Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 35 of 64
Found at i:6982488 original size:61 final size:61
Alignment explanation
Indices: 6982402--6982521 Score: 170
Period size: 61 Copynumber: 2.0 Consensus size: 61
6982392 TTTTTGAAAA
* * * * *
6982402 ATGTTTTCAAAATTATATATTATATATATTTTCAAAAAATGTTTTTTTAAAACTATATATAT
1 ATGTTTTCAAAACTATATATCATATATATTTTCAAAAAAAG-GTTTTCAAAACTATATATAT
*
6982464 ATGTTTT-AAAACTATATATCATATATGTTTTCAAAAAAAGGTTTTCAAAACTATATAT
1 ATGTTTTCAAAACTATATATCATATATATTTTCAAAAAAAGGTTTTCAAAACTATATAT
6982522 TATACATATT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 16 0.31
61 29 0.56
62 7 0.13
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (61 bp):
ATGTTTTCAAAACTATATATCATATATATTTTCAAAAAAAGGTTTTCAAAACTATATATAT
Found at i:6982509 original size:100 final size:100
Alignment explanation
Indices: 6982353--6982542 Score: 267
Period size: 100 Copynumber: 1.9 Consensus size: 100
6982343 TTTTCAAATT
* ** * *
6982353 CTATATAATATGTTTTTCAAAAAATATATATTATATATGTTTTTGAAAAATGTTTTCAAAATTAT
1 CTATATAATATGTTTTT-AAAAAATATATATCATATATGTTTTAAAAAAAGGTTTTCAAAACTAT
*
6982418 ATATTATATATATTTTCAAAAAATGTTTTTTTAAAA
65 ATATTATACATATTTTCAAAAAATGTTTTTTTAAAA
*
6982454 CTATATATATATG-TTTT-AAAACTATATATCATATATGTTTTCAAAAAAAGGTTTTCAAAACTA
1 CTATATA-ATATGTTTTTAAAAAATATATATCATATATGTTTT-AAAAAAAGGTTTTCAAAACTA
*
6982517 TATATTATACATATTTTCGAAAAATG
64 TATATTATACATATTTTCAAAAAATG
6982543 CTTTCAAAAC
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
99 22 0.28
100 41 0.52
101 11 0.14
102 5 0.06
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (100 bp):
CTATATAATATGTTTTTAAAAAATATATATCATATATGTTTTAAAAAAAGGTTTTCAAAACTATA
TATTATACATATTTTCAAAAAATGTTTTTTTAAAA
Found at i:6982540 original size:38 final size:39
Alignment explanation
Indices: 6982466--6982555 Score: 112
Period size: 38 Copynumber: 2.4 Consensus size: 39
6982456 ATATATATAT
* *
6982466 GTTTT-AAAACTATATATCATATATGTTTTCAAAAAAAG
1 GTTTTCAAAACTATATATCATACATATTTTCAAAAAAAG
* * *
6982504 GTTTTCAAAACTATATATTATACATATTTTC-GAAAAAT
1 GTTTTCAAAACTATATATCATACATATTTTCAAAAAAAG
*
6982542 GCTTTCAAAACTAT
1 GTTTTCAAAACTAT
6982556 GTTTTCAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 23 0.51
39 22 0.49
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (39 bp):
GTTTTCAAAACTATATATCATACATATTTTCAAAAAAAG
Found at i:6982563 original size:14 final size:15
Alignment explanation
Indices: 6982544--6982572 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6982534 CGAAAAATGC
6982544 TTTC-AAAACTATGT
1 TTTCAAAAACTATGT
6982558 TTTCAAAAACTATGT
1 TTTCAAAAACTATGT
6982573 ATAATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (15 bp):
TTTCAAAAACTATGT
Found at i:6992768 original size:14 final size:14
Alignment explanation
Indices: 6992713--6992770 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
6992703 ACCCTAAACG
6992713 TTTTTC-TTTTC-T
1 TTTTTCTTTTTCTT
* * *
6992725 TTTTTCCTCTTATT
1 TTTTTCTTTTTCTT
*
6992739 TTTTTCTTTTTGTT
1 TTTTTCTTTTTCTT
6992753 TTTTT-TTTTTACTT
1 TTTTTCTTTTT-CTT
6992767 TTTT
1 TTTT
6992771 AGTTCAACAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
12 6 0.16
13 8 0.22
14 23 0.62
ACGTcount: A:0.03, C:0.12, G:0.02, T:0.83
Consensus pattern (14 bp):
TTTTTCTTTTTCTT
Found at i:6996387 original size:292 final size:290
Alignment explanation
Indices: 6995865--6996447 Score: 1148
Period size: 292 Copynumber: 2.0 Consensus size: 290
6995855 TCTTCTTAGA
6995865 TTTTTTTGCAGGGGTTTGCATTATGTCTTGATAGGTAGTTTGTGGACAACCATATTCGTATCTAG
1 TTTTTTTGCAGGGGTTTGCATTATGTCTTGATAGGTAGTTTGTGGACAACCATATTCGTATCTAG
6995930 CCTAGGCATATCTTTATACGACCATGCAAACCATCTTTGTATTCTTGAAGTAAGCTTACAAGCTT
66 CCTAGGCATATCTTTATACGACCATGCAAACCATCTTTGTATTCTTGAAGTAAGCTTACAAGCTT
6995995 TCTCTTGCTTCAGCCGAAAGAGTTGTACCAATTTTAACTTCCTTTATTTTATCTTCTGTACCAAG
131 TCTCTTGCTTCAGCCGAAAGAGTTGTACCAATTTTAACTTCCTTTATTTTATCTTCTGTACCAAG
6996060 ATTCAAGACTTCAATTTTCTTGTCATGTGGCAATATTTGTTTGTACCATCCTTAATAATCCGAAA
196 ATTCAAGACTTCAATTTTCTTGTCATGTGGCAATATTTGTTTGTACCATCCTTAATAATCCGAAA
6996125 GGTAAGTTGCACTCTTCTTCATTGTCACAT
261 GGTAAGTTGCACTCTTCTTCATTGTCACAT
6996155 TTTTTTTGCAGGGGTTTGCATTATGTCTTGATAGGTAGTTTGTGGACAACCATATTCGTATCTAG
1 TTTTTTTGCAGGGGTTTGCATTATGTCTTGATAGGTAGTTTGTGGACAACCATATTCGTATCTAG
6996220 CCTAGGCATATCTTTATACGACCATGCAAACACATCTTTGTATTCTTGAAGTAAGCTTATCAAGC
66 CCTAGGCATATCTTTATACGACCATGCAAAC-CATCTTTGTATTCTTGAAGTAAGCTTA-CAAGC
6996285 TTTCTCTTGCTTCAGCCGAAAGAGTTGTACCAATTTTAACTTCCTTTATTTTATCTTCTGTACCA
129 TTTCTCTTGCTTCAGCCGAAAGAGTTGTACCAATTTTAACTTCCTTTATTTTATCTTCTGTACCA
6996350 AGATTCAAGACTTCAATTTTCTTGTCATGTGGCAATATTTGTTTGTACCATCCTTAATAATCCGA
194 AGATTCAAGACTTCAATTTTCTTGTCATGTGGCAATATTTGTTTGTACCATCCTTAATAATCCGA
6996415 AAGGTAAGTTGCACTCTTCTTCATTGTCACAT
259 AAGGTAAGTTGCACTCTTCTTCATTGTCACAT
6996447 T
1 T
6996448 CATCGATTTC
Statistics
Matches: 291, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
290 96 0.33
291 27 0.09
292 168 0.58
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.40
Consensus pattern (290 bp):
TTTTTTTGCAGGGGTTTGCATTATGTCTTGATAGGTAGTTTGTGGACAACCATATTCGTATCTAG
CCTAGGCATATCTTTATACGACCATGCAAACCATCTTTGTATTCTTGAAGTAAGCTTACAAGCTT
TCTCTTGCTTCAGCCGAAAGAGTTGTACCAATTTTAACTTCCTTTATTTTATCTTCTGTACCAAG
ATTCAAGACTTCAATTTTCTTGTCATGTGGCAATATTTGTTTGTACCATCCTTAATAATCCGAAA
GGTAAGTTGCACTCTTCTTCATTGTCACAT
Found at i:7004850 original size:85 final size:85
Alignment explanation
Indices: 7004719--7004885 Score: 212
Period size: 85 Copynumber: 2.0 Consensus size: 85
7004709 AAACCCTAAA
* * * * *
7004719 ATCTTACACATTTAGACCGTTAGATTGGTTCAGATCCAACTGATCTGATGATGCGA-CACTTATA
1 ATCTTACACATGTAGACCGATAGATTGGTTCAGATCCAACGGATCTGATGATAC-ATCACTGATA
7004783 TCAAAAGGGTAAAACCCTCGG
65 TCAAAAGGGTAAAACCCTCGG
* ** *
7004804 ATCTTGCACATGTAGACC-ATAGGATTGGTTCAGATTTAACGGATCTGATGATACATCGCTGATA
1 ATCTTACACATGTAGACCGATA-GATTGGTTCAGATCCAACGGATCTGATGATACATCACTGATA
*
7004868 TCAAAAGGGTAGAACCCT
65 TCAAAAGGGTAAAACCCT
7004886 AAACGCGTCT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
84 3 0.04
85 67 0.96
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (85 bp):
ATCTTACACATGTAGACCGATAGATTGGTTCAGATCCAACGGATCTGATGATACATCACTGATAT
CAAAAGGGTAAAACCCTCGG
Found at i:7005061 original size:21 final size:20
Alignment explanation
Indices: 7005033--7005072 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
7005023 AAATGAAAAC
7005033 ATATTATAATATAATATATA
1 ATATTATAATATAATATATA
7005053 ATATATATAATATAATATAT
1 ATAT-TATAATATAATATAT
7005073 GTACAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATTATAATATAATATATA
Found at i:7005062 original size:16 final size:15
Alignment explanation
Indices: 7005041--7005089 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 15
7005031 ACATATTATA
7005041 ATATAATATATAATAT
1 ATATAA-ATATAATAT
7005057 ATAT-AATATAATAT
1 ATATAAATATAATAT
*
7005071 ATGTACAATATAATAT
1 ATATA-AATATAATAT
7005087 ATA
1 ATA
7005090 ATATGTTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 12 0.41
15 1 0.03
16 16 0.55
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (15 bp):
ATATAAATATAATAT
Found at i:7005081 original size:21 final size:20
Alignment explanation
Indices: 7005037--7005087 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
7005027 GAAAACATAT
* *
7005037 TATAATATAATATATAATATA
1 TATAATATAATATAT-GTAAA
7005058 TATAATATAATATATGTACAA
1 TATAATATAATATATGTA-AA
7005079 TATAATATA
1 TATAATATA
7005088 TAATATGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (20 bp):
TATAATATAATATATGTAAA
Found at i:7005088 original size:7 final size:7
Alignment explanation
Indices: 7005041--7005093 Score: 56
Period size: 7 Copynumber: 7.3 Consensus size: 7
7005031 ACATATTATA
7005041 ATATAAT
1 ATATAAT
7005048 ATATAAT
1 ATATAAT
7005055 ATAT-AT
1 ATATAAT
7005061 AATATAAT
1 -ATATAAT
7005069 ATATGTACA-
1 ATA--TA-AT
7005078 ATATAAT
1 ATATAAT
7005085 ATATAAT
1 ATATAAT
7005092 AT
1 AT
7005094 GTTAACATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
6 3 0.08
7 29 0.73
8 2 0.05
9 5 0.12
10 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (7 bp):
ATATAAT
Found at i:7005093 original size:5 final size:5
Alignment explanation
Indices: 7005002--7005087 Score: 54
Period size: 5 Copynumber: 17.2 Consensus size: 5
7004992 AAAAAGGGAA
* * * *
7005002 AATAT AA-A- AATAT AATA- AATAA AATGAA AACAT ATTAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AAT-AT AATAT AATAT AATAT AATAT
* *
7005050 -ATAAT ATATAT AATAT AATAT ATGTAC AATAT AATAT A
1 AAT-AT A-ATAT AATAT AATAT A-ATAT AATAT AATAT A
7005088 TAATATGTTA
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
3 2 0.03
4 8 0.12
5 42 0.66
6 10 0.16
7 2 0.03
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (5 bp):
AATAT
Found at i:7005112 original size:37 final size:37
Alignment explanation
Indices: 7005040--7005112 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
7005030 AACATATTAT
* *
7005040 AATATAATATATAATATATATAATATAATATATGTAC
1 AATATAATATATAATATATATAACATAATACATGTAC
*
7005077 AATATAATATATAATATGT-TAACATATATACATGTA
1 AATATAATATATAATATATATAACATA-ATACATGTA
7005113 TCATATTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 6 0.19
37 26 0.81
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (37 bp):
AATATAATATATAATATATATAACATAATACATGTAC
Found at i:7005232 original size:38 final size:37
Alignment explanation
Indices: 7005148--7005243 Score: 106
Period size: 38 Copynumber: 2.6 Consensus size: 37
7005138 TGTTTTTCAA
* * **
7005148 AAAATATATATTATATATGTTTTCGAAAAATGTTTTT
1 AAAATATATATTATATATATTTTCAAAAAACATTTTT
7005185 AAAATTATATATTATATATATTTTCACAAAAAACATTTTT
1 AAAA-TATATATTATATATATTTT--CAAAAAACATTTTT
*
7005225 -TAATATATA-TATATATATT
1 AAAATATATATTATATATATT
7005244 AAAACTATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
37 14 0.27
38 24 0.47
39 2 0.04
40 11 0.22
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (37 bp):
AAAATATATATTATATATATTTTCAAAAAACATTTTT
Found at i:7008601 original size:2 final size:2
Alignment explanation
Indices: 7008594--7008664 Score: 128
Period size: 2 Copynumber: 36.5 Consensus size: 2
7008584 GATAATTTAT
7008594 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7008636 TA TA TA TA T- TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7008665 TTATTCCTAA
Statistics
Matches: 67, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 65 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7027618 original size:3 final size:3
Alignment explanation
Indices: 7027610--7027652 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
7027600 ACTAAATTAC
* *
7027610 TAA TAA TAA TAA TAA CAA TGA TAA TAA -AA TAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7027653 AACATATGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:7027643 original size:8 final size:8
Alignment explanation
Indices: 7027611--7027654 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
7027601 CTAAATTACT
7027611 AATAATAA
1 AATAATAA
*
7027619 TAATAACAA
1 -AATAATAA
*
7027628 TGATAATAA
1 -AATAATAA
7027637 AATAATAA
1 AATAATAA
7027645 AATAATAA
1 AATAATAA
7027653 AA
1 AA
7027655 CATATGTGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
8 17 0.55
9 14 0.45
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (8 bp):
AATAATAA
Found at i:7031614 original size:20 final size:21
Alignment explanation
Indices: 7031562--7031606 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
7031552 GCAAAAAAAA
7031562 TGTCTAAGGAATAACATTTTT
1 TGTCTAAGGAATAACATTTTT
7031583 TGTCTAAGGAATAACATTTTT
1 TGTCTAAGGAATAACATTTTT
7031604 TGT
1 TGT
7031607 TTGAGAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (21 bp):
TGTCTAAGGAATAACATTTTT
Found at i:7035287 original size:33 final size:33
Alignment explanation
Indices: 7035250--7035400 Score: 143
Period size: 33 Copynumber: 4.7 Consensus size: 33
7035240 TGTCATGATC
**
7035250 AAGTTTACTTACAAAAGATGTCAGTTGCATGTT
1 AAGTTTACTTACAAAAGATGTCAGCAGCATGTT
* * * **
7035283 AAGTTTACTTACAAAAAATGACAGCAACAAATT
1 AAGTTTACTTACAAAAGATGTCAGCAGCATGTT
*
7035316 AAGTTTACTTACAAAA-AT-TACAACAGCATGTT
1 AAGTTTACTTACAAAAGATGT-CAGCAGCATGTT
* *
7035348 AAGTTTACTTACAAAAGATG--A-CAACATGTC
1 AAGTTTACTTACAAAAGATGTCAGCAGCATGTT
*
7035378 AAGTTTACTTTA-AAAATATGTCA
1 AAGTTTAC-TTACAAAAGATGTCA
7035401 TCATATCCAA
Statistics
Matches: 97, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
30 22 0.23
31 4 0.04
32 27 0.28
33 44 0.45
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (33 bp):
AAGTTTACTTACAAAAGATGTCAGCAGCATGTT
Found at i:7035350 original size:32 final size:33
Alignment explanation
Indices: 7035250--7035373 Score: 151
Period size: 33 Copynumber: 3.8 Consensus size: 33
7035240 TGTCATGATC
* ***
7035250 AAGTTTACTTACAAAAGATGTCAGTTGCATGTT
1 AAGTTTACTTACAAAAGATGACAACAGCATGTT
* * * **
7035283 AAGTTTACTTACAAAAAATGACAGCAACAAATT
1 AAGTTTACTTACAAAAGATGACAACAGCATGTT
*
7035316 AAGTTTACTTACAAAA-ATTACAACAGCATGTT
1 AAGTTTACTTACAAAAGATGACAACAGCATGTT
7035348 AAGTTTACTTACAAAAGATGACAACA
1 AAGTTTACTTACAAAAGATGACAACA
7035374 TGTCAAGTTT
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
32 27 0.35
33 50 0.65
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (33 bp):
AAGTTTACTTACAAAAGATGACAACAGCATGTT
Found at i:7035447 original size:30 final size:30
Alignment explanation
Indices: 7035407--7035485 Score: 104
Period size: 31 Copynumber: 2.6 Consensus size: 30
7035397 GTCATCATAT
*
7035407 CCAAGTTTACAAAAGATGGTAGCAACATGC
1 CCAAGTTTACAAAAGATGGAAGCAACATGC
* * * *
7035437 CCAAATTTACAAAAAAATGGAAGCAATATGT
1 CCAAGTTTAC-AAAAGATGGAAGCAACATGC
7035468 CCAAGTTTACAAAAGATG
1 CCAAGTTTACAAAAGATG
7035486 ACAATATGTC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 16 0.39
31 25 0.61
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (30 bp):
CCAAGTTTACAAAAGATGGAAGCAACATGC
Found at i:7038460 original size:14 final size:14
Alignment explanation
Indices: 7038441--7038469 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7038431 ATCGAACTCA
7038441 ATTCAATCTTCCCT
1 ATTCAATCTTCCCT
7038455 ATTCAATCTTCCCT
1 ATTCAATCTTCCCT
7038469 A
1 A
7038470 AAGGACAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.34, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTCAATCTTCCCT
Found at i:7038700 original size:134 final size:133
Alignment explanation
Indices: 7038455--7039167 Score: 876
Period size: 134 Copynumber: 5.3 Consensus size: 133
7038445 AATCTTCCCT
* *
7038455 ATTCAATCTTCCCTAAAG-GACAGTGGAATGAATCAATGTCCCCATATCTGATTTTCCCTCAAGA
1 ATTCAATCTTCCCT-GAGTGACAGTGGAATGAATCAACG-CCCCATATCTGATTTTCCCTCAAGA
* * *
7038519 AAAAGCGTAATAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTAGAACAAGTCTA
64 AAAAGCGAAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGTCTA
7038584 CCTCG
129 CCTCG
* * * *
7038589 ATTCAATCTTCCCTGAGTGACATTGGAATTAATCAACGCCTCTATATCTGATTTTCCCTTAAGAA
1 ATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACGCC-CCATATCTGATTTTCCCTCAAGAA
* * * * * *
7038654 GAAGCGAAACATATCCTTGTCCTTCAAGATTTGATATTCCCCGAGTAATTA-TGGAACAAGTCTA
65 AAAGCGAAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAA-TAGTGGAACAAGTCTA
*
7038718 CCTTG
129 CCTCG
* * * * *
7038723 ATTCAATCTT-CCTGAGTGATAGTGGAATGAATCAACACCCCCATTTATGACTTTT-CCTTAAGA
1 ATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAAC-GCCCCATATCTGA-TTTTCCCTCAAGA
* * *
7038786 AGAAGCGAAACAAAACCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAATGGAACAAGTCTA
64 AAAAGCGAAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGTCTA
7038851 CCTCG
129 CCTCG
* * * *
7038856 ATTCAATCTTCCCTGAGTGACAGTGGAAAGAATTAATGCCCATATATCTGATTTTCCCTCAAGAA
1 ATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACGCCC-CATATCTGATTTTCCCTCAAGAA
* * * * * * * * *
7038921 AAAGTGGAATAAATCCTTCTCTTTCAAGATTTGATATTCCATTAGTAAAAGTGGAATAAGTCTGC
65 AAAGCGAAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGTCTAC
7038986 CTCG
130 CTCG
* * * * * *
7038990 ATTCAATATTTCCTGAGTGACAGTGGAATAAATCAACGTCCCATATCTAATTTTTCCTCAAGAGA
1 ATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACGCCCCATATCTGATTTTCCCTCAAGA-A
* * * * * *
7039055 AAAGTGGAGCAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCGAC
65 AAAGCGAAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGTCTAC
7039120 CTCG
130 CTCG
7039124 ATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACGTCCCCA
1 ATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACG-CCCCA
7039168 GATATTAAAT
Statistics
Matches: 493, Mismatches: 75, Indels: 21
0.84 0.13 0.04
Matches are distributed among these distances:
132 2 0.00
133 138 0.28
134 347 0.70
135 6 0.01
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (133 bp):
ATTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACGCCCCATATCTGATTTTCCCTCAAGAAA
AAGCGAAACAAATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGTCTACC
TCG
Found at i:7038951 original size:267 final size:266
Alignment explanation
Indices: 7038473--7039161 Score: 898
Period size: 267 Copynumber: 2.6 Consensus size: 266
7038463 TTCCCTAAAG
** * *
7038473 GACAGTGGAATGAATCAATGTCCCCATATCTGATTTTCCCTCAAGAAAAAGCGTAATAAATCCCT
1 GACAGTGGAATGAATCAA-CCCCCCATATCTGATTTT-CCTCAAGAAAAAGCGAAACAAATCCCT
*
7038538 CTCTTTCAAGATTTGATATTCCCTGAGTAATAGTAGAACAAGTCTACCTCGATTCAATCTTCCCT
64 CTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGTCTACCTCGATTCAATCTTCCCT
* * * * *
7038603 GAGTGACATTGGAATTAATCAACGCCTCTATATCTGATTTTCCCTTAAGAAGAAGCGAAACATAT
129 GAGTGACAGTGGAATGAATCAACGCCTCTATATCTGATTTTCCCTCAAGAAAAAGCGAAACAAAT
* * * *
7038668 CCTTGTCCTTCAAGATTTGATATTCCCCGAGTAATTA-TGGAACAAGTCTACCTTGATTCAAT-C
194 CCTTCTCCTTCAAGATTTGATATTCCACGAGTAA-AAGTGGAACAAGTCTACCTCGATTCAATAC
7038731 TTCCTGAGT
258 TTCCTGAGT
* * * * * *
7038740 GATAGTGGAATGAATCAACACCCCCATTTATGACTTTTCCTTAAGAAGAAGCGAAACAAAACCCT
1 GACAGTGGAATGAATCAAC-CCCCCATATCTGA-TTTTCCTCAAGAAAAAGCGAAACAAATCCCT
*
7038805 CTCTTTCAAGATTTGATATTCCCTGAGTAATAATGGAACAAGTCTACCTCGATTCAATCTTCCCT
64 CTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGTCTACCTCGATTCAATCTTCCCT
* * * * * *
7038870 GAGTGACAGTGGAAAGAATTAATGCC-CATATATCTGATTTTCCCTCAAGAAAAAGTGGAATAAA
129 GAGTGACAGTGGAATGAATCAACGCCTC-TATATCTGATTTTCCCTCAAGAAAAAGCGAAACAAA
* ** * * *
7038934 TCCTTCTCTTTCAAGATTTGATATTCCATTAGTAAAAGTGGAATAAGTCTGCCTCGATTCAATAT
193 TCCTTCTCCTTCAAGATTTGATATTCCACGAGTAAAAGTGGAACAAGTCTACCTCGATTCAATAC
7038999 TTCCTGAGT
258 TTCCTGAGT
* ** * * * * *
7039008 GACAGTGGAATAAATCAACGTCCCATATCTAATTTTTCCTCAAGAGAAAAGTGGAGCAGATCCCT
1 GACAGTGGAATGAATCAACCCCCCATATCTGA-TTTTCCTCAAGA-AAAAGCGAAACAAATCCCT
* *
7039073 CTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCGACCTCGATTCAATCTTCCCT
64 CTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGTCTACCTCGATTCAATCTTCCCT
7039138 GAGTGACAGTGGAATGAATCAACG
129 GAGTGACAGTGGAATGAATCAACG
7039162 TCCCCAGATA
Statistics
Matches: 362, Mismatches: 54, Indels: 11
0.85 0.13 0.03
Matches are distributed among these distances:
266 2 0.01
267 234 0.65
268 126 0.35
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.30
Consensus pattern (266 bp):
GACAGTGGAATGAATCAACCCCCCATATCTGATTTTCCTCAAGAAAAAGCGAAACAAATCCCTCT
CTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTGA
GTGACAGTGGAATGAATCAACGCCTCTATATCTGATTTTCCCTCAAGAAAAAGCGAAACAAATCC
TTCTCCTTCAAGATTTGATATTCCACGAGTAAAAGTGGAACAAGTCTACCTCGATTCAATACTTC
CTGAGT
Found at i:7044043 original size:34 final size:35
Alignment explanation
Indices: 7043980--7044049 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
7043970 TGATATTTTT
* * *
7043980 AAATAAATAAATATCTTATATATATATATATATTA
1 AAATAAAAAAATATCTTAAATATAAATATATATTA
* *
7044015 AAATAAAAAAATATTTTAAAT-TAAATATATTTTA
1 AAATAAAAAAATATCTTAAATATAAATATATATTA
7044049 A
1 A
7044050 TTATTTTTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
34 12 0.40
35 18 0.60
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (35 bp):
AAATAAAAAAATATCTTAAATATAAATATATATTA
Found at i:7044264 original size:98 final size:100
Alignment explanation
Indices: 7044150--7044353 Score: 351
Period size: 100 Copynumber: 2.1 Consensus size: 100
7044140 TATTTCTGAA
*
7044150 TAAATAAACATCTTATTTATATATATATA-A-ATTAATAGATTTTCTTAAAATTATAATAATAAA
1 TAAATAAACATCTTATTTATATATATATATATATTAATAGATTCTCTTAAAATTATAATAATAAA
*
7044213 TTTGAAATAATAGAA-TATTAAATTAAATATATCTT
66 TTTGAAATAACAGAATTA-TAAATTAAATATATCTT
7044248 TAAATAAACATCTTATTTATATATATATATATATTAATAGATTCTCTTAAAATTATAATAATAAA
1 TAAATAAACATCTTATTTATATATATATATATATTAATAGATTCTCTTAAAATTATAATAATAAA
7044313 TTTGAAATAACAGAATTATAAATTAAATATATCTT
66 TTTGAAATAACAGAATTATAAATTAAATATATCTT
*
7044348 TGAATA
1 TAAATA
7044354 TTTAAAATAA
Statistics
Matches: 100, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
98 29 0.29
99 1 0.01
100 68 0.68
101 2 0.02
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (100 bp):
TAAATAAACATCTTATTTATATATATATATATATTAATAGATTCTCTTAAAATTATAATAATAAA
TTTGAAATAACAGAATTATAAATTAAATATATCTT
Found at i:7044384 original size:100 final size:99
Alignment explanation
Indices: 7044168--7044385 Score: 264
Period size: 100 Copynumber: 2.2 Consensus size: 99
7044158 CATCTTATTT
* *
7044168 ATATATATATAAATTAATAGATTTTCTTAAAATTATAATAATAAATTTGAAATAATAGAATATTA
1 ATATATATAT-AATTAATAGATTCTCTTAAAATTATAATAATAAATTTGAAATAACAGAATATTA
** *** *
7044233 AATTAAATATATCTTTAAATAAACATCTTATTTAT
65 AATTAAATATATCTTTAAATAAACATAATAGAGAC
7044268 ATATATATATATATTAATAGATTCTCTTAAAATTATAATAATAAATTTGAAATAACAGAAT-TAT
1 ATATATATATA-ATTAATAGATTCTCTTAAAATTATAATAATAAATTTGAAATAACAGAATAT-T
7044332 AAATTAAATATATCTTTGAATATTTAAA-ATAATAGAGAC
64 AAATTAAATATATCTTT-AA-A--TAAACATAATAGAGAC
*
7044371 A-AT-TTTATAATTAAT
1 ATATATATATAATTAAT
7044386 GGGTACCAAT
Statistics
Matches: 103, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
99 2 0.02
100 81 0.79
101 7 0.07
102 3 0.03
103 6 0.06
104 4 0.04
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (99 bp):
ATATATATATAATTAATAGATTCTCTTAAAATTATAATAATAAATTTGAAATAACAGAATATTAA
ATTAAATATATCTTTAAATAAACATAATAGAGAC
Found at i:7052537 original size:73 final size:73
Alignment explanation
Indices: 7052416--7052820 Score: 688
Period size: 73 Copynumber: 5.6 Consensus size: 73
7052406 TTCCAACATA
*
7052416 TGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTAATCTTAAAGCCTCA
1 TGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCA
7052481 GGGTCATC
66 GGGTCATC
* *
7052489 TATAAGACCTATAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCA
1 TGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCA
*
7052554 GGTTCATC
66 GGGTCATC
* *
7052562 TGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTTATCCTAAAGCCTCA
1 TGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCA
*
7052627 AGGTCATC
66 GGGTCATC
* * *
7052635 TGTAAGACCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGACCTTTTTGATCTTAAAACCTCA
1 TGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCA
7052700 GGGTCATC
66 GGGTCATC
* *
7052708 TGTAAGACCTACAGTGCTTGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAACCCTCA
1 TGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCA
7052773 GGGTCATC
66 GGGTCATC
7052781 TGTAAGACCTACAGTGCATGATGTTTTC-AAAA-CCTTCGGG
1 TGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGG
7052821 TCATCTATAA
Statistics
Matches: 311, Mismatches: 21, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
71 8 0.03
72 4 0.01
73 299 0.96
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (73 bp):
TGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCA
GGGTCATC
Found at i:7052841 original size:45 final size:45
Alignment explanation
Indices: 7052764--7053080 Score: 463
Period size: 45 Copynumber: 7.0 Consensus size: 45
7052754 TTTTGATCTT
* * * *
7052764 AAACCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCA
1 AAACCTTC-GGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCA
*
7052810 AAACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATATTTTCA
1 AAACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCA
* *
7052855 AAACCTTCGAGTCATTTATAAGCCCTTCAGTGCATGATGTTTTCA
1 AAACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCA
* *
7052900 AAACCTTTGGGTTATCTATAAGCCCTTCAGTGCATGATGTTTTCA
1 AAACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCA
* * * *
7052945 AAACTTTTGGGTCATCTGTATGCCCTTCAGTGCATGATGTTTTCA
1 AAACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCA
* *
7052990 AAACCTTCGGGTCATCTATAAGCCCTTAAGTGCATGAGGTTTTCA
1 AAACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCA
* * *
7053035 AAACCTTCGGGTCATTTGTAAGCCCTTCAGTGCATGAAGTTTTCA
1 AAACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCA
7053080 A
1 A
7053081 CATTTCCATC
Statistics
Matches: 245, Mismatches: 26, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
45 238 0.97
46 7 0.03
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (45 bp):
AAACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCA
Found at i:7053223 original size:3 final size:3
Alignment explanation
Indices: 7053210--7053240 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
7053200 TTTCCTTTTG
7053210 TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
7053241 AATAAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:7054713 original size:2 final size:2
Alignment explanation
Indices: 7054708--7054803 Score: 106
Period size: 2 Copynumber: 49.0 Consensus size: 2
7054698 TATCTTAGTC
7054708 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * * *
7054750 AT TT GT TT AG AT A- AT A- AT AT TT AT TT AT TT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7054790 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
7054804 TTTTTATTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
1 2 0.03
2 78 0.98
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (2 bp):
AT
Found at i:7055021 original size:121 final size:121
Alignment explanation
Indices: 7054869--7055087 Score: 377
Period size: 121 Copynumber: 1.8 Consensus size: 121
7054859 TTAATATTTA
7054869 TTTATTTTTCAATATTAAGAAAGGAAAGTCTTAAAGCAACTAGATGTCCATTTTCTGATATTTTT
1 TTTATTTTTCAATATTAAGAAAGGAAAGTCTTAAAGCAACTAGATGTCCATTTTCTGATATTTTT
* *
7054934 AAATACATAAATATCTTATTTTTATATATATATTTTTAATTATTTTAGATAAATGT
66 AAATAAATAAATATCTTATTTATATATATATATTTTTAATTATTTTAGATAAATGT
** *
7054990 TTTATTTTTCAATATTAAGAAATGG-CCGTCTTAAAGCAACTAGATGTCCATTTTTTGATATTTT
1 TTTATTTTTCAATATTAAGAAA-GGAAAGTCTTAAAGCAACTAGATGTCCATTTTCTGATATTTT
7055054 TAAATAAATAAATATCTTATTTATATATATATAT
65 TAAATAAATAAATATCTTATTTATATATATATAT
7055088 ATATTAAAAT
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
121 90 0.98
122 2 0.02
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (121 bp):
TTTATTTTTCAATATTAAGAAAGGAAAGTCTTAAAGCAACTAGATGTCCATTTTCTGATATTTTT
AAATAAATAAATATCTTATTTATATATATATATTTTTAATTATTTTAGATAAATGT
Found at i:7062311 original size:29 final size:29
Alignment explanation
Indices: 7062270--7062337 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
7062260 AAGTCTTAGA
* * *
7062270 AAAATTGGGGATC-ATTTCGTAAGTT-TTG
1 AAAATTGGAGATCAATTT-GTAAATTCTAG
7062298 AAAAGTTGGAGATCAATTTGTAAATTCTAG
1 AAAA-TTGGAGATCAATTTGTAAATTCTAG
7062328 AAAATTGGAG
1 AAAATTGGAG
7062338 GGATTGTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 4 0.12
29 20 0.59
30 10 0.29
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.34
Consensus pattern (29 bp):
AAAATTGGAGATCAATTTGTAAATTCTAG
Found at i:7063124 original size:59 final size:59
Alignment explanation
Indices: 7063025--7063161 Score: 195
Period size: 59 Copynumber: 2.3 Consensus size: 59
7063015 CAGCAGGCTG
** *
7063025 CATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGGCACGACCTTATGTGT
* ** *
7063084 CATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGGCACGACCTTATGTGT
7063143 CATATTCGGG-ATAGCACTA
1 CATATTCGGGAATA-CACTA
7063162 CGGTGCTTAT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
58 1 0.02
59 65 0.98
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGGCACGACCTTATGTGT
Found at i:7067877 original size:20 final size:19
Alignment explanation
Indices: 7067848--7067886 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
7067838 ATGTGAGTCC
*
7067848 ATTATTTAAATTTTATTTA
1 ATTATTTAAATTTAATTTA
7067867 ATTACTTTAAATTTAATTTA
1 ATTA-TTTAAATTTAATTTA
7067887 TAATTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTATTTAAATTTAATTTA
Found at i:7069003 original size:27 final size:27
Alignment explanation
Indices: 7068964--7069050 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
7068954 GTAATGGATT
*
7068964 TTTAATAATTATATGTTAATTTAATTG
1 TTTAATAACTATATGTTAATTTAATTG
* * * *
7068991 TTTATTAACTATAGGTTAACTTAATTA
1 TTTAATAACTATATGTTAATTTAATTG
* * *
7069018 TTAAATAACTATTTGTTCATTT--TTG
1 TTTAATAACTATATGTTAATTTAATTG
7069043 TTTAATAA
1 TTTAATAA
7069051 TTTTTTTATT
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
25 9 0.19
27 38 0.81
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.53
Consensus pattern (27 bp):
TTTAATAACTATATGTTAATTTAATTG
Found at i:7083737 original size:60 final size:60
Alignment explanation
Indices: 7083671--7083802 Score: 165
Period size: 60 Copynumber: 2.2 Consensus size: 60
7083661 TATAGTACTT
** ** * *
7083671 CAATTTCATCCCTAATGTATGACTTTCATTCTAAATTAGTCATTAAACTCTTGAACATTC
1 CAATTTCATCCCTAAACTATGACCCTCATTCTAAATTAGACATCAAACTCTTGAACATTC
* * * * *
7083731 TAATTTCATCCCTAAACTATGCCCCTCTTTCTAAATTAGACATCAAACTTTTGAATATTC
1 CAATTTCATCCCTAAACTATGACCCTCATTCTAAATTAGACATCAAACTCTTGAACATTC
7083791 CAATTTCATCCC
1 CAATTTCATCCC
7083803 CAAATTCATC
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.39
Consensus pattern (60 bp):
CAATTTCATCCCTAAACTATGACCCTCATTCTAAATTAGACATCAAACTCTTGAACATTC
Found at i:7084024 original size:60 final size:60
Alignment explanation
Indices: 7083930--7084068 Score: 183
Period size: 60 Copynumber: 2.3 Consensus size: 60
7083920 GTATATATGT
* * *
7083930 ATAGTTTGGGATGAAATTGGAATGCTTAAAAAGTTTG-GGGACCAATTTAGAATGAAGGTC
1 ATAGTTTGGGATGAAATTGAAATGCTTAAAAAG-TTGAAGGACCAATTTAGAATGAAAGTC
* * *
7083990 ATAGTTTGGGGATGAAATTGAAATG-TTTAGAAGTTGAAGGACTAATTTAGAATGAAAGTC
1 ATAGTTT-GGGATGAAATTGAAATGCTTAAAAAGTTGAAGGACCAATTTAGAATGAAAGTC
7084050 ATAGTTTAGGGATGAAATT
1 ATAGTTT-GGGATGAAATT
7084069 AGAATAATTA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
59 3 0.04
60 51 0.73
61 16 0.23
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (60 bp):
ATAGTTTGGGATGAAATTGAAATGCTTAAAAAGTTGAAGGACCAATTTAGAATGAAAGTC
Found at i:7084084 original size:60 final size:57
Alignment explanation
Indices: 7083930--7084098 Score: 176
Period size: 60 Copynumber: 2.8 Consensus size: 57
7083920 GTATATATGT
* * *
7083930 ATAGTTTGGGATGAAATTGGAATGCTTAAAAAGTTTGGGGACCAATTTAGAATGAAGGTC
1 ATAGTTTGGGATGAAATT-GAATGATT-AAAAG-TTGAGGACCAATTTAGAATGAAAGTC
* * *
7083990 ATAGTTTGGGGATGAAATTGAAATGTTTAGAAGTTGAAGGACTAATTTAGAATGAAAGTC
1 ATAGTTT-GGGATGAAATTG-AATGATTAAAAGTTG-AGGACCAATTTAGAATGAAAGTC
* * *
7084050 ATAGTTTAGGGATGAAATTAGAATAATTAAAAGTTTAGAGATCAATTTA
1 ATAGTTT-GGGATGAAATT-GAATGATTAAAAGTTGAG-GACCAATTTA
7084099 AAATTAGGGT
Statistics
Matches: 92, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
59 5 0.05
60 69 0.75
61 18 0.20
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.32
Consensus pattern (57 bp):
ATAGTTTGGGATGAAATTGAATGATTAAAAGTTGAGGACCAATTTAGAATGAAAGTC
Found at i:7084111 original size:60 final size:57
Alignment explanation
Indices: 7083930--7084117 Score: 171
Period size: 60 Copynumber: 3.1 Consensus size: 57
7083920 GTATATATGT
* * *
7083930 ATAGTTTGGGATGAAATTGGAATGCTTAAAAAGTTTGGGGACCAATTTAGAATGAAGGTC
1 ATAGTTTGGGATGAAATT-GAATGATT-AAAAGTTTAGAGA-CAATTTAGAATGAAGGTC
* * * *
7083990 ATAGTTTGGGGATGAAATTGAAATGTTTAGAAGTTGA-AGGACTAATTTAGAATGAAAGTC
1 ATAGTTT-GGGATGAAATTG-AATGATTAAAAGTTTAGA-GAC-AATTTAGAATGAAGGTC
* * * *
7084050 ATAGTTTAGGGATGAAATTAGAATAATTAAAAGTTTAGAGATCAATTTAAAATTAGGGTC
1 ATAGTTT-GGGATGAAATT-GAATGATTAAAAGTTTAGAGA-CAATTTAGAATGAAGGTC
*
7084110 ATACTTTG
1 ATAGTTTG
7084118 AGGACATACG
Statistics
Matches: 105, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
59 2 0.02
60 83 0.79
61 20 0.19
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.32
Consensus pattern (57 bp):
ATAGTTTGGGATGAAATTGAATGATTAAAAGTTTAGAGACAATTTAGAATGAAGGTC
Found at i:7084324 original size:17 final size:18
Alignment explanation
Indices: 7084302--7084343 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
7084292 TTCTCATAAA
*
7084302 ATAAATAAAT-TTATTTT
1 ATAAATAAATAATATTTT
7084319 ATAAATAAATAATATTTT
1 ATAAATAAATAATATTTT
7084337 ATGAAAT
1 AT-AAAT
7084344 TTATTTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.45
18 8 0.36
19 4 0.18
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
ATAAATAAATAATATTTT
Found at i:7086799 original size:21 final size:23
Alignment explanation
Indices: 7086778--7086820 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
7086768 TAAATTTAAT
7086778 TTAC-AAATAAT-TTAAA-ATAA
1 TTACTAAATAATATTAAACATAA
7086798 TTACTAAATAATATTAAACATAA
1 TTACTAAATAATATTAAACATAA
7086821 ATATTACTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 7 0.35
22 5 0.25
23 4 0.20
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (23 bp):
TTACTAAATAATATTAAACATAA
Found at i:7088794 original size:186 final size:189
Alignment explanation
Indices: 7088504--7088900 Score: 450
Period size: 186 Copynumber: 2.1 Consensus size: 189
7088494 AATTTGCATG
* * *
7088504 ACTTCATTACTCTTTCATGAAGGCTTCATACTTTGCGGAAAAATCCGTTCCACTACTCTTCCGTG
1 ACTTCACTACTCTTCCGTGAAGGCTTCATACTTTGCGGAAAAATCCGTTCCACTACTCTTCCGTG
**
7088569 GAGAACGAATTTAGATCTTGCTTCTACTCTTCATTCACTACT-TTTTTGTGAAGACTG-AGGA-T
66 GAGAACGAATTTAGATCTTGCTTCTACTCTTCATTCACTACTCTTCCT-TGAAGACTGAAGGATT
* * * *
7088631 GACTTGATAACAATCTAATTTCACTACTCTTCCATGAAGATCAGACTCATAGTTGGA-TT
130 AACTTGACAACAATCTAAATTCACTACTCTTCCATGAAGATCAGACTCAAAGTTGGATTT
* * *
7088690 ACTTCACTACTCTTCCGTGAAGG-TTGCATACTTTGCTGAAAAATCCTTTCCACTACTCTTCTGT
1 ACTTCACTACTCTTCCGTGAAGGCTT-CATACTTTGCGGAAAAATCCGTTCCACTACTCTTCCGT
* * * **
7088754 GGAGAGCGAATTTTA-ATCTTG-TTCTTTCTTTTTC-TTCACTACTCTTCCTTGAAGTTTGAAAA
65 GGAGAACGAA-TTTAGATCTTGCTTC-TAC-TCTTCATTCACTACTCTTCCTTGAAGACTG--AA
* * * * * *
7088816 TGATTAACTTGACAAGAATCTAAATTCACTACTCTTCCGTGAATATCCGATTCAAAGTTGGATTT
125 GGATTAACTTGACAACAATCTAAATTCACTACTCTTCCATGAAGATCAGACTCAAAGTTGGATTT
*
7088881 GCTTCCACTACTCTTCCGTG
1 ACTT-CACTACTCTTCCGTG
7088901 GAGTTTGATT
Statistics
Matches: 176, Mismatches: 24, Indels: 16
0.81 0.11 0.07
Matches are distributed among these distances:
185 5 0.03
186 88 0.50
187 11 0.06
189 3 0.02
190 49 0.28
191 5 0.03
192 15 0.09
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (189 bp):
ACTTCACTACTCTTCCGTGAAGGCTTCATACTTTGCGGAAAAATCCGTTCCACTACTCTTCCGTG
GAGAACGAATTTAGATCTTGCTTCTACTCTTCATTCACTACTCTTCCTTGAAGACTGAAGGATTA
ACTTGACAACAATCTAAATTCACTACTCTTCCATGAAGATCAGACTCAAAGTTGGATTT
Found at i:7088974 original size:20 final size:19
Alignment explanation
Indices: 7088952--7089050 Score: 72
Period size: 20 Copynumber: 4.9 Consensus size: 19
7088942 CTGACAGATG
* *
7088952 ACCCGAAGGATTTACTAATG
1 ACCCGAAGG-TTTACAAATA
*
7088972 ACCCAAAGGCTTTACAAATA
1 ACCCGAAGG-TTTACAAATA
*
7088992 ACCTGAAGGTCTTACAAATA
1 ACCCGAAGGT-TTACAAATA
** *
7089012 ACCCGAATTTCTTACAAATG
1 ACCCGAAGGT-TTACAAATA
* *
7089032 ACCTGAAAGTCTTACAAAT
1 ACCCGAAGGT-TTACAAAT
7089051 GAGCGGGAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
19 1 0.02
20 64 0.98
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.25
Consensus pattern (19 bp):
ACCCGAAGGTTTACAAATA
Found at i:7089052 original size:20 final size:20
Alignment explanation
Indices: 7088983--7089050 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
7088973 CCCAAAGGCT
*
7088983 TTACAAATAACCTGAAGGTC
1 TTACAAATAACCTGAAAGTC
* **
7089003 TTACAAATAACCCGAATTTC
1 TTACAAATAACCTGAAAGTC
*
7089023 TTACAAATGACCTGAAAGTC
1 TTACAAATAACCTGAAAGTC
7089043 TTACAAAT
1 TTACAAAT
7089051 GAGCGGGAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (20 bp):
TTACAAATAACCTGAAAGTC
Found at i:7097271 original size:24 final size:25
Alignment explanation
Indices: 7097235--7097299 Score: 60
Period size: 26 Copynumber: 2.6 Consensus size: 25
7097225 TCAGGCTTAG
* * * *
7097235 TTGTAAACAAGCCTT-TGATTTGCT
1 TTGTAATCGAGCCTTGTGACTTACT
*
7097259 TTGTAATCGAGCCTGTGTGCCTTACT
1 TTGTAATCGAGCCT-TGTGACTTACT
*
7097285 TTGTAATCGGGCCTT
1 TTGTAATCGAGCCTT
7097300 CGGGCTTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
24 12 0.36
25 2 0.06
26 19 0.58
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (25 bp):
TTGTAATCGAGCCTTGTGACTTACT
Found at i:7103225 original size:39 final size:39
Alignment explanation
Indices: 7103181--7103256 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
7103171 CCCTCTATCC
* * *
7103181 AGCAGCCCCTCCATGCATCATTTCCAGCAGCTTCCAGTG
1 AGCAGCCCATCCACGCATCAGTTCCAGCAGCTTCCAGTG
*
7103220 AGCAGCCCATCCACGCATCAGTTGCAGCAGCTTCCAG
1 AGCAGCCCATCCACGCATCAGTTCCAGCAGCTTCCAG
7103257 CACTGCCAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.22, C:0.38, G:0.20, T:0.20
Consensus pattern (39 bp):
AGCAGCCCATCCACGCATCAGTTCCAGCAGCTTCCAGTG
Found at i:7105455 original size:26 final size:27
Alignment explanation
Indices: 7105403--7105460 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
7105393 TAATTATTTC
*
7105403 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATATTTATATATAC-TATTA
* *
7105431 TTTTCATAATATTTATATGTA-TATTA
1 TTTTCAAAATATTTATATATACTATTA
7105457 TTTT
1 TTTT
7105461 ATTAATGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 9 0.33
28 18 0.67
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATACTATTA
Found at i:7107057 original size:12 final size:13
Alignment explanation
Indices: 7107040--7107068 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
7107030 ACTTTCACAT
7107040 ATTTACA-TTTGC
1 ATTTACATTTTGC
7107052 ATTTACATTTTGC
1 ATTTACATTTTGC
7107065 ATTT
1 ATTT
7107069 TTTTCATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.24, C:0.14, G:0.07, T:0.55
Consensus pattern (13 bp):
ATTTACATTTTGC
Found at i:7107913 original size:13 final size:13
Alignment explanation
Indices: 7107895--7107928 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
7107885 GTTCAAGAGT
7107895 CAAACATTCAAAG
1 CAAACATTCAAAG
7107908 CAAACATTCAAAG
1 CAAACATTCAAAG
7107921 CAAACATT
1 CAAACATT
7107929 TCGATCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.53, C:0.24, G:0.06, T:0.18
Consensus pattern (13 bp):
CAAACATTCAAAG
Found at i:7111174 original size:151 final size:152
Alignment explanation
Indices: 7110900--7111203 Score: 601
Period size: 151 Copynumber: 2.0 Consensus size: 152
7110890 TGCATGGAAG
7110900 AAGCGGAATAAGAGGAAATCTATTGGCATATTATGAATATAGCCCCTTTTTTATGCAGCAACACG
1 AAGCGGAATAAGAGGAAATCTATTGGCATATTATGAATATAGCCCCTTTTTTATGCAGCAACACG
7110965 AAAATACTTTGAATCTACAAATTTTAGCTATACATCATATAAGTACCGTGACATTTCGGTCC-AA
66 AAAATACTTTGAATCTACAAATTTTAGCTATACATCATATAAGTACCGTGACATTTCGGTCCAAA
7111029 CACCAACTGGAGGAAGTGCCAC
131 CACCAACTGGAGGAAGTGCCAC
7111051 AAGCGGAATAAGAGGAAATCTATTGGCATATTATGAATATAGCCCCTTTTTTATGCAGCAACACG
1 AAGCGGAATAAGAGGAAATCTATTGGCATATTATGAATATAGCCCCTTTTTTATGCAGCAACACG
7111116 AAAATACTTTGAATCTACAAATTTTAGCTATACATCATATAAGTACCGTGACATTTCGGTCCAAA
66 AAAATACTTTGAATCTACAAATTTTAGCTATACATCATATAAGTACCGTGACATTTCGGTCCAAA
7111181 CACCAACTGGAGGAAGTGCCAC
131 CACCAACTGGAGGAAGTGCCAC
7111203 A
1 A
7111204 TTCTCGTAGT
Statistics
Matches: 152, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
151 127 0.84
152 25 0.16
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (152 bp):
AAGCGGAATAAGAGGAAATCTATTGGCATATTATGAATATAGCCCCTTTTTTATGCAGCAACACG
AAAATACTTTGAATCTACAAATTTTAGCTATACATCATATAAGTACCGTGACATTTCGGTCCAAA
CACCAACTGGAGGAAGTGCCAC
Found at i:7114591 original size:73 final size:73
Alignment explanation
Indices: 7114436--7114742 Score: 402
Period size: 73 Copynumber: 4.2 Consensus size: 73
7114426 TAAGCCTTGT
* * *
7114436 AGTGCAGGATGTTTTCAAAAAGT-CTTCGGGAGCTTTTTGATGTTTTCAAAACCCTCAGGGTCAT
1 AGTGCATGATGTTTTCAAAAA-TCCTTCGGGAGCTTTTTGA--TCTT--AAAGCCTCAGGGTCAT
7114500 CTG-ATAGACCTAC
61 CTGTA-AGACCTAC
* * **
7114513 AGTGCATGATGTTATCAAAAATCCTTCTGGAGCTTTTTTTTCTTAAAGCCTCAGGGTCATCTGTA
1 AGTGCATGATGTTTTCAAAAATCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGGGTCATCTGTA
7114578 AGACCTAC
66 AGACCTAC
* * *
7114586 AGTGCATGATGTTCTCAAAAAACCTTCGGGAGCATTTTGATCTTAAAGCCTCAGGGTCATCTGTA
1 AGTGCATGATGTTTTCAAAAATCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGGGTCATCTGTA
7114651 AGACCTAC
66 AGACCTAC
* * * *
7114659 AGTGCATGATGTTTTTAAAAAGCCTTCGGGAGATTTTTGATCTTAAAGCCTCAAGGTCATCTGTA
1 AGTGCATGATGTTTTCAAAAATCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGGGTCATCTGTA
*
7114724 AGCCCTAC
66 AGACCTAC
*
7114732 AGTGCAAGATG
1 AGTGCATGATG
7114743 ATAAGACATC
Statistics
Matches: 207, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
73 169 0.82
74 1 0.00
75 3 0.01
76 1 0.00
77 33 0.16
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (73 bp):
AGTGCATGATGTTTTCAAAAATCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAGGGTCATCTGTA
AGACCTAC
Found at i:7115204 original size:124 final size:123
Alignment explanation
Indices: 7114907--7115231 Score: 424
Period size: 123 Copynumber: 2.6 Consensus size: 123
7114897 ATCAGCGTTG
* *
7114907 CCAGAGAAAGTTCATAATGAGAAGAATTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAG
1 CCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAA
* * *
7114972 CTTGTTCAACCTTTTGCATGACTCTATCATAGAAGGAGATATATCAACACCAACTTTT
66 CTTGTTCAACCTTTTGCATAACTCTATCATAGAAGGAGATAGAGCAACACCAACTTTT
* * *
7115030 CTAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGAAAGAGGAAGTTCATAATGAGAAGAA
1 CCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAA
* * * * *
7115095 CTTGTTCAACCTTTTGCTTAACTCCATTTCCATA-AA-GAGATAGAGCAGCA-GAGCTATTT
66 CTTGTTCAACCTTTTGCATAACT-C-TAT-CATAGAAGGAGATAGAGCAACACCAACT-TTT
* * * *
7115154 CCAG-GTGAAGTTCATAATGAGAAGAACTCATCTGAATAGGAAGAAAAAGTTCATAATGAGAAGA
1 CCAGAG-AAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGA
7115218 ACTTGTTCAACCTT
65 ACTTGTTCAACCTT
7115232 GCATTGATTC
Statistics
Matches: 177, Mismatches: 20, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
123 85 0.48
124 84 0.47
125 4 0.02
126 4 0.02
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.26
Consensus pattern (123 bp):
CCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAA
CTTGTTCAACCTTTTGCATAACTCTATCATAGAAGGAGATAGAGCAACACCAACTTTT
Found at i:7115399 original size:139 final size:139
Alignment explanation
Indices: 7115160--7115478 Score: 419
Period size: 139 Copynumber: 2.3 Consensus size: 139
7115150 ATTTCCAGGT
* * *
7115160 GAAGTTCATAATGAGAAGAACTCATCTGAATAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTT
1 GAAGTTCATAATGAGAAGAACTCATCTGAAAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTT
* * * * * * *
7115225 CAACCTTGCATTGATTCATCTCCTATGGAATTGAATGAA-AGAAGAACCTCATTTGAGGATCAAT
66 CAACCTTACATTAATTCATCACATATGGAATTGAATCAACA-AA-AACCTCATTTGAAGATCAAC
*
7115289 ATTTTCAG-AG
129 ATTTCCAGAAG
* *
7115299 GAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTT
1 GAAGTTCATAATGAGAAGAACTCATCTGAAAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTT
* * ** *
7115364 CAACCTTACCTTAATTCATCACATATGGAGTTGAATCAACAAATCCCTCTTTTGAAGATCAACAT
66 CAACCTTACATTAATTCATCACATATGGAATTGAATCAACAAAAACCTCATTTGAAGATCAACAT
7115429 TTCCAGAAG
131 TTCCAGAAG
* *
7115438 G-AGTTCATAATGAGAACAACTCATCTGAAAAAGAAGAAGAA
1 GAAGTTCATAATGAGAAGAACTCATCTGAAAAGGAAGAAGAA
7115479 TTTGTTCAAC
Statistics
Matches: 158, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
138 59 0.37
139 98 0.62
140 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (139 bp):
GAAGTTCATAATGAGAAGAACTCATCTGAAAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTT
CAACCTTACATTAATTCATCACATATGGAATTGAATCAACAAAAACCTCATTTGAAGATCAACAT
TTCCAGAAG
Found at i:7115780 original size:39 final size:39
Alignment explanation
Indices: 7115736--7115812 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
7115726 CCCCTCCATC
* *
7115736 AGCAGCCCCTCCACACATCATTTCCAGCAGCTTCCAGCG
1 AGCAGCCCCTCCACACATCAGTTCCAACAGCTTCCAGCG
* * *
7115775 AGCAGCCCCTTCACGCATCAGTTGCAACAGCTTCCAGC
1 AGCAGCCCCTCCACACATCAGTTCCAACAGCTTCCAGC
7115813 ACTGCCAAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.23, C:0.42, G:0.17, T:0.18
Consensus pattern (39 bp):
AGCAGCCCCTCCACACATCAGTTCCAACAGCTTCCAGCG
Found at i:7117895 original size:15 final size:15
Alignment explanation
Indices: 7117842--7117893 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 15
7117832 TTAAGAAATA
* *
7117842 AAAATAATAATAATAA
1 AAAATAA-AATAACAT
7117858 AAAAGTAAAAATAACAT
1 AAAA-T-AAAATAACAT
7117875 AAAATAAAATAAACAT
1 AAAATAAAAT-AACAT
7117891 AAA
1 AAA
7117894 TACAAGGACC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 5 0.16
16 13 0.42
17 11 0.35
18 2 0.06
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (15 bp):
AAAATAAAATAACAT
Found at i:7118608 original size:45 final size:45
Alignment explanation
Indices: 7118517--7118722 Score: 274
Period size: 45 Copynumber: 4.6 Consensus size: 45
7118507 ACACCCATTC
* * * *
7118517 ATGTTTATAATGCA-ACATTATGCCTGTTCAACTATAACATACTTTT
1 ATGTTGATAATGCACCCA-TATGCAT-TTCAACTATAGCATACTTTT
*
7118563 ATGTTGATAATGCACCCATATGCATTTCAACTATAGCATAATTTT
1 ATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTT
* *
7118608 ATGTTAATAATGCACCCATATGCATTTCAACTATATCATACTTTT
1 ATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTT
* *
7118653 ATGTTGATAATGCACCCATATGCATTTCAACTAT-GACATCCTTTC
1 ATGTTGATAATGCACCCATATGCATTTCAACTATAG-CATACTTTT
*
7118698 ATGCTGATAATGCACCCA-ATGCATT
1 ATGTTGATAATGCACCCATATGCATT
7118723 ATTATTTTGT
Statistics
Matches: 145, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
44 7 0.05
45 117 0.81
46 19 0.13
47 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.37
Consensus pattern (45 bp):
ATGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTT
Found at i:7119185 original size:22 final size:21
Alignment explanation
Indices: 7119143--7119213 Score: 69
Period size: 22 Copynumber: 3.5 Consensus size: 21
7119133 TGGCCCATAA
7119143 GTATCGATAC-CCATAAC-ATG
1 GTATCGATACTCCAT-ACTATG
7119163 GTATCGATACTACCATACTATG
1 GTATCGATACT-CCATACTATG
* * *
7119185 GTGTTGATACT--ATGCTATG
1 GTATCGATACTCCATACTATG
7119204 GTATCGATAC
1 GTATCGATAC
7119214 CATTTTTTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
19 15 0.35
20 10 0.23
21 2 0.05
22 16 0.37
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (21 bp):
GTATCGATACTCCATACTATG
Found at i:7119212 original size:19 final size:20
Alignment explanation
Indices: 7119143--7119213 Score: 65
Period size: 19 Copynumber: 3.5 Consensus size: 20
7119133 TGGCCCATAA
*
7119143 GTATCGATACCCATAAC-ATG
1 GTATCGATACTCAT-ACTATG
7119163 GTATCGATACTACCATACTATG
1 GTATCGATACT--CATACTATG
* * *
7119185 GTGTTGATACT-ATGCTATG
1 GTATCGATACTCATACTATG
7119204 GTATCGATAC
1 GTATCGATAC
7119214 CATTTTTTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 15 0.36
20 10 0.24
21 2 0.05
22 15 0.36
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACTCATACTATG
Found at i:7119263 original size:20 final size:21
Alignment explanation
Indices: 7119238--7119288 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
7119228 GTTTTTAATG
*
7119238 GTATCGATACCT-TCCCTTCA
1 GTATCGATACCTCCCCCTTCA
*
7119258 GTATCGATA-CTCCCCCTTCG
1 GTATCGATACCTCCCCCTTCA
7119278 GTATCGATACC
1 GTATCGATACC
7119289 GATTGAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 24 0.89
21 1 0.04
ACGTcount: A:0.20, C:0.35, G:0.14, T:0.31
Consensus pattern (21 bp):
GTATCGATACCTCCCCCTTCA
Found at i:7125278 original size:45 final size:45
Alignment explanation
Indices: 7125185--7125526 Score: 468
Period size: 45 Copynumber: 7.6 Consensus size: 45
7125175 ACACGCATTC
* **
7125185 ATGTTTATAATGCACCGTTATGCATTTTCAACTATAACATACTTTT
1 ATGTTGATAATGCACCCATATGCA-TTTCAACTATAACATACTTTT
*
7125231 ATGTTGATAATGCACCCATATGCATTTAAACTATAACATACTTTT
1 ATGTTGATAATGCACCCATATGCATTTCAACTATAACATACTTTT
* ** *
7125276 ATGTTGATAATGCACTCATATGCATTTCAACTATAGTATTCTTTT
1 ATGTTGATAATGCACCCATATGCATTTCAACTATAACATACTTTT
* *
7125321 ATGTTGATAATGCAACCATATGCATTTCAACTATATCATACTTTT
1 ATGTTGATAATGCACCCATATGCATTTCAACTATAACATACTTTT
* *
7125366 ATGTTGATAATGCACTCATATGCATTTCAACTATAGCATACTTTT
1 ATGTTGATAATGCACCCATATGCATTTCAACTATAACATACTTTT
* *
7125411 GTGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTT
1 ATGTTGATAATGCACCCATATGCATTTCAACTATAACATACTTTT
* ** * * * *
7125456 ATGTTGATAGTGCACCCATACACATTTCAACTATGACTTCCTTTC
1 ATGTTGATAATGCACCCATATGCATTTCAACTATAACATACTTTT
* *
7125501 ATGCTGATAATGCACTCATATGCATT
1 ATGTTGATAATGCACCCATATGCATT
7125527 ATTATTTTGT
Statistics
Matches: 263, Mismatches: 33, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
45 242 0.92
46 21 0.08
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (45 bp):
ATGTTGATAATGCACCCATATGCATTTCAACTATAACATACTTTT
Found at i:7125989 original size:22 final size:22
Alignment explanation
Indices: 7125955--7125998 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7125945 ATATCGATTC
*
7125955 CCATACCAGGGTATCGATACTA
1 CCATACCAGGGTACCGATACTA
* *
7125977 CCATACTATGGTACCGATACTA
1 CCATACCAGGGTACCGATACTA
7125999 TGCTATGGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (22 bp):
CCATACCAGGGTACCGATACTA
Found at i:7126065 original size:20 final size:21
Alignment explanation
Indices: 7126040--7126090 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
7126030 TGTTTTAATG
*
7126040 GTATCGATACCT-TCCCATCA
1 GTATCGATACCTCCCCCATCA
*
7126060 GTATCGATA-CTCCCCCTTCA
1 GTATCGATACCTCCCCCATCA
7126080 GTATCGATACC
1 GTATCGATACC
7126091 GATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 24 0.89
21 1 0.04
ACGTcount: A:0.24, C:0.35, G:0.12, T:0.29
Consensus pattern (21 bp):
GTATCGATACCTCCCCCATCA
Found at i:7128358 original size:39 final size:39
Alignment explanation
Indices: 7128288--7128847 Score: 671
Period size: 39 Copynumber: 14.4 Consensus size: 39
7128278 ATGTTGATCC
* *
7128288 CTCAAGTGAGAT-AAATCTTCTGTTTCAAGTGAAACTAT
1 CTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTAT
*
7128326 CTCAAGCGAGATAAAATCTTCTGTTTAGAGTGAAACTAT
1 CTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTAT
* * *
7128365 CTCAAGCGAGATAGAATCTTCTATTTCAAGTG-AACTAT
1 CTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTAT
* * *
7128403 CTAAAGCGAGATAAAATCTCCTATTTCGAGTGAAACTAT
1 CTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTAT
* * * *
7128442 CTCAGGCGTGATAAAATCTCCTGTTTTGAGTGAAACTAT
1 CTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTAT
* *
7128481 CTCAAGCGAGATAAAATCTCCTGTTTCGAGTTAAACTAT
1 CTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTAT
* * * * *
7128520 ATCTAGAGAGATAAAATCTGT-TATTTCGAGTGAAACTAA
1 CTCAAGCGAGATAAAATCT-TCTGTTTCGAGTGAAACTAT
* *
7128559 CTCAAGCAAAATAAAATCTTCTGTTTCGAGTGAAACTAT
1 CTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTAT
*
7128598 CTCAAGCGAGATAAAATC-TCTTATTTCGAGTGAAACTAT
1 CTCAAGCGAGATAAAATCTTC-TGTTTCGAGTGAAACTAT
* * * * *
7128637 CACAAACGAGATAAAATCTCCTGTTTCGGGTAAAACTAT
1 CTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTAT
* * * * *
7128676 ATCAAGAGAGATAAAATCTCCTGTTTTGAGTGAAACTAC
1 CTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTAT
*
7128715 CTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAGCTAT
1 CTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTAT
* *
7128754 CCCAAGTGAGATAAAATCTTCTGTTTCGAGTGAAACTAT
1 CTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTAT
* * * *
7128793 CTCAAGCGATATAAATTTTTCTATTTCGAGT-AAATCTAT
1 CTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAA-CTAT
* * *
7128832 ATGAAGCGAGAAAAAA
1 CTCAAGCGAGATAAAA
7128848 ATTGTTTTAA
Statistics
Matches: 444, Mismatches: 71, Indels: 13
0.84 0.13 0.02
Matches are distributed among these distances:
38 51 0.11
39 392 0.88
40 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (39 bp):
CTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACTAT
Found at i:7133659 original size:19 final size:20
Alignment explanation
Indices: 7133614--7133662 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
7133604 CTAATTTAAG
* *
7133614 AAATAAAATAAGAAATAATT
1 AAATAAAATAAAAAATAATA
7133634 AAA-AAAATAAAAAATAA-A
1 AAATAAAATAAAAAATAATA
7133652 AAATAAAATAA
1 AAATAAAATAA
7133663 TCATAAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 3 0.12
19 20 0.77
20 3 0.12
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (20 bp):
AAATAAAATAAAAAATAATA
Found at i:7133967 original size:17 final size:16
Alignment explanation
Indices: 7133929--7133966 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
7133919 AAATATTTTC
7133929 TTTTTTCTTTTTATAA
1 TTTTTTCTTTTTATAA
*
7133945 TTTTTTCTTTTTTTAA
1 TTTTTTCTTTTTATAA
7133961 TTTTTT
1 TTTTTT
7133967 TAAAAAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTCTTTTTATAA
Found at i:7134048 original size:22 final size:22
Alignment explanation
Indices: 7134018--7134065 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
7134008 AGCCTGTCTT
* *
7134018 CGGTGGTCGTGATGTCCGTCGA
1 CGGTGGTCGTCACGTCCGTCGA
* *
7134040 CGGTTGTCGTCCCGTCCGTCGA
1 CGGTGGTCGTCACGTCCGTCGA
7134062 CGGT
1 CGGT
7134066 CGCCCTCATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.06, C:0.29, G:0.38, T:0.27
Consensus pattern (22 bp):
CGGTGGTCGTCACGTCCGTCGA
Found at i:7141967 original size:22 final size:21
Alignment explanation
Indices: 7141939--7141998 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
7141929 GTTACGTATA
7141939 TCCTTCGGGACATATGGAT-AGG
1 TCCTTCGGGACATA--GATGAGG
* *
7141961 TCCTTCGAGACATAGATGATG
1 TCCTTCGGGACATAGATGAGG
*
7141982 TCATTCGGGACATAGAT
1 TCCTTCGGGACATAGAT
7141999 TCCACATGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 3 0.09
21 17 0.52
22 13 0.39
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (21 bp):
TCCTTCGGGACATAGATGAGG
Found at i:7144194 original size:25 final size:22
Alignment explanation
Indices: 7144165--7144210 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
7144155 TTTTTAACCC
7144165 AATCTTAATTCCTAATAAAATAATA
1 AATC-TAA-TCCTAA-AAAATAATA
*
7144190 AATCTAATCCTAAAAGATAAT
1 AATCTAATCCTAAAAAATAAT
7144211 GCATCATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 3 0.15
25 4 0.20
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (22 bp):
AATCTAATCCTAAAAAATAATA
Found at i:7146094 original size:6 final size:6
Alignment explanation
Indices: 7146076--7146136 Score: 61
Period size: 6 Copynumber: 10.2 Consensus size: 6
7146066 ATTGTGTTTC
* * * *
7146076 AGAAAA AGTAAAA AGAAAA AGTAAA AGTAAA TGCAAA AGAAAA AGAAAA
1 AGAAAA AG-AAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
*
7146125 AG-TAA AGAAAA A
1 AGAAAA AGAAAA A
7146137 AAGTTGTAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
5 4 0.09
6 36 0.78
7 6 0.13
ACGTcount: A:0.74, C:0.02, G:0.16, T:0.08
Consensus pattern (6 bp):
AGAAAA
Found at i:7146137 original size:24 final size:23
Alignment explanation
Indices: 7146080--7146136 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 23
7146070 TGTTTCAGAA
*
7146080 AAAGTAAAAAGAAAAAGTAAAAGT
1 AAAG-AAAAAGAAAAAGAAAAAGT
*
7146104 AAATGCAAAAGAAAAAGAAAAAGT
1 AAA-GAAAAAGAAAAAGAAAAAGT
7146128 AAAGAAAAA
1 AAAGAAAAA
7146137 AAGTTGTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.17
24 23 0.79
25 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.16, T:0.09
Consensus pattern (23 bp):
AAAGAAAAAGAAAAAGAAAAAGT
Found at i:7151508 original size:88 final size:89
Alignment explanation
Indices: 7151378--7151548 Score: 267
Period size: 88 Copynumber: 1.9 Consensus size: 89
7151368 TCCCGAATAT
*
7151378 TTAATTTCAATTAATTAAATATATATTTAATTAATTTAAAATAATA-AAATCCCTAATATGATTA
1 TTAAATTCAATTAATTAAATATATATTTAATTAATTTAAAATAATAGAAA-CCCTAATATGATTA
7151442 GGGTAACTTGGA-TATAAAAAGATTA
65 GGGTAACTT-GACTATAAAAAGATTA
* * *
7151467 TTAAATTCTATTAATTAAATATA-GTTTAATTAATTTGAAATAATAGAAACCCTAATATGATTAG
1 TTAAATTCAATTAATTAAATATATATTTAATTAATTTAAAATAATAGAAACCCTAATATGATTAG
7151531 GGTAACTTGACTATAAAA
66 GGTAACTTGACTATAAAA
7151549 GGGTGTGTTA
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
87 2 0.03
88 50 0.66
89 24 0.32
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATATATTTAATTAATTTAAAATAATAGAAACCCTAATATGATTAG
GGTAACTTGACTATAAAAAGATTA
Found at i:7158339 original size:90 final size:90
Alignment explanation
Indices: 7158214--7158391 Score: 304
Period size: 90 Copynumber: 2.0 Consensus size: 90
7158204 TAACCTCGAA
* * *
7158214 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATA-AAATCCCTAATATGA
1 TATTAAATTCCAACTAATTAAATATAGATTTAATTAATTTGAAATAATAGAAA-CCCTAATATGA
7158278 TTAGGGTAACTTGGATATAAAAGGAT
65 TTAGGGTAACTTGGATATAAAAGGAT
7158304 TATTAAATTCCAACTAATTAAATATAGATTTAATTAATTTGAAATAATAGAAACCCTAATATGAT
1 TATTAAATTCCAACTAATTAAATATAGATTTAATTAATTTGAAATAATAGAAACCCTAATATGAT
*
7158369 TAGGGTAACTTGGCTATAAAAGG
66 TAGGGTAACTTGGATATAAAAGG
7158392 GTGTGTTAGG
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
90 80 0.96
91 3 0.04
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (90 bp):
TATTAAATTCCAACTAATTAAATATAGATTTAATTAATTTGAAATAATAGAAACCCTAATATGAT
TAGGGTAACTTGGATATAAAAGGAT
Found at i:7159928 original size:2 final size:2
Alignment explanation
Indices: 7159876--7159909 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
7159866 AATCATATGA
*
7159876 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7159910 CTAATTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7160896 original size:18 final size:18
Alignment explanation
Indices: 7160870--7160904 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7160860 AGGTATTATC
*
7160870 AGTGGTCCTTCGGGACAT
1 AGTGATCCTTCGGGACAT
*
7160888 AGTGATCCTTTGGGACA
1 AGTGATCCTTCGGGACA
7160905 AATATTCAGT
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:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (18 bp):
AGTGATCCTTCGGGACAT
Found at i:7161220 original size:4 final size:4
Alignment explanation
Indices: 7161211--7163611 Score: 4683
Period size: 4 Copynumber: 604.5 Consensus size: 4
7161201 AGAATAAGAG
7161211 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7161259 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7161307 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7161355 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7161403 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7161451 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7161499 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7161547 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG-
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7161594 -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7161641 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7161689 ATGT ATGT ATGT ATGT -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7161736 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7161784 ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7161830 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7161878 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7161925 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7161972 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7162020 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7162068 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7162116 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7162162 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7162208 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7162256 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7162304 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7162352 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7162400 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7162448 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7162496 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7162544 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7162592 ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7162638 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7162686 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7162734 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7162781 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7162829 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7162877 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7162925 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7162971 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7163019 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7163067 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7163115 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7163163 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7163211 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7163259 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7163307 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7163355 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A-GT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7163402 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7163450 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7163498 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7163546 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
7163594 ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT AT
7163612 TTGTTACATG
Statistics
Matches: 2380, Mismatches: 0, Indels: 34
0.99 0.00 0.01
Matches are distributed among these distances:
2 12 0.01
3 15 0.01
4 2353 0.99
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:7165479 original size:30 final size:27
Alignment explanation
Indices: 7165413--7165480 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
7165403 ACGCTGGTAT
*
7165413 TTTTTTAATAATAAAGCTTTTATTTTA
1 TTTTTTAATAATAAAGATTTTATTTTA
7165440 TTTTTTAATAATAAAGATTTTATTTTA
1 TTTTTTAATAATAAAGATTTTATTTTA
*
7165467 TTGTTTAATAATAA
1 TTTTTTAATAATAA
7165481 GAATTATCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (27 bp):
TTTTTTAATAATAAAGATTTTATTTTA
Found at i:7169406 original size:117 final size:117
Alignment explanation
Indices: 7169195--7169862 Score: 880
Period size: 117 Copynumber: 5.6 Consensus size: 117
7169185 GTGCATTCTT
* *
7169195 GGGGG-GCGCCTTCCATTATTTTATCAGATAATATGTTATCATTGCCCTATTATGTCACTCATGT
1 GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
* * *
7169259 CCCTCGGGGGCACTATTCATGTCACTACCCAAAGTGGTGAAAGCGCGTTCCT
66 CCCTCAGGGGCACTATTCATGTCAGTACCCAAAGTGGTGAAAGCGCGTTCCC
* * *
7169311 GGGGGCGCGCCTTCCATTATTTTATCAGATAATATGTTATCATTTCCCTATTATGTCACTCATGT
1 GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
* *
7169376 CCCTCAGGGGCACTATTCATGTCAGTACCCAAAGTGGTGAAAGCGCATTCTC
66 CCCTCAGGGGCACTATTCATGTCAGTACCCAAAGTGGTGAAAGCGCGTTCCC
7169428 GGGGG-GCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
1 GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
* *
7169492 CCCTC-GTGGGCACTATTCATGTCAGTACCCAAAGTGATGAAAGCGCTTTCCC
66 CCCTCAG-GGGCACTATTCATGTCAGTACCCAAAGTGGTGAAAGCGCGTTCCC
* *
7169544 AGGGACGCGCCTTCCATTATTTTGTCAGAGAATATGTTA-CAATTGCCCTATTATGTCACTCATG
1 GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATC-ATTGCCCTATTATGTCACTCATG
** *
7169608 TCCCTTGGGGGCACTATTCATGTCAGTACCCAAAGTGGTGAAAGTGCGTTCCC
65 TCCCTCAGGGGCACTATTCATGTCAGTACCCAAAGTGGTGAAAGCGCGTTCCC
* * *
7169661 GGGGGCGCGCCTTCGATTGTTACCCAAAATGTCAGAGAATATGTTATCATTGCCCTATTATGTCA
1 GGGGGCGCGCCTTCCATTATT-------TTGTCAGAGAATATGTTATCATTGCCCTATTATGTCA
* * *
7169726 CTCATGTCCC-CTA-GGGAACTATTCATGTCAGTACCTATTATTTTTTAGGGGACTTGAAAGCGC
59 CTCATGTCCCTC-AGGGGCACTATTCATGTCAGTACCCA--A------AGTGG---TGAAAGCGC
7169789 GTTCCC
112 GTTCCC
* *
7169795 GAGGACGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
1 GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
7169860 CCC
66 CCC
7169863 CCGGGGAACT
Statistics
Matches: 493, Mismatches: 34, Indels: 39
0.87 0.06 0.07
Matches are distributed among these distances:
115 1 0.00
116 112 0.23
117 230 0.47
118 1 0.00
123 22 0.04
124 44 0.09
125 2 0.00
127 46 0.09
131 4 0.01
134 31 0.06
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.32
Consensus pattern (117 bp):
GGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGT
CCCTCAGGGGCACTATTCATGTCAGTACCCAAAGTGGTGAAAGCGCGTTCCC
Found at i:7169595 original size:233 final size:232
Alignment explanation
Indices: 7169187--7169862 Score: 908
Period size: 233 Copynumber: 2.8 Consensus size: 232
7169177 ACGTGAAGGT
* * *
7169187 GCATTCTTGGGGGGCGCCTTCCATTATTTTATCAGATAATATGTTATCATTGCCCTATTATGTCA
1 GCATTCTCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCA
* * * * *
7169252 CTCATGTCCCTCGGGGGCACTATTCATGTCACTACCCAAAGTGGTGAAAGCGCGTTCCTGGGGGC
66 CTCATGTCCCTCGTGGGCACTATTCATGTCAGTACCCAAAGTGATGAAAGCGCGTTCC-CGGGAC
* * *
7169317 GCGCCTTCCATTATTTTATCAGATAATATGTTATCATTTCCCTATTATGTCACTCATGTCCCTCA
130 GCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCA
7169382 GGGGCACTATTCATGTCAGTACCCAAAGTGGTGAAAGC
195 GGGGCACTATTCATGTCAGTACCCAAAGTGGTGAAAGC
7169420 GCATTCTCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCA
1 GCATTCTCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCA
*
7169485 CTCATGTCCCTCGTGGGCACTATTCATGTCAGTACCCAAAGTGATGAAAGCGCTTTCCCAGGGAC
66 CTCATGTCCCTCGTGGGCACTATTCATGTCAGTACCCAAAGTGATGAAAGCGCGTTCCC-GGGAC
*
7169550 GCGCCTTCCATTATTTTGTCAGAGAATATGTTA-CAATTGCCCTATTATGTCACTCATGTCCCTT
130 GCGCCTTCCATTATTTTGTCAGAGAATATGTTATC-ATTGCCCTATTATGTCACTCATGTCCCTC
* *
7169614 GGGGGCACTATTCATGTCAGTACCCAAAGTGGTGAAAGT
194 AGGGGCACTATTCATGTCAGTACCCAAAGTGGTGAAAGC
* * * * *
7169653 GCGTTCCCGGGGGCGCGCCTTCGATTGTTACCCAAAATGTCAGAGAATATGTTATCATTGCCCTA
1 GCATTCTCGGGGG-GCGCCTTCCATTATT-------TTGTCAGAGAATATGTTATCATTGCCCTA
* * *
7169718 TTATGTCACTCATGTCCC-C-TAGGGAACTATTCATGTCAGTACCTATTATTTTTTAGGGGACTT
58 TTATGTCACTCATGTCCCTCGT-GGGCACTATTCATGTCAGTACCCA--A------A-GTGA--T
7169781 GAAAGCGCGTTCCCGAGGACGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAT
111 GAAAGCGCGTTCCCG-GGACGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAT
7169846 TATGTCACTCATGTCCC
175 TATGTCACTCATGTCCC
7169863 CCGGGGAACT
Statistics
Matches: 395, Mismatches: 24, Indels: 30
0.88 0.05 0.07
Matches are distributed among these distances:
232 1 0.00
233 226 0.57
234 13 0.03
239 1 0.00
240 23 0.06
241 46 0.12
242 1 0.00
248 1 0.00
249 3 0.01
250 1 0.00
251 78 0.20
252 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.32
Consensus pattern (232 bp):
GCATTCTCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCA
CTCATGTCCCTCGTGGGCACTATTCATGTCAGTACCCAAAGTGATGAAAGCGCGTTCCCGGGACG
CGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCAG
GGGCACTATTCATGTCAGTACCCAAAGTGGTGAAAGC
Found at i:7170074 original size:63 final size:63
Alignment explanation
Indices: 7170006--7170266 Score: 274
Period size: 63 Copynumber: 4.0 Consensus size: 63
7169996 ATTATGTGAA
*
7170006 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTGATCAGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTGATAAGTTGGTT
* * *
7170069 GTTTGAATATATTGGATAAAATGTTATGAATAAATTGAATAAATGTAAAGTGATAAGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTGATAAGTTGGTT
** ** * * ***
7170132 G--TGACATTGAAATTATATGGAATGATCATCGACATGTTTTTACGAATAAATGTGAAGTGATAA
1 GTTTGA-A-T-AAATTGGATAAAATG-TTAT-G-GAT-AAATT--GAATAAATGTGAAGTGATAA
7170195 GTTGGTT
57 GTTGGTT
* * * *
7170202 GTTTAAATAAACTGGATAAAATGTTATGGATAAATTGAATAAATTTGAAGTGAAAAGTTGGTT
1 GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTGATAAGTTGGTT
7170265 GT
1 GT
7170267 GACATTGAAA
Statistics
Matches: 159, Mismatches: 28, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
61 3 0.02
62 1 0.01
63 88 0.55
64 10 0.06
65 5 0.03
66 3 0.02
67 3 0.02
68 5 0.03
69 10 0.06
70 28 0.18
71 1 0.01
72 2 0.01
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (63 bp):
GTTTGAATAAATTGGATAAAATGTTATGGATAAATTGAATAAATGTGAAGTGATAAGTTGGTT
Found at i:7170112 original size:22 final size:22
Alignment explanation
Indices: 7170068--7170111 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
7170058 ATCAGTTGGT
* *
7170068 TGTTTGAATATATTGGATAAAA
1 TGTTTGAATAAATTGAATAAAA
7170090 TGTTATGAATAAATTGAATAAA
1 TGTT-TGAATAAATTGAATAAA
7170112 TGTAAAGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (22 bp):
TGTTTGAATAAATTGAATAAAA
Found at i:7170182 original size:70 final size:70
Alignment explanation
Indices: 7170104--7170334 Score: 237
Period size: 70 Copynumber: 3.4 Consensus size: 70
7170094 ATGAATAAAT
* *
7170104 TGAATAAATGTAAAGTGATAAGTTGGTTGTGACATTGAAATTATATGGAATGATCATCGACATGT
1 TGAATAAATGTGAAGTGATAAGTTGGTTGTGACATTGAAATTATATGGAATGAACATCGACATGT
7170169 TTTTA
66 TTTTA
* * * **
7170174 CGAATAAATGTGAAGTGATAAGTTGGTTGT----TT-AAA-TAAACTGG-AT-AAAAT-GTTATG
1 TGAATAAATGTGAAGTGATAAGTTGGTTGTGACATTGAAATTATA-TGGAATGAACATCGACATG
** **
7170230 GATAAA
65 TTTTTA
* * * *
7170236 TTGAATAAATTTGAAGTGAAAAGTTGGTTGTGACATTGAAATTGTATGGAATGAGCATCGACATG
1 -TGAATAAATGTGAAGTGATAAGTTGGTTGTGACATTGAAATTATATGGAATGAACATCGACATG
*
7170301 TTCTTA
65 TTTTTA
7170307 TGAATAAATGTGAAGTGATAAGTTGGTT
1 TGAATAAATGTGAAGTGATAAGTTGGTT
7170335 TTAATGTATA
Statistics
Matches: 123, Mismatches: 27, Indels: 22
0.72 0.16 0.13
Matches are distributed among these distances:
62 6 0.05
63 30 0.24
64 5 0.04
65 6 0.05
66 2 0.02
67 2 0.02
68 6 0.05
69 4 0.03
70 57 0.46
71 5 0.04
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.35
Consensus pattern (70 bp):
TGAATAAATGTGAAGTGATAAGTTGGTTGTGACATTGAAATTATATGGAATGAACATCGACATGT
TTTTA
Found at i:7170204 original size:133 final size:133
Alignment explanation
Indices: 7170042--7170334 Score: 478
Period size: 133 Copynumber: 2.2 Consensus size: 133
7170032 TGGATAAATT
* * * *
7170042 GAATAAATGTGAAGTGATCAGTTGGTTGTTTGAATATATTGGATAAAATGTTATGAATAAATTGA
1 GAATAAATGTGAAGTGATAAGTTGGTTGTTTAAATAAACTGGATAAAATGTTATGAATAAATTGA
* * *
7170107 ATAAATGTAAAGTGATAAGTTGGTTGTGACATTGAAATTATATGGAATGATCATCGACATGTTTT
66 ATAAATGTAAAGTGAAAAGTTGGTTGTGACATTGAAATTATATGGAATGAGCATCGACATGTTCT
7170172 TAC
131 TAC
*
7170175 GAATAAATGTGAAGTGATAAGTTGGTTGTTTAAATAAACTGGATAAAATGTTATGGATAAATTGA
1 GAATAAATGTGAAGTGATAAGTTGGTTGTTTAAATAAACTGGATAAAATGTTATGAATAAATTGA
* * *
7170240 ATAAATTTGAAGTGAAAAGTTGGTTGTGACATTGAAATTGTATGGAATGAGCATCGACATGTTCT
66 ATAAATGTAAAGTGAAAAGTTGGTTGTGACATTGAAATTATATGGAATGAGCATCGACATGTTCT
*
7170305 TAT
131 TAC
7170308 GAATAAATGTGAAGTGATAAGTTGGTT
1 GAATAAATGTGAAGTGATAAGTTGGTT
7170335 TTAATGTATA
Statistics
Matches: 148, Mismatches: 12, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
133 148 1.00
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.35
Consensus pattern (133 bp):
GAATAAATGTGAAGTGATAAGTTGGTTGTTTAAATAAACTGGATAAAATGTTATGAATAAATTGA
ATAAATGTAAAGTGAAAAGTTGGTTGTGACATTGAAATTATATGGAATGAGCATCGACATGTTCT
TAC
Found at i:7170351 original size:14 final size:14
Alignment explanation
Indices: 7170332--7170362 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
7170322 TGATAAGTTG
7170332 GTTTTAATGTATAT
1 GTTTTAATGTATAT
7170346 GTTTTAATGTATAT
1 GTTTTAATGTATAT
7170360 GTT
1 GTT
7170363 AAGGATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (14 bp):
GTTTTAATGTATAT
Found at i:7170509 original size:34 final size:34
Alignment explanation
Indices: 7170470--7170542 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
7170460 TTAAGTTGAA
7170470 TTTAATGTTAAATTTCGAATACCATAATTTGTAT
1 TTTAATGTTAAATTTCGAATACCATAATTTGTAT
* * *
7170504 TTTAATTTTAAATTTTGAATACTATAATTTGTAT
1 TTTAATGTTAAATTTCGAATACCATAATTTGTAT
*
7170538 ATTAA
1 TTTAA
7170543 AAACATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (34 bp):
TTTAATGTTAAATTTCGAATACCATAATTTGTAT
Found at i:7171119 original size:21 final size:21
Alignment explanation
Indices: 7171052--7171124 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
7171042 GGTGTCATAA
* *
7171052 AACCCTGCGGGCTAGGCATGT
1 AACCCTGAGGGCTAGGAATGT
*
7171073 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GAGGGCTAGGAATGT
*
7171094 AACCCTGAGGGCTAGGAATAT
1 AACCCTGAGGGCTAGGAATGT
7171115 AACCCTGAGG
1 AACCCTGAGG
7171125 AGATAGCATA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
20 3 0.06
21 41 0.87
22 3 0.06
ACGTcount: A:0.26, C:0.23, G:0.33, T:0.18
Consensus pattern (21 bp):
AACCCTGAGGGCTAGGAATGT
Found at i:7171137 original size:21 final size:21
Alignment explanation
Indices: 7171085--7171130 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
7171075 CCTGGCGGGC
* *
7171085 TAGGAATGTAACCCTGAGGGC
1 TAGGAATATAACCCTGAGGGA
7171106 TAGGAATATAACCCTGAGGAGA
1 TAGGAATATAACCCTGAGG-GA
7171128 TAG
1 TAG
7171131 CATATAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (21 bp):
TAGGAATATAACCCTGAGGGA
Found at i:7171148 original size:42 final size:42
Alignment explanation
Indices: 7171102--7171184 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
7171092 GTAACCCTGA
*
7171102 GGGCTAGGAATATAACCCTGAGGAGATAGCATATAAACTGGT
1 GGGCTAGGAATATAACCCTGAAGAGATAGCATATAAACTGGT
* * * * * *
7171144 GGGCTTGGCATATACCCCTGAAGAGATGGCATCTGAACTGG
1 GGGCTAGGAATATAACCCTGAAGAGATAGCATATAAACTGG
7171185 AGGGTTGGGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (42 bp):
GGGCTAGGAATATAACCCTGAAGAGATAGCATATAAACTGGT
Found at i:7172976 original size:30 final size:33
Alignment explanation
Indices: 7172923--7172990 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 33
7172913 AAATTCAAAT
* *
7172923 AAATAATTATTATATAATTATTATTTTAATAAA
1 AAATAATTATTATATAATAATTATATTAATAAA
* *
7172956 AAATAA-TATT-TAT-ATAATTATATTACTATA
1 AAATAATTATTATATAATAATTATATTAATAAA
7172986 AAATA
1 AAATA
7172991 TAAAACTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 18 0.58
31 3 0.10
32 4 0.13
33 6 0.19
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (33 bp):
AAATAATTATTATATAATAATTATATTAATAAA
Found at i:7173584 original size:11 final size:11
Alignment explanation
Indices: 7173568--7173594 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
7173558 CACTATGAGT
7173568 GCATGTCATTG
1 GCATGTCATTG
7173579 GCATGTCATTG
1 GCATGTCATTG
7173590 GCATG
1 GCATG
7173595 CCATCCTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.33
Consensus pattern (11 bp):
GCATGTCATTG
Found at i:7174694 original size:30 final size:31
Alignment explanation
Indices: 7174624--7174695 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
7174614 TGAATATTTC
* *
7174624 AATTTCATCCCCAAACTATGTCTTGCATTGT
1 AATTTCATCCCCAAACTATGTCTTACATTCT
* *
7174655 AAATTCATCCCCAAACT-T-TTTTAACATTCT
1 AATTTCATCCCCAAACTATGTCTT-ACATTCT
7174685 AATTTCATCCC
1 AATTTCATCCC
7174696 TGGTTAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 3 0.09
30 16 0.46
31 16 0.46
ACGTcount: A:0.29, C:0.28, G:0.04, T:0.39
Consensus pattern (31 bp):
AATTTCATCCCCAAACTATGTCTTACATTCT
Found at i:7174838 original size:19 final size:20
Alignment explanation
Indices: 7174801--7174839 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
7174791 TCCGTTTTAG
*
7174801 TACCTAAAATTTTAATTTTT
1 TACCTAAAAGTTTAATTTTT
*
7174821 TACCT-AAAGTTTACTTTTT
1 TACCTAAAAGTTTAATTTTT
7174840 GTTTCATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.31, C:0.13, G:0.03, T:0.54
Consensus pattern (20 bp):
TACCTAAAAGTTTAATTTTT
Found at i:7175330 original size:60 final size:60
Alignment explanation
Indices: 7175178--7175366 Score: 195
Period size: 60 Copynumber: 3.1 Consensus size: 60
7175168 TTTGGATGAA
* * * * *
7175178 TTTGGAGATGAAATTAGAATATTCAAAAGTTT-ATGTACCAATTTAGAAAGAGGGTCATAG
1 TTTGGGGATGAAATTAGAATATTCAAAAGTTTAAAG-AACAATTTAGAATGAGGGTTATAG
* * * ** *
7175238 TTTAGGGATGAAATTAGAATGTTTAATCGTTTAAAG-ACTAATTCAGAATG-GGAGTTATAG
1 TTTGGGGATGAAATTAGAATATTCAAAAGTTTAAAGAAC-AATTTAGAATGAGG-GTTATAG
* * * *
7175298 TTTGGGGATGAAATTGGATTATTCAAAAGTTTAAGGAACAATTTAAAATGAGGGTTATAG
1 TTTGGGGATGAAATTAGAATATTCAAAAGTTTAAAGAACAATTTAGAATGAGGGTTATAG
7175358 TTTGGGGAT
1 TTTGGGGAT
7175367 ATATGATGTA
Statistics
Matches: 103, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
59 3 0.03
60 94 0.91
61 6 0.06
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (60 bp):
TTTGGGGATGAAATTAGAATATTCAAAAGTTTAAAGAACAATTTAGAATGAGGGTTATAG
Found at i:7175518 original size:29 final size:29
Alignment explanation
Indices: 7175476--7175547 Score: 135
Period size: 29 Copynumber: 2.5 Consensus size: 29
7175466 TCTCCCACAG
*
7175476 TTATGCAGTATTGTATCTGAGGCTGTTAA
1 TTATGTAGTATTGTATCTGAGGCTGTTAA
7175505 TTATGTAGTATTGTATCTGAGGCTGTTAA
1 TTATGTAGTATTGTATCTGAGGCTGTTAA
7175534 TTATGTAGTATTGT
1 TTATGTAGTATTGT
7175548 GTATCTATTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.46
Consensus pattern (29 bp):
TTATGTAGTATTGTATCTGAGGCTGTTAA
Found at i:7180108 original size:31 final size:31
Alignment explanation
Indices: 7180066--7180131 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
7180056 ATGTTTGAAA
*
7180066 GTTTATGTAATTTCTATTTAAGTTAAGTTCC
1 GTTTATATAATTTCTATTTAAGTTAAGTTCC
7180097 GTTTATATAATTTCTATTTAAGTTAAGTTCC
1 GTTTATATAATTTCTATTTAAGTTAAGTTCC
7180128 GTTT
1 GTTT
7180132 GCTAATGCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (31 bp):
GTTTATATAATTTCTATTTAAGTTAAGTTCC
Found at i:7180486 original size:18 final size:17
Alignment explanation
Indices: 7180463--7180499 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
7180453 TAGTAGCGAG
7180463 TTATTATAAAATATATTT
1 TTATTAT-AAATATATTT
*
7180481 TTATTATAATTATATTT
1 TTATTATAAATATATTT
7180498 TT
1 TT
7180500 CATTTATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATTATAAATATATTT
Found at i:7180506 original size:19 final size:19
Alignment explanation
Indices: 7180474--7180529 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 19
7180464 TATTATAAAA
7180474 TATATTTTTA-TTATAA-T
1 TATATTTTTATTTATAATT
7180491 TATATTTTTCATTTATAATTT
1 TATATTTTT-ATTTATAA-TT
7180512 TATATTTTTAATTTATAA
1 TATATTTTT-ATTTATAA
7180530 CATAATATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
17 9 0.26
18 1 0.03
19 6 0.18
21 18 0.53
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TATATTTTTATTTATAATT
Found at i:7180537 original size:21 final size:21
Alignment explanation
Indices: 7180492--7180537 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
7180482 TATTATAATT
* ** *
7180492 ATATTTTTCATTTATAATTTT
1 ATATTTTTAATTTATAACATA
7180513 ATATTTTTAATTTATAACATA
1 ATATTTTTAATTTATAACATA
7180534 ATAT
1 ATAT
7180538 CTATAATGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATTTTTAATTTATAACATA
Found at i:7194438 original size:30 final size:30
Alignment explanation
Indices: 7194402--7194470 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
7194392 AAGCATTCAC
7194402 ATGATTTTCCTAATGGTCTAATGCTCCTAT
1 ATGATTTTCCTAATGGTCTAATGCTCCTAT
7194432 ATGATTTTCCTAATGGTCTAATGCTCCTAT
1 ATGATTTTCCTAATGGTCTAATGCTCCTAT
7194462 ATGATTTTC
1 ATGATTTTC
7194471 AATTGGTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (30 bp):
ATGATTTTCCTAATGGTCTAATGCTCCTAT
Found at i:7201108 original size:54 final size:53
Alignment explanation
Indices: 7201046--7201545 Score: 540
Period size: 54 Copynumber: 9.3 Consensus size: 53
7201036 TTTATTTAGA
* *
7201046 TGCACACATAGTGTCTGTATGGTTGTTCATCAACTCATGATGAATTTCGTGGGT
1 TGCACACATAGTG-CTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGGT
* *
7201100 TGCACACATAGTGCATGTACGGTTTTTCATCAACTCATGATGAATTTCGTGGGT
1 TGCACACATAGTGC-TGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGGT
* * * * **
7201154 TGCACACATAGTGCCTGTACGGTTGTTCATGAACTCGTAATGAATTTCGTGAAT
1 TGCACACATAGTG-CTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGGT
* * * *
7201208 TACACACTTAGTGCTGAAACGATTGTTCATCAACAT-ATGATGAATTCCGTGGGT
1 TGCACACATAGTGCTG-TACGGTTGTTCATCAAC-TCATGATGAATTCCGTGGGT
* * **
7201262 TGCACATATAGTGCCTGTATGGTTGTTCATCAACTCATGATGAATTCCGTGAAT
1 TGCACACATAGTG-CTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGGT
* *
7201316 TGCACACTTAGTG-TCGAAACGGTTGTTCATCAACAT-ATGATGAATTCCGTGGGT
1 TGCACACATAGTGCT-G-TACGGTTGTTCATCAAC-TCATGATGAATTCCGTGGGT
* *
7201370 TGCAGACATAGTGCATGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
1 TGCACACATAGTGC-TGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGGT
* * * * * * *
7201424 TGCACACTTAATGCCGAAACGATTGTTCATCAACAT-ATGATGAATTTCATGGGT
1 TGCACACATAGTGCTG-TACGGTTGTTCATCAAC-TCATGATGAATTCCGTGGGT
* * * **
7201478 TGCACACATAGTGCATGTACGATCGTTCATCAACTCATGATGAAATCCGTGAAT
1 TGCACACATAGTGC-TGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGGT
*
7201532 TGCACACTTAGTGC
1 TGCACACATAGTGC
7201546 CTATTTGGTA
Statistics
Matches: 374, Mismatches: 56, Indels: 32
0.81 0.12 0.07
Matches are distributed among these distances:
52 1 0.00
53 9 0.02
54 354 0.95
55 9 0.02
56 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (53 bp):
TGCACACATAGTGCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGGT
Found at i:7201172 original size:108 final size:108
Alignment explanation
Indices: 7201046--7201545 Score: 691
Period size: 108 Copynumber: 4.6 Consensus size: 108
7201036 TTTATTTAGA
* * * ** *
7201046 TGCACACATAGTGTCTGTATGGTTGTTCATCAACTCATGATGAATTTCGTGGGTTGCACACATAG
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGAATTGCACACTTAG
* * * *
7201111 TGCATG-TACGGTTTTTCATCAAC-TCATGATGAATTTCGTGGGT
66 TGC-TGAAACGATTGTTCATCAACAT-ATGATGAATTCCGTGGGT
* * * * *
7201154 TGCACACATAGTGCCTGTACGGTTGTTCATGAACTCGTAATGAATTTCGTGAATTACACACTTAG
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGAATTGCACACTTAG
7201219 TGCTGAAACGATTGTTCATCAACATATGATGAATTCCGTGGGT
66 TGCTGAAACGATTGTTCATCAACATATGATGAATTCCGTGGGT
* *
7201262 TGCACATATAGTGCCTGTATGGTTGTTCATCAACTCATGATGAATTCCGTGAATTGCACACTTAG
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGAATTGCACACTTAG
*
7201327 TG-TCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
66 TGCT-GAAACGATTGTTCATCAACATATGATGAATTCCGTGGGT
* * * *
7201370 TGCAGACATAGTGCATGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGATTGCACACTTAA
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGAATTGCACACTTAG
* * *
7201435 TGCCGAAACGATTGTTCATCAACATATGATGAATTTCATGGGT
66 TGCTGAAACGATTGTTCATCAACATATGATGAATTCCGTGGGT
* * * *
7201478 TGCACACATAGTGCATGTACGATCGTTCATCAACTCATGATGAAATCCGTGAATTGCACACTTAG
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGAATTGCACACTTAG
7201543 TGC
66 TGC
7201546 CTATTTGGTA
Statistics
Matches: 351, Mismatches: 37, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
107 3 0.01
108 347 0.99
109 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (108 bp):
TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGAATTGCACACTTAG
TGCTGAAACGATTGTTCATCAACATATGATGAATTCCGTGGGT
Found at i:7205531 original size:30 final size:30
Alignment explanation
Indices: 7205495--7205560 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
7205485 AGTGAACCGG
* * *
7205495 CGGTTCAAACCGGTTTTGCATGTTTTCAGC
1 CGGTTCAAACCAGTTTTCCAGGTTTTCAGC
** *
7205525 CGGTTCACCCCAGTTTTCCCGGTTTTCAGC
1 CGGTTCAAACCAGTTTTCCAGGTTTTCAGC
7205555 CGGTTC
1 CGGTTC
7205561 TTTCGGTTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.12, C:0.30, G:0.23, T:0.35
Consensus pattern (30 bp):
CGGTTCAAACCAGTTTTCCAGGTTTTCAGC
Found at i:7211701 original size:17 final size:17
Alignment explanation
Indices: 7211662--7211707 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
7211652 ATCATCGAGG
* *
7211662 ATATAA-ATCTATTTAA
1 ATATAATATTTATTCAA
7211678 A-ATAATATTTATTCAA
1 ATATAATATTTATTCAA
*
7211694 ATATAATAATTATT
1 ATATAATATTTATT
7211708 ATTATATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 4 0.16
16 10 0.40
17 11 0.44
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATATTTATTCAA
Found at i:7211718 original size:11 final size:11
Alignment explanation
Indices: 7211702--7211726 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7211692 AAATATAATA
7211702 ATTATTATTAT
1 ATTATTATTAT
7211713 ATTATTATTAT
1 ATTATTATTAT
7211724 ATT
1 ATT
7211727 TTTAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTATTATTAT
Found at i:7212296 original size:36 final size:36
Alignment explanation
Indices: 7212249--7212323 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
7212239 TTATATGGTT
7212249 AATCATCTTCAAAAACAATATTTATGTTTAAATCTA
1 AATCATCTTCAAAAACAATATTTATGTTTAAATCTA
7212285 AATCATCTTCAAAAACAATATTTATGTTTAAATCTA
1 AATCATCTTCAAAAACAATATTTATGTTTAAATCTA
7212321 AAT
1 AAT
7212324 TTAGTTTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (36 bp):
AATCATCTTCAAAAACAATATTTATGTTTAAATCTA
Found at i:7215786 original size:3 final size:3
Alignment explanation
Indices: 7215778--7215828 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
7215768 CGGAGACTCG
7215778 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7215826 TTA
1 TTA
7215829 ACGTTTATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7217385 original size:26 final size:26
Alignment explanation
Indices: 7217344--7217395 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
7217334 TTTTTTTATG
7217344 AATAGTGAACAATACCCGTGAATAGT
1 AATAGTGAACAATACCCGTGAATAGT
* *
7217370 AATAGTGAATAGTACCCGTGAATAGT
1 AATAGTGAACAATACCCGTGAATAGT
7217396 GGGGAATCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.25
Consensus pattern (26 bp):
AATAGTGAACAATACCCGTGAATAGT
Found at i:7217390 original size:13 final size:13
Alignment explanation
Indices: 7217356--7217395 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
7217346 TAGTGAACAA
7217356 TACCCGTGAATAG
1 TACCCGTGAATAG
***
7217369 TAATAGTGAATAG
1 TACCCGTGAATAG
7217382 TACCCGTGAATAG
1 TACCCGTGAATAG
7217395 T
1 T
7217396 GGGGAATCGG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (13 bp):
TACCCGTGAATAG
Found at i:7218193 original size:40 final size:40
Alignment explanation
Indices: 7218069--7218171 Score: 172
Period size: 39 Copynumber: 2.6 Consensus size: 40
7218059 ACTGTAGTGC
* *
7218069 TACACAAAAGGTCGTGCCCACCATATACACCGATGTGTA-
1 TACACAAAAGGTCGTGCCCACCATATACATCGAAGTGTAT
7218108 TACACAAAAGGTCGTGCCCACCATATACATCGAAGTGTAT
1 TACACAAAAGGTCGTGCCCACCATATACATCGAAGTGTAT
*
7218148 TACACATAAGGTCGTGCCCACCAT
1 TACACAAAAGGTCGTGCCCACCAT
7218172 GTGAACTTAG
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
39 37 0.62
40 23 0.38
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.21
Consensus pattern (40 bp):
TACACAAAAGGTCGTGCCCACCATATACATCGAAGTGTAT
Found at i:7223076 original size:85 final size:85
Alignment explanation
Indices: 7222933--7223133 Score: 269
Period size: 85 Copynumber: 2.4 Consensus size: 85
7222923 ACCTCTTTTA
* * *
7222933 TTGGAAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGAAAATAACCCTTCTAGCCCTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
7222998 CAAACTCGAAGGTATTTTGT
66 CAAACTCGAAGGTATTTTGT
* * * *
7223018 TTGGAAAATAGCCCTTCTTGCCCTGAGCTATGTTGTAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGAAAATAACCCTTCTAGCCCTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
* *
7223083 CGAACTCGAAGGTCTTTTG-
66 CAAACTCGAAGGTATTTTGT
* * * * *
7223102 TTGGCAGATAACACTTCTAGCCTTGAGTTATG
1 TTGGAAAATAACCCTTCTAGCCCTGAGCTATG
7223134 TTGTCAATAG
Statistics
Matches: 100, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 25 0.25
85 75 0.75
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (85 bp):
TTGGAAAATAACCCTTCTAGCCCTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
CAAACTCGAAGGTATTTTGT
Found at i:7224477 original size:95 final size:95
Alignment explanation
Indices: 7224273--7224531 Score: 340
Period size: 95 Copynumber: 2.7 Consensus size: 95
7224263 AGCTGAATCA
* * *
7224273 ATAAAGACGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTTAATA-TCATTGTATAGATATTA
1 ATAAAGACGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGATTTATTG--T--ATATTA
* *
7224337 TAATCACCTTTATCATGTTAAATGAATATTATCC
62 TAATCACCTTTATCAGGGTAAATGAATATTATCC
*
7224371 ATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGATTTATTGTATATTATAAT
1 ATAAAGACGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGATTTATTGTATATTATAAT
** *
7224436 CACCTTTATCAGGGTAGCTGAATCTTATCC
66 CACCTTTATCAGGGTAAATGAATATTATCC
* * * * *
7224466 ATAAAGTCGGGGTGTTTAACCAATTGCTTTAGAGGGACAGCTCAAGCTTTATTGTATATATATAA
1 ATAAAGACGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGATTTATTGTATAT-TATAA
7224531 T
65 T
7224532 ATTATAATCT
Statistics
Matches: 145, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
95 89 0.61
96 6 0.04
97 1 0.01
98 44 0.30
99 5 0.03
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (95 bp):
ATAAAGACGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGATTTATTGTATATTATAAT
CACCTTTATCAGGGTAAATGAATATTATCC
Found at i:7227103 original size:23 final size:24
Alignment explanation
Indices: 7227049--7227103 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
7227039 AATATTAAAT
*
7227049 AAATAAAAATCATAAAACAATGAAA
1 AAAT-AAAATAATAAAACAATGAAA
7227074 AAATAAAATAATAAAAC-AT-AATA
1 AAATAAAATAATAAAACAATGAA-A
7227097 AAATAAA
1 AAATAAA
7227104 GAATCAAACG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 2 0.07
23 10 0.36
24 12 0.43
25 4 0.14
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (24 bp):
AAATAAAATAATAAAACAATGAAA
Found at i:7227136 original size:9 final size:9
Alignment explanation
Indices: 7227034--7227143 Score: 54
Period size: 9 Copynumber: 12.3 Consensus size: 9
7227024 TAAAAATAGT
7227034 AAATAAATA
1 AAATAAATA
7227043 TTAAATAAATA
1 --AAATAAATA
*
7227054 AAA-ATCATA
1 AAATA-AATA
* *
7227063 AAA-CAATG
1 AAATAAATA
7227071 AAA-AAATA
1 AAATAAATA
7227079 AAAT-AATA
1 AAATAAATA
*
7227087 AAACATAATA
1 AAATA-AATA
7227097 AAAT-AA-A
1 AAATAAATA
* **
7227104 GAATCAAACG
1 AAAT-AAATA
7227114 AAA-AAATAA
1 AAATAAAT-A
7227123 AAATAAATA
1 AAATAAATA
7227132 AAATAAATA
1 AAATAAATA
7227141 AAA
1 AAA
7227144 ACAAAATATT
Statistics
Matches: 77, Mismatches: 13, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
7 4 0.05
8 24 0.31
9 27 0.35
10 13 0.17
11 9 0.12
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.19
Consensus pattern (9 bp):
AAATAAATA
Found at i:7227233 original size:30 final size:28
Alignment explanation
Indices: 7227170--7227243 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
7227160 AGAAAATATG
* *
7227170 ATATTTAAAGGACTAAATAATAAAACCA
1 ATATTTAAAGGACTAAATAACAAAACAA
* *
7227198 GTATTTTAAAGGACTGAATTAACAAAACAA
1 ATA-TTTAAAGGACT-AAATAACAAAACAA
7227228 ATATTTAAAGGA-TAAA
1 ATATTTAAAGGACTAAA
7227244 AATAATTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
27 2 0.05
28 3 0.08
29 20 0.53
30 13 0.34
ACGTcount: A:0.54, C:0.08, G:0.11, T:0.27
Consensus pattern (28 bp):
ATATTTAAAGGACTAAATAACAAAACAA
Found at i:7228784 original size:48 final size:48
Alignment explanation
Indices: 7228728--7228823 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
7228718 TCATTTTTAC
7228728 ATAGTTTGTTACATAAACATGTATTCTCATAACTTATTATTAACTAGT
1 ATAGTTTGTTACATAAACATGTATTCTCATAACTTATTATTAACTAGT
7228776 ATAGTTTGTTACATAAACATGTATTCTCATAACTTATTATTAACTAGT
1 ATAGTTTGTTACATAAACATGTATTCTCATAACTTATTATTAACTAGT
7228824 TCCTATAACA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.44
Consensus pattern (48 bp):
ATAGTTTGTTACATAAACATGTATTCTCATAACTTATTATTAACTAGT
Found at i:7229519 original size:22 final size:22
Alignment explanation
Indices: 7229494--7229544 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
7229484 TTCACAGTAT
7229494 CGATACCTCTATACTAGGGTAC
1 CGATACCTCTATACTAGGGTAC
*
7229516 CGATACCTCTATATTAGGGTAC
1 CGATACCTCTATACTAGGGTAC
7229538 CGATACC
1 CGATACC
7229545 CTACCTAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (22 bp):
CGATACCTCTATACTAGGGTAC
Found at i:7229613 original size:21 final size:23
Alignment explanation
Indices: 7229587--7229629 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
7229577 AAGTTCCCTG
7229587 GGTATCGATA-CCC-TCCATATA
1 GGTATCGATACCCCTTCCATATA
7229608 GGTATCGATACCCCTTCCATAT
1 GGTATCGATACCCCTTCCATAT
7229630 GATATCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.50
22 3 0.15
23 7 0.35
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (23 bp):
GGTATCGATACCCCTTCCATATA
Found at i:7229635 original size:22 final size:21
Alignment explanation
Indices: 7229589--7229635 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
7229579 GTTCCCTGGG
*
7229589 TATCGATACCCTCCATATAGG
1 TATCGATACCCTCCATATAGA
7229610 TATCGATACCCCTTCCATAT-GA
1 TATCGATA-CCC-TCCATATAGA
7229632 TATC
1 TATC
7229636 AATATTGTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 8 0.35
22 8 0.35
23 7 0.30
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.32
Consensus pattern (21 bp):
TATCGATACCCTCCATATAGA
Found at i:7234420 original size:19 final size:18
Alignment explanation
Indices: 7234368--7234411 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
7234358 TGTAAAATAG
7234368 GAAAATTTGACATTTTTT
1 GAAAATTTGACATTTTTT
7234386 GAAAATTTGACATTTTTT
1 GAAAATTTGACATTTTTT
7234404 GAAAATTT
1 GAAAATTT
7234412 ATGAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (18 bp):
GAAAATTTGACATTTTTT
Found at i:7243119 original size:24 final size:25
Alignment explanation
Indices: 7243061--7243119 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
7243051 TTACCCTAAA
*
7243061 ATAAAATATGTACTTAATTTTATTT
1 ATAAAATATGTACTTAATTTTATTG
*
7243086 ATATATATAT-T-CTTAATTTTATTCG
1 ATA-AAATATGTACTTAATTTTATT-G
7243111 ATAAAATAT
1 ATAAAATAT
7243120 AAATATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 17 0.59
25 7 0.24
26 5 0.17
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (25 bp):
ATAAAATATGTACTTAATTTTATTG
Done.