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCT-TCGTATCGAGG
* *
45610876 CCGATGCCATGTCCCAGACATGGTCTTATACTGGCTTTCGTAAT-GTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-TTCGT-ATCGAGG
*
45610924 TCGATGCATGTCCCAGACATGTCTTACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
45610954 AGCACACAAT
Statistics
Matches: 143, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
45 2 0.01
46 58 0.41
47 31 0.22
48 33 0.23
49 13 0.09
50 6 0.04
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.29
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTTCGTATCGAGG
Found at i:45610902 original size:94 final size:92
Alignment explanation
Indices: 45610782--45610956 Score: 244
Period size: 94 Copynumber: 1.9 Consensus size: 92
45610772 AACATATCCG
* *
45610782 TGCCGATGCATGTCTCAAACATGTCTTACACTGGCTTACAT-CTCGAGGCCGATGCATGTCCCAG
1 TGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATAAT-GAGGCCGATGCATGTCCCAG
45610846 ACATGTCTTACACTAGCTCTCGTTTCCA
65 ACATGTCTTACACTAGCTCTCGTTTCCA
* * * * * *
45610874 TGCCGATGCCATGTCCCAGACATGGTCTTATACTGGCTTTCGTAATGTGGTCGATGCATGTCCCA
1 TGCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACATAATGAGGCCGATGCATGTCCCA
45610939 GACATGTCTTACACTAGC
64 GACATGTCTTACACTAGC
45610957 ACACAATTAA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
92 8 0.11
93 12 0.17
94 51 0.71
95 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.30
Consensus pattern (92 bp):
TGCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATAATGAGGCCGATGCATGTCCCAGA
CATGTCTTACACTAGCTCTCGTTTCCA
Found at i:45623052 original size:22 final size:22
Alignment explanation
Indices: 45623024--45623068 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
45623014 TAAAAATGAA
45623024 TCATTAATACCTCGCATTATTC
1 TCATTAATACCTCGCATTATTC
45623046 TCATTAATACCTCGCATTATTC
1 TCATTAATACCTCGCATTATTC
45623068 T
1 T
45623069 TTTCGAGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.27, G:0.04, T:0.42
Consensus pattern (22 bp):
TCATTAATACCTCGCATTATTC
Found at i:45632095 original size:43 final size:42
Alignment explanation
Indices: 45632022--45632188 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 42
45632012 CATAAGCTCG
* * * *
45632022 TACAATGCC-ATATCCCGGATATGGTCTTACATGTCAATACGT-A
1 TACAATGCCAATGTCCCAGACAGGGTCTTACATG-CAAT-C-TAA
* *
45632065 T-CAATGCCATTGTCCCAGACAGGGTCTTACATGAAATCATAA
1 TACAATGCCAATGTCCCAGACAGGGTCTTACATGCAATC-TAA
* * *
45632107 TACGATGCCAATGTCTCAGAC-GTGGTCTTACACGCAATCTCAA
1 TACAATGCCAATGTCCCAGACAG-GGTCTTACATGCAATCT-AA
* *
45632150 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 TACAATGCCAATGTCCCAGACAGGGTCTTACATGCAATC
45632189 ACATCTCGAT
Statistics
Matches: 101, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
41 2 0.02
42 14 0.14
43 85 0.84
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACAGGGTCTTACATGCAATCTAA
Found at i:45648254 original size:12 final size:12
Alignment explanation
Indices: 45648239--45648269 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
45648229 AACCACACGC
45648239 CCGTGTGCCAAG
1 CCGTGTGCCAAG
45648251 CCGTGTGCCAAG
1 CCGTGTGCCAAG
45648263 CCGTGTG
1 CCGTGTG
45648270 AAATCTAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.32, G:0.35, T:0.19
Consensus pattern (12 bp):
CCGTGTGCCAAG
Found at i:45649488 original size:43 final size:42
Alignment explanation
Indices: 45649374--45649530 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 42
45649364 AGCTCGTACA
* * *
45649374 ATGCC-ATATCCCAGATATGGTCTTACATGTAAATACGT-AT-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAAT-C-TAATACG
*
45649416 ATGCCACTGTCCCAAGACATGGTCTTACACGAAATCATAATACG
1 ATGCCAATGTCCC-AGACATGGTCTTACACGAAATC-TAATACG
*
45649460 ATGCCAATGTCCCAGACATGGTCTTACAC-ACAATCTCAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGA-AATCT-AATACG
*
45649503 ATACCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
45649531 TGTAATCACA
Statistics
Matches: 101, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
42 9 0.09
43 63 0.62
44 29 0.29
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCTAATACG
Found at i:45650119 original size:27 final size:27
Alignment explanation
Indices: 45650089--45650145 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
45650079 TTCATCAAAA
45650089 ATCCCAATAGAAAACATATTAACACAT
1 ATCCCAATAGAAAACATATTAACACAT
45650116 ATCCCAATAGAAAACATATTAACACAT
1 ATCCCAATAGAAAACATATTAACACAT
45650143 ATC
1 ATC
45650146 TTTCATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.51, C:0.23, G:0.04, T:0.23
Consensus pattern (27 bp):
ATCCCAATAGAAAACATATTAACACAT
Found at i:45651633 original size:30 final size:30
Alignment explanation
Indices: 45651573--45651643 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 30
45651563 CTTGGGTCAT
* *
45651573 ACGCCCATGTATGTTGCCTGTGTCTAACAC
1 ACGCCCATGTGTGTTGCCCGTGTCTAACAC
* * *
45651603 ATGCCCATGTGTGTTGCCCGTGTGTGACAC
1 ACGCCCATGTGTGTTGCCCGTGTCTAACAC
*
45651633 ACGCCCGTGTG
1 ACGCCCATGTG
45651644 GCCAGGTCGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.15, C:0.30, G:0.27, T:0.28
Consensus pattern (30 bp):
ACGCCCATGTGTGTTGCCCGTGTCTAACAC
Found at i:45660755 original size:15 final size:15
Alignment explanation
Indices: 45660735--45660766 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
45660725 CATTTCACTA
*
45660735 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
45660750 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
45660765 TT
1 TT
45660767 TTCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:45662539 original size:20 final size:20
Alignment explanation
Indices: 45662516--45662553 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
45662506 TTTTATTAAA
45662516 TTAATATTAAAGTGATTATC
1 TTAATATTAAAGTGATTATC
45662536 TTAATATTAAAGTGATTA
1 TTAATATTAAAGTGATTA
45662554 AGTTTAATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (20 bp):
TTAATATTAAAGTGATTATC
Found at i:45663707 original size:30 final size:33
Alignment explanation
Indices: 45663673--45663736 Score: 80
Period size: 31 Copynumber: 2.0 Consensus size: 33
45663663 AATATTAAAA
* *
45663673 TAAATCTT-TTTTATCTTAA-ATTTA-ATTATT
1 TAAATCTTATTTTATCATAATATTCATATTATT
*
45663703 TAAATTTTATTTTATCATAATATTCATATTATT
1 TAAATCTTATTTTATCATAATATTCATATTATT
45663736 T
1 T
45663737 TACCTAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 7 0.25
31 10 0.36
32 4 0.14
33 7 0.25
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (33 bp):
TAAATCTTATTTTATCATAATATTCATATTATT
Done.