Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003935.1 Hibiscus syriacus cultivar Beakdansim tig00008505_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: 153033
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:49 original size:21 final size:21
Alignment explanation
Indices: 16--115 Score: 68
Period size: 21 Copynumber: 4.9 Consensus size: 21
6 ATTATTTAAA
* *
16 ATTAATTAGATAA-AAATAAT
1 ATTATTTAAATAATAAATAAT
*
36 ATTATTTCAAATAA-ATATTAAT
1 ATTATTT-AAATAATA-AATAAT
*
58 A-TATTTAGATAATAAATAAT
1 ATTATTTAAATAATAAATAAT
*
78 ATGATTTTAAA-AATAAATAA-
1 ATTA-TTTAAATAATAAATAAT
* *
98 A-TATTTATATTATAAATA
1 ATTATTTAAATAATAAATA
116 CTTTTTCGAA
Statistics
Matches: 64, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
18 5 0.08
19 8 0.12
20 18 0.28
21 22 0.34
22 11 0.17
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (21 bp):
ATTATTTAAATAATAAATAAT
Found at i:71 original size:19 final size:20
Alignment explanation
Indices: 16--84 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
6 ATTATTTAAA
* *
16 ATTAATTAGATAAAAATAAT
1 ATTATTTAGATAATAATAAT
* *
36 ATTATTTCAAATAAATATTAAT
1 ATTATTT-AGAT-AATAATAAT
58 A-TATTTAGATAATAAATAAT
1 ATTATTTAGATAAT-AATAAT
*
78 ATGATTT
1 ATTATTT
85 TAAAAATAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
19 3 0.08
20 15 0.39
21 12 0.32
22 8 0.21
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.42
Consensus pattern (20 bp):
ATTATTTAGATAATAATAAT
Found at i:101 original size:42 final size:40
Alignment explanation
Indices: 21--101 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 40
11 TTAAAATTAA
* *
21 TTAGATAAAAATAATATTATTTCAAATAAATATTAATATAT
1 TTAGATAAAAATAATATGATTTAAAATAAATA-TAATATAT
62 TTAGATAATAAATAATATGATTTTAAAAATAAATA-AATAT
1 TTAGATAA-AAATAATATGA-TTT-AAAATAAATATAATAT
102 TTATATTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
41 8 0.23
42 15 0.43
43 3 0.09
44 9 0.26
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.40
Consensus pattern (40 bp):
TTAGATAAAAATAATATGATTTAAAATAAATATAATATAT
Found at i:103 original size:40 final size:42
Alignment explanation
Indices: 21--115 Score: 108
Period size: 40 Copynumber: 2.3 Consensus size: 42
11 TTAAAATTAA
* *
21 TTAGATAA-AAATAATATTATTTCAAATAAATATTAATATAT
1 TTAGATAATAAATAATATGATTTCAAATAAATAATAATATAT
*
62 TTAGATAATAAATAATATGATTT-TAA-AAATAAATAA-ATAT
1 TTAGATAATAAATAATATGATTTCAAATAAAT-AATAATATAT
* *
102 TTATATTATAAATA
1 TTAGATAATAAATA
116 CTTTTTCGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
40 20 0.43
41 14 0.30
42 13 0.28
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (42 bp):
TTAGATAATAAATAATATGATTTCAAATAAATAATAATATAT
Found at i:911 original size:15 final size:15
Alignment explanation
Indices: 891--923 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
881 GAGGACTAAC
*
891 TTTAATTTAATTTAT
1 TTTAATTTAATATAT
906 TTTAATTTAATATAT
1 TTTAATTTAATATAT
921 TTT
1 TTT
924 TTTTCACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTAATTTAATATAT
Found at i:7430 original size:30 final size:30
Alignment explanation
Indices: 7373--7430 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
7363 TTTATATTCA
* *
7373 TTTGTTTGTGTTCGCTTGCATTCATTTAAG
1 TTTGTTTGTGTTCGCTTACATTAATTTAAG
*
7403 TTTGTTTGTGTT-GACTTACGTTAATTTA
1 TTTGTTTGTGTTCG-CTTACATTAATTTA
7431 CATTCATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.16, C:0.10, G:0.19, T:0.55
Consensus pattern (30 bp):
TTTGTTTGTGTTCGCTTACATTAATTTAAG
Found at i:8215 original size:2 final size:2
Alignment explanation
Indices: 8210--8235 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8200 TCCACACACA
8210 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
8236 TCTTTTGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:11538 original size:3 final size:3
Alignment explanation
Indices: 11532--11562 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
11522 TATTAATAAT
11532 AAC AAC AAC AA- AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
11563 TAATAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.29, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:11986 original size:138 final size:138
Alignment explanation
Indices: 11771--12040 Score: 371
Period size: 138 Copynumber: 2.0 Consensus size: 138
11761 AAATTTGGAG
* * * *
11771 ATAACATGGTTCATACATGATGAGGAAGTATGGCTATCTAAGGGTGACACGGCTCCTACGTGATG
1 ATAACATGGTTCATACATGATAAGGAAGTATGGCTATCCAAGGATAACACGGCTCCTACGTGATG
* ** * *
11836 AGGAGATCTGGTCAGTGGATGACACGGTTCCTACGTGATGAGGACGTC-TGATCATCTTTAGGGA
66 AGGAGATATGGTCAGTGGATGACACAATTCCTACGTGATGAGGACGGCTTG-CCATCTTTAGGGA
11900 TAAAGGCGT
130 TAAAGGCGT
* * * *
11909 ATAACATGGTTCATACGTGATAAGGAAGTTTGGCTATCCGAGGATAACGCGGCTCCTACGTGATG
1 ATAACATGGTTCATACATGATAAGGAAGTATGGCTATCCAAGGATAACACGGCTCCTACGTGATG
* * * *
11974 AGGAGATATGGTCGGTGGATGACACAATTCTTACGTTATGAGGATGGCTTGCCATCTTTAGGGAT
66 AGGAGATATGGTCAGTGGATGACACAATTCCTACGTGATGAGGACGGCTTGCCATCTTTAGGGAT
12039 AA
131 AA
12041 TTTGTTTCAA
Statistics
Matches: 114, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
138 112 0.98
139 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (138 bp):
ATAACATGGTTCATACATGATAAGGAAGTATGGCTATCCAAGGATAACACGGCTCCTACGTGATG
AGGAGATATGGTCAGTGGATGACACAATTCCTACGTGATGAGGACGGCTTGCCATCTTTAGGGAT
AAAGGCGT
Found at i:12202 original size:67 final size:66
Alignment explanation
Indices: 12043--12236 Score: 223
Period size: 67 Copynumber: 2.9 Consensus size: 66
12033 AGGGATAATT
* * * * * *
12043 TGTTTCAAGAGAAAATGTCTCAAGAGAAACAAAACTTGTTTCAAGGGAAATAATC-TCAATGTTG
1 TGTTTCAAGAGAAAAAGTCTCAAAAGAAA-AAAACTAGTTTCAAGGGAAACAATCTTAAAGGTTG
12107 TA
65 TA
* *
12109 TGTTTCAAGAGAAACTA-TCTCCAAAGAGAAAAAACTAGTTTCAAGGGAAACAATCTTAAAGGTT
1 TGTTTCAAGAGAAA-AAGTCTCAAAAGA-AAAAAACTAGTTTCAAGGGAAACAATCTTAAAGGTT
12173 GTA
64 GTA
* * *
12176 TGTTTCAAGAGAAAAAGTCTCAAAAGACACAAAACTGGTTTCAAGAGG-AACAATCTCAAAG
1 TGTTTCAAGAGAAAAAGTCTCAAAAGA-AAAAAACTAGTTTCAAG-GGAAACAATCTTAAAG
12237 TTTATCAAAT
Statistics
Matches: 109, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
66 46 0.42
67 61 0.56
68 2 0.02
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (66 bp):
TGTTTCAAGAGAAAAAGTCTCAAAAGAAAAAAACTAGTTTCAAGGGAAACAATCTTAAAGGTTGT
A
Found at i:12339 original size:67 final size:66
Alignment explanation
Indices: 12268--12404 Score: 159
Period size: 67 Copynumber: 2.1 Consensus size: 66
12258 GAAACAATTT
* * * *
12268 TCAAAT-TTTGTGTTTTGAAGAAAAATTATCTCAAGTGAAACGAAATTTGTTTTTAAGAAAAGTA
1 TCAAATGTTCGTGTCTTG-AGAAAAACTATCTCAAGTGAAACGAAATTTG-TTTTAAGAAAAATA
12332 ATC
64 ATC
* * * * * *
12335 TCAAATGTTCGTGTCTTGAGGAAGACTATCTCATGTGAGATGAAATTTGTTTTGAGAAAAATAAT
1 TCAAATGTTCGTGTCTTGAGAAAAACTATCTCAAGTGAAACGAAATTTGTTTTAAGAAAAATAAT
12400 C
66 C
12401 TCAA
1 TCAA
12405 GTGAGATCAA
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
66 19 0.32
67 31 0.53
68 9 0.15
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (66 bp):
TCAAATGTTCGTGTCTTGAGAAAAACTATCTCAAGTGAAACGAAATTTGTTTTAAGAAAAATAAT
C
Found at i:18501 original size:13 final size:13
Alignment explanation
Indices: 18497--18597 Score: 59
Period size: 14 Copynumber: 7.8 Consensus size: 13
18487 CTTGTCTTCT
18497 TTTCTTTC-TTTC
1 TTTCTTTCTTTTC
18509 TTTCTTT-TTTTC
1 TTTCTTTCTTTTC
* *
18521 TTTGTTTTTTTCTC
1 TTTCTTTCTTT-TC
* *
18535 TTTTTTTCCTTT-
1 TTTCTTTCTTTTC
*
18547 TTAC-TTCTTTTC
1 TTTCTTTCTTTTC
*
18559 TTTGCCCTT-TTTTC
1 TTT--CTTTCTTTTC
* *
18573 TTTCTTTGTTTTT
1 TTTCTTTCTTTTC
18586 TTTCTTTTCTTT
1 TTTC-TTTCTTT
18598 GATTTGATCT
Statistics
Matches: 69, Mismatches: 11, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
11 6 0.09
12 24 0.35
13 12 0.17
14 25 0.36
15 2 0.03
ACGTcount: A:0.01, C:0.19, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTCTTTCTTTTC
Found at i:18510 original size:16 final size:16
Alignment explanation
Indices: 18476--18533 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
18466 TTTGCATGTG
*
18476 CTTCTTGTC-TTCTTGT
1 CTTCTTTTCTTTCTT-T
18492 CTTCTTTTCTTTCTTT
1 CTTCTTTTCTTTCTTT
18508 CTTTCTTTT-TTTCTTT
1 C-TTCTTTTCTTTCTTT
* *
18524 GTTTTTTTCT
1 CTTCTTTTCT
18534 CTTTTTTTCC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 6 0.17
16 18 0.50
17 12 0.33
ACGTcount: A:0.00, C:0.21, G:0.05, T:0.74
Consensus pattern (16 bp):
CTTCTTTTCTTTCTTT
Found at i:18512 original size:12 final size:12
Alignment explanation
Indices: 18497--18593 Score: 72
Period size: 12 Copynumber: 7.7 Consensus size: 12
18487 CTTGTCTTCT
*
18497 TTTCTTTCTTTC
1 TTTCTTTTTTTC
18509 TTTCTTTTTTTC
1 TTTCTTTTTTTC
*
18521 TTTGTTTTTTTC
1 TTTCTTTTTTTC
18533 --TCTTTTTTTCC
1 TTTCTTTTTTT-C
*
18544 TTTTTACTTCTTTTC
1 --TTT-CTTTTTTTC
*
18559 TTTGCCCTTTTTTC
1 TTT--CTTTTTTTC
*
18573 TTTCTTTGTTTTT
1 TTTCTTT-TTTTC
18586 TTTCTTTT
1 TTTCTTTT
18594 CTTTGATTTG
Statistics
Matches: 68, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
10 8 0.12
11 1 0.01
12 26 0.38
13 14 0.21
14 10 0.15
15 2 0.03
16 7 0.10
ACGTcount: A:0.01, C:0.19, G:0.03, T:0.77
Consensus pattern (12 bp):
TTTCTTTTTTTC
Found at i:18536 original size:14 final size:12
Alignment explanation
Indices: 18493--18593 Score: 58
Period size: 13 Copynumber: 7.6 Consensus size: 12
18483 TCTTCTTGTC
*
18493 TTCTTTTCTTTCT
1 TTCTTTT-TTTTT
*
18506 TTCTTTCTTTTT
1 TTCTTTTTTTTT
18518 TTCTTTGTTTTTT
1 TTCTTT-TTTTTT
18531 TCTCTTTTTTTCCTTT
1 T-TC-TTTTTT--TTT
18547 TTACTTCTTTTCTTT
1 TT-CTT-TTTT-TTT
** * *
18562 GCCCTTTTTTCT
1 TTCTTTTTTTTT
18574 TTCTTTGTTTTTT
1 TTCTTT-TTTTTT
18587 TTCTTTT
1 TTCTTTT
18594 CTTTGATTTG
Statistics
Matches: 69, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
12 16 0.23
13 27 0.39
14 7 0.10
15 10 0.14
16 9 0.13
ACGTcount: A:0.01, C:0.19, G:0.03, T:0.77
Consensus pattern (12 bp):
TTCTTTTTTTTT
Found at i:18576 original size:18 final size:18
Alignment explanation
Indices: 18496--18598 Score: 67
Period size: 18 Copynumber: 5.8 Consensus size: 18
18486 TCTTGTCTTC
18496 TTTTC-TTTCTTT--CTT
1 TTTTCTTTTCTTTGCCTT
*
18511 TCTTT-TTTTCTTTG-TTT
1 T-TTTCTTTTCTTTGCCTT
*
18528 TTTTCTCTTT-TTTTCCTTT
1 TTTTCT-TTTCTTTGCC-TT
18547 TTACTTCTTTTCTTTGCCCTT
1 TT--TTCTTTTCTTTG-CCTT
**
18568 TTTTC-TTTCTTTGTTTT
1 TTTTCTTTTCTTTGCCTT
18585 TTTTCTTTTCTTTG
1 TTTTCTTTTCTTTG
18599 ATTTGATCTT
Statistics
Matches: 70, Mismatches: 6, Indels: 21
0.72 0.06 0.22
Matches are distributed among these distances:
15 1 0.01
16 13 0.19
17 14 0.20
18 19 0.27
19 7 0.10
20 3 0.04
21 11 0.16
22 2 0.03
ACGTcount: A:0.01, C:0.18, G:0.04, T:0.77
Consensus pattern (18 bp):
TTTTCTTTTCTTTGCCTT
Found at i:23091 original size:12 final size:12
Alignment explanation
Indices: 23069--23097 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
23059 GCCAAAATAA
23069 GTCCCAAAATTT
1 GTCCCAAAATTT
23081 GTCCCAAAATTT
1 GTCCCAAAATTT
23093 GTCCC
1 GTCCC
23098 TCCCTTCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (12 bp):
GTCCCAAAATTT
Found at i:26565 original size:53 final size:53
Alignment explanation
Indices: 26492--26594 Score: 170
Period size: 53 Copynumber: 1.9 Consensus size: 53
26482 TTTAAATTTG
*
26492 GAGATCTTACTTTAAGGAAATACAATAAAGTGCTTATGCAATAGGTTTGAGTA
1 GAGATCTTACTTTAAAGAAATACAATAAAGTGCTTATGCAATAGGTTTGAGTA
* * *
26545 GAGATTTTATTTTAAAGAAATACAATAAAGTGCTTGTGCAATAGGTTTGA
1 GAGATCTTACTTTAAAGAAATACAATAAAGTGCTTATGCAATAGGTTTGA
26595 ATAGTGCTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (53 bp):
GAGATCTTACTTTAAAGAAATACAATAAAGTGCTTATGCAATAGGTTTGAGTA
Found at i:28722 original size:2 final size:2
Alignment explanation
Indices: 28715--28742 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
28705 TCCAAATTAC
28715 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
28743 CCTTTTGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33761 original size:49 final size:49
Alignment explanation
Indices: 33697--33790 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
33687 AAGTTATCAC
* *
33697 TCCTTCCGGTGCTTTTGAGGGTACCCTCTTGGGACTCTTCAATCCTCAA
1 TCCTTCCAGTACTTTTGAGGGTACCCTCTTGGGACTCTTCAATCCTCAA
33746 TCCTTCCAGTACTTTTGAGGGTACCCTCTTGGGACTCTTCAATCC
1 TCCTTCCAGTACTTTTGAGGGTACCCTCTTGGGACTCTTCAATCC
33791 ATCCGGTACT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.15, C:0.31, G:0.19, T:0.35
Consensus pattern (49 bp):
TCCTTCCAGTACTTTTGAGGGTACCCTCTTGGGACTCTTCAATCCTCAA
Found at i:39806 original size:20 final size:20
Alignment explanation
Indices: 39781--39818 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
39771 CACATTTTAA
39781 AGAATGCATCGATGCACTGT
1 AGAATGCATCGATGCACTGT
39801 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
39819 TCAAGGAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATGCACTGT
Found at i:41369 original size:23 final size:23
Alignment explanation
Indices: 41335--41402 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
41325 CATCTTATAT
*
41335 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTAGGTGCATTTCTACGC
* *
41358 GGCACTTAGGTGCAATTCTACGT
1 GGCACTTAGGTGCATTTCTACGC
*
41381 GGCACTTCA-GTGCATTTATACG
1 GGCACTT-AGGTGCATTTCTACG
41403 AGCTGTAGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 38 0.97
24 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (23 bp):
GGCACTTAGGTGCATTTCTACGC
Found at i:44210 original size:19 final size:19
Alignment explanation
Indices: 44199--44371 Score: 80
Period size: 17 Copynumber: 9.4 Consensus size: 19
44189 AAATTAAAGA
44199 AAATAAAGAAAATAAAAAT
1 AAATAAAGAAAATAAAAAT
44218 AAAT--A-AAAATAAAAAT
1 AAATAAAGAAAATAAAAAT
* * *
44234 AAAGAGAGAAAAAAATAAAT
1 AAATAAAGAAAATAA-AAAT
* *
44254 GAACTAAAGAAAATAATAAT
1 -AAATAAAGAAAATAAAAAT
* * * *
44274 -AAT-ATGTACAT-ATAAT
1 AAATAAAGAAAATAAAAAT
*
44290 AAATAAA-TAAATAAAAA-
1 AAATAAAGAAAATAAAAAT
* * *
44307 CAAGAATG-AAATAAAAAT
1 AAATAAAGAAAATAAAAAT
*
44325 AAATAAAG-AGAT-AAAAT
1 AAATAAAGAAAATAAAAAT
* *
44342 AAATACAAAGGAAATAAAAGT
1 AAAT--AAAGAAAATAAAAAT
44363 AAGATAAAG
1 AA-ATAAAG
44372 GTAAAGAAAA
Statistics
Matches: 116, Mismatches: 23, Indels: 29
0.69 0.14 0.17
Matches are distributed among these distances:
16 19 0.16
17 35 0.30
18 15 0.13
19 14 0.12
20 14 0.12
21 17 0.15
22 2 0.02
ACGTcount: A:0.71, C:0.02, G:0.09, T:0.18
Consensus pattern (19 bp):
AAATAAAGAAAATAAAAAT
Found at i:44327 original size:23 final size:23
Alignment explanation
Indices: 44298--44344 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
44288 ATAAATAAAT
*
44298 AAATAAAAACAAGA-ATGAAATAA
1 AAATAAAAA-AAGAGATAAAATAA
*
44321 AAATAAATAAAGAGATAAAATAA
1 AAATAAAAAAAGAGATAAAATAA
44344 A
1 A
44345 TACAAAGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.15
Consensus pattern (23 bp):
AAATAAAAAAAGAGATAAAATAA
Found at i:44369 original size:11 final size:10
Alignment explanation
Indices: 44315--44393 Score: 53
Period size: 10 Copynumber: 8.3 Consensus size: 10
44305 AACAAGAATG
*
44315 AAATAAAAAT
1 AAATAAAAGT
44325 AAAT-AAAG-
1 AAATAAAAGT
*
44333 AGATAAAA-T
1 AAATAAAAGT
*
44342 AAATACAAAGG
1 AAATA-AAAGT
44353 AAATAAAAGT
1 AAATAAAAGT
*
44363 AAGATAAAGGT
1 AA-ATAAAAGT
*
44374 AAAGAAAA-T
1 AAATAAAAGT
44383 AAA-AAAA-T
1 AAATAAAAGT
44391 AAA
1 AAA
44394 AACAAAGAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
8 11 0.20
9 14 0.25
10 17 0.30
11 14 0.25
ACGTcount: A:0.72, C:0.01, G:0.11, T:0.15
Consensus pattern (10 bp):
AAATAAAAGT
Found at i:44371 original size:20 final size:18
Alignment explanation
Indices: 44314--44385 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 18
44304 AAACAAGAAT
44314 GAAATAAAAATAAATAAA-
1 GAAAT-AAAATAAATAAAG
*
44332 GAGATAAAATAAATACAAAG
1 GAAATAAAATAAAT--AAAG
44352 GAAATAAAAGTAAGATAAAG
1 GAAATAAAA-TAA-ATAAAG
*
44372 GTAAAGAAAATAAA
1 G-AAATAAAATAAA
44386 AAAATAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
17 9 0.20
18 4 0.09
19 4 0.09
20 16 0.36
21 10 0.22
22 2 0.04
ACGTcount: A:0.69, C:0.01, G:0.14, T:0.15
Consensus pattern (18 bp):
GAAATAAAATAAATAAAG
Found at i:44406 original size:10 final size:10
Alignment explanation
Indices: 44391--44423 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
44381 ATAAAAAAAT
44391 AAAAACAAAG
1 AAAAACAAAG
44401 AAAAACAAAG
1 AAAAACAAAG
44411 -AAAACAATAG
1 AAAAACAA-AG
44421 AAA
1 AAA
44424 TAAAATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.33
10 12 0.57
11 2 0.10
ACGTcount: A:0.79, C:0.09, G:0.09, T:0.03
Consensus pattern (10 bp):
AAAAACAAAG
Found at i:44638 original size:26 final size:25
Alignment explanation
Indices: 44573--44640 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
44563 AACAAATGAT
**
44573 AAAAAAACCAAAAAGAATAAATAGTA
1 AAAAAAAATAAAAA-AATAAATAGTA
*
44599 AAAAAGAATAAAAATAATAAATAG-A
1 AAAAAAAATAAAAA-AATAAATAGTA
44624 AAAAGACAAATAAAAAA
1 AAAA-A-AAATAAAAAA
44641 TATATTAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 5 0.14
26 22 0.63
27 8 0.23
ACGTcount: A:0.76, C:0.04, G:0.07, T:0.12
Consensus pattern (25 bp):
AAAAAAAATAAAAAAATAAATAGTA
Found at i:45388 original size:25 final size:23
Alignment explanation
Indices: 45332--45389 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
45322 TATTTTCTGA
*
45332 GTATTTTGTGTGTAATCTCTTGT
1 GTATTTCGTGTGTAATCTCTTGT
** *
45355 GTAAATCGTGTGTAATCTATTGTGT
1 GTATTTCGTGTGTAATCT-CT-TGT
45380 GTATTTCGTG
1 GTATTTCGTG
45390 AGTACAATAG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
23 15 0.56
24 1 0.04
25 11 0.41
ACGTcount: A:0.17, C:0.09, G:0.24, T:0.50
Consensus pattern (23 bp):
GTATTTCGTGTGTAATCTCTTGT
Found at i:55748 original size:85 final size:85
Alignment explanation
Indices: 55605--55777 Score: 310
Period size: 85 Copynumber: 2.0 Consensus size: 85
55595 ACCTCGACGA
55605 AGAATAAATCTTCAAATCGCGACACCACACGATCTCGAAAGATAGGATGATAACATCTAATTAGG
1 AGAATAAATCTTCAAATCGCGACACCACACGATCTCGAAAGATAGGATGATAACATCTAATTAGG
55670 GAGATGACAAAGGCGATGTC
66 GAGATGACAAAGGCGATGTC
* * * *
55690 AGAATAAATCTTCAAATCGCGACACTACACGATCTCGAACGATTGGATGATGACATCTAATTAGG
1 AGAATAAATCTTCAAATCGCGACACCACACGATCTCGAAAGATAGGATGATAACATCTAATTAGG
55755 GAGATGACAAAGGCGATGTC
66 GAGATGACAAAGGCGATGTC
55775 AGA
1 AGA
55778 GACGATGACT
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.21
Consensus pattern (85 bp):
AGAATAAATCTTCAAATCGCGACACCACACGATCTCGAAAGATAGGATGATAACATCTAATTAGG
GAGATGACAAAGGCGATGTC
Found at i:56821 original size:28 final size:27
Alignment explanation
Indices: 56766--56821 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
56756 TAAAAAATGT
* *
56766 AGTTATTTAAAATAAGATTTAACTTTG
1 AGTTATTAAAAATAAGATTTAACATTG
56793 AGTTATTAAAAATGAAGA-TTATACATTG
1 AGTTATTAAAAAT-AAGATTTA-ACATTG
56821 A
1 A
56822 AAAAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (27 bp):
AGTTATTAAAAATAAGATTTAACATTG
Found at i:56834 original size:2 final size:2
Alignment explanation
Indices: 56829--56864 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
56819 TGAAAAAATA
56829 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
56865 GTCCACATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:59857 original size:33 final size:33
Alignment explanation
Indices: 59813--59899 Score: 129
Period size: 33 Copynumber: 2.6 Consensus size: 33
59803 TTAAAAAACT
59813 TTCGGGTTCGGGTCGGGTTTTTTTAAATGTGATA
1 TTCGGG-TCGGGTCGGGTTTTTTTAAATGTGATA
* *
59847 TTTGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTTTTTTTAAATGTGATA
*
59880 TTCGGGTCAGGTTCGGGTTT
1 TTCGGGTC-GGGTCGGGTTT
59900 AGGGTGAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
33 33 0.69
34 15 0.31
ACGTcount: A:0.11, C:0.09, G:0.36, T:0.44
Consensus pattern (33 bp):
TTCGGGTCGGGTCGGGTTTTTTTAAATGTGATA
Found at i:69210 original size:20 final size:20
Alignment explanation
Indices: 69185--69261 Score: 136
Period size: 20 Copynumber: 3.9 Consensus size: 20
69175 GTGATTTTCC
69185 TAAATCGCAATGCGAATACG
1 TAAATCGCAATGCGAATACG
69205 TAAATCGCAATGCGAATACG
1 TAAATCGCAATGCGAATACG
*
69225 TAAATCACAATGCGAATACG
1 TAAATCGCAATGCGAATACG
*
69245 TAAATCGCAACGCGAAT
1 TAAATCGCAATGCGAAT
69262 CTGACTATCG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (20 bp):
TAAATCGCAATGCGAATACG
Found at i:69271 original size:20 final size:20
Alignment explanation
Indices: 69248--69354 Score: 151
Period size: 20 Copynumber: 5.3 Consensus size: 20
69238 GAATACGTAA
*
69248 ATCGCAACGCGAATCTGACT
1 ATCGCAACGCGATTCTGACT
* *
69268 ATCGCAATGCGATTATGACT
1 ATCGCAACGCGATTCTGACT
*
69288 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
69308 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
** *
69328 ATCGCAATACGATTCTGAAT
1 ATCGCAACGCGATTCTGACT
69348 ATCGCAA
1 ATCGCAA
69355 TACTGAATTT
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 77 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:69276 original size:40 final size:40
Alignment explanation
Indices: 69188--69319 Score: 135
Period size: 40 Copynumber: 3.3 Consensus size: 40
69178 ATTTTCCTAA
* *
69188 ATCGCAATGCGAATACGTAAATCGCAATGCGAATAC-GTA-A
1 ATCGCAATGCGAATACGTAAATCGCAACGCGAAT-CTG-ACT
*
69228 ATCACAATGCGAATACGTAAATCGCAACGCGAATCTGACT
1 ATCGCAATGCGAATACGTAAATCGCAACGCGAATCTGACT
* * * * *
69268 ATCGCAATGCGATTATG-ACTATCGCAACGAGATTCTGACT
1 ATCGCAATGCGAATACGTA-AATCGCAACGCGAATCTGACT
*
69308 ATCGCAACGCGA
1 ATCGCAATGCGA
69320 TTCTGACTAT
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
39 3 0.04
40 76 0.96
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (40 bp):
ATCGCAATGCGAATACGTAAATCGCAACGCGAATCTGACT
Found at i:70223 original size:24 final size:24
Alignment explanation
Indices: 70196--70249 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
70186 GTATTCGAAA
70196 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
70220 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
70244 TTTGAT
1 TTTGAT
70250 GATTTTTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:72689 original size:20 final size:19
Alignment explanation
Indices: 72664--72737 Score: 105
Period size: 20 Copynumber: 3.7 Consensus size: 19
72654 GACATTCATT
72664 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAA-A
72684 TGACTATCGCAACATG-GAAA
1 TGACTATCGCAAC--GCGAAA
72704 TGACTATCGCAACGCGGAAA
1 TGACTATCGCAACGC-GAAA
72724 TGACTATCGCAACG
1 TGACTATCGCAACG
72738 AGAGAATCGC
Statistics
Matches: 50, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.02
20 45 0.90
21 3 0.06
22 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (19 bp):
TGACTATCGCAACGCGAAA
Found at i:72759 original size:33 final size:33
Alignment explanation
Indices: 72709--72804 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
72699 GGAAATGACT
* **
72709 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
**
72743 ATCGCAATGCGAAATGAAAATTACAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
72776 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
72805 CGAAACTAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 30 0.56
34 24 0.44
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:73006 original size:14 final size:14
Alignment explanation
Indices: 72987--73023 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
72977 CATCAATTAA
72987 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
73001 ACAAATCATCTTTT
1 ACAAATCAACATTT
73015 ACAAATCAA
1 ACAAATCAA
73024 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:74283 original size:18 final size:19
Alignment explanation
Indices: 74260--74303 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 19
74250 CTCTTGAGGG
74260 ATGATA-GAGGCCTCTTGA
1 ATGATAGGAGGCCTCTTGA
74278 ATGATAGGGGAGGCCTCTTGA
1 ATGATA--GGAGGCCTCTTGA
74299 ATGAT
1 ATGAT
74304 GACAGGTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.26
21 17 0.74
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (19 bp):
ATGATAGGAGGCCTCTTGA
Found at i:74817 original size:20 final size:20
Alignment explanation
Indices: 74794--74862 Score: 111
Period size: 20 Copynumber: 3.5 Consensus size: 20
74784 GAAACTTAAA
74794 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
74814 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
74834 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
74854 ATCGCAACG
1 ATCGCAACG
74863 AGAGAATCGC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:75007 original size:33 final size:34
Alignment explanation
Indices: 74931--75020 Score: 110
Period size: 33 Copynumber: 2.7 Consensus size: 34
74921 TTCGCATTGT
* * *
74931 GATAGTCATTTTTGCATTGCGATTTTGTTGTTAC
1 GATAGTCATTTTTGCATTGCGATTCTCTCGTTAC
** * *
74965 GATTTTCA-TTTCGCATTGCGATTCTCTCGTTGC
1 GATAGTCATTTTTGCATTGCGATTCTCTCGTTAC
74998 GATAGTCATTTTTGCATTGCGAT
1 GATAGTCATTTTTGCATTGCGAT
75021 AGTAAACTAA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
33 26 0.58
34 19 0.42
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.47
Consensus pattern (34 bp):
GATAGTCATTTTTGCATTGCGATTCTCTCGTTAC
Found at i:76914 original size:20 final size:19
Alignment explanation
Indices: 76891--77010 Score: 97
Period size: 20 Copynumber: 6.4 Consensus size: 19
76881 GAAACTTAAA
76891 ATCGCAACACGAAAATGACT
1 ATCGCAACACG-AAATGACT
*
76911 ATCGC-A-ACGCAA-GA--
1 ATCGCAACACGAAATGACT
** **
76925 ATCGCAACGTGAAATGAAA
1 ATCGCAACACGAAATGACT
76944 ATCGCAACACGAAAATGACT
1 ATCGCAACACG-AAATGACT
*
76964 ATCGCAACACGAATTTGACT
1 ATCGCAACACGAA-ATGACT
* **
76984 ATCGCAACGCGAAATGAAA
1 ATCGCAACACGAAATGACT
77003 ATCGCAAC
1 ATCGCAAC
77011 GACATAATCG
Statistics
Matches: 80, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
14 5 0.06
15 1 0.01
16 5 0.06
17 4 0.05
18 3 0.04
19 23 0.29
20 39 0.49
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.15
Consensus pattern (19 bp):
ATCGCAACACGAAATGACT
Found at i:76948 original size:53 final size:56
Alignment explanation
Indices: 76888--77010 Score: 180
Period size: 53 Copynumber: 2.2 Consensus size: 56
76878 TCTGAAACTT
* *
76888 AAAATCGCAACACGAAAATGACTATCGCAACGC-AA-GA-ATCGCAACGTGAAATG
1 AAAATCGCAACACGAAAATGACTATCGCAACACGAATGACATCGCAACGCGAAATG
76941 AAAATCGCAACACGAAAATGACTATCGCAACACGAATTTGACTATCGCAACGCGAAATG
1 AAAATCGCAACACGAAAATGACTATCGCAACACGAA--TGAC-ATCGCAACGCGAAATG
77000 AAAATCGCAAC
1 AAAATCGCAAC
77011 GACATAATCG
Statistics
Matches: 62, Mismatches: 2, Indels: 6
0.89 0.03 0.09
Matches are distributed among these distances:
53 32 0.52
54 2 0.03
57 2 0.03
59 26 0.42
ACGTcount: A:0.45, C:0.24, G:0.17, T:0.15
Consensus pattern (56 bp):
AAAATCGCAACACGAAAATGACTATCGCAACACGAATGACATCGCAACGCGAAATG
Found at i:77381 original size:22 final size:22
Alignment explanation
Indices: 77356--77409 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
77346 ATGATTTCAC
*
77356 CGGAGAT-GGAGACTGATATCGT
1 CGGAGATGGGA-ACTAATATCGT
*
77378 CGGAGATGGGAACTAATTTCGT
1 CGGAGATGGGAACTAATATCGT
77400 CGGAGATGGG
1 CGGAGATGGG
77410 GACGGATGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 26 0.90
23 3 0.10
ACGTcount: A:0.26, C:0.13, G:0.39, T:0.22
Consensus pattern (22 bp):
CGGAGATGGGAACTAATATCGT
Found at i:77620 original size:20 final size:20
Alignment explanation
Indices: 77597--77709 Score: 190
Period size: 20 Copynumber: 5.7 Consensus size: 20
77587 CGATAGTCAG
*
77597 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
77617 ATTCGTATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
77637 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
77657 ATTCGTATTGTGATTTACGT
1 ATTCGCATTGCGATTTACGT
77677 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
77697 ATTCGCATTGCGA
1 ATTCGCATTGCGA
77710 ATTAGGAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 86 1.00
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:86870 original size:19 final size:20
Alignment explanation
Indices: 86827--86871 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
86817 ACTAAAAGAG
*
86827 AAGTTTTGAAACTCTTGTAA
1 AAGTTTTGAAACTCATGTAA
86847 AAGTTTTGAAACTCATGT-A
1 AAGTTTTGAAACTCATGTAA
86866 AAGTTT
1 AAGTTT
86872 CAAAACTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (20 bp):
AAGTTTTGAAACTCATGTAA
Found at i:86877 original size:19 final size:20
Alignment explanation
Indices: 86835--86878 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
86825 AGAAGTTTTG
* **
86835 AAACTCTTGTAAAAGTTTTG
1 AAACTCATGTAAAAGTTTCA
86855 AAACTCATGT-AAAGTTTCA
1 AAACTCATGTAAAAGTTTCA
86874 AAACT
1 AAACT
86879 TCAAAGTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (20 bp):
AAACTCATGTAAAAGTTTCA
Found at i:88561 original size:42 final size:42
Alignment explanation
Indices: 88503--88891 Score: 661
Period size: 42 Copynumber: 9.3 Consensus size: 42
88493 CATATTCGCA
* * *
88503 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTTCAAGTTCA
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
* *
88545 TTTCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
88587 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
*
88629 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
*
88671 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
*
88713 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
* *
88755 TTGCGATAATCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
*
88797 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
* *
88839 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGCTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
88881 TTGCGATAGTC
1 TTGCGATAGTC
88892 CAAAATCGCA
Statistics
Matches: 326, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 326 1.00
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
Found at i:89636 original size:21 final size:21
Alignment explanation
Indices: 89606--89742 Score: 172
Period size: 21 Copynumber: 6.6 Consensus size: 21
89596 GATTTACATA
89606 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
* * *
89627 TTCACATTGCGATAGT-CGAC
1 TTCGCATTGCGATAGTCCAAG
* *
89647 TATCGCATTGCGAT-TTACATA-
1 T-TCGCATTGCGATAGTCCA-AG
89668 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
89689 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
89710 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
89731 TTCGCGTTGCGA
1 TTCGCATTGCGA
89743 ATCTGGAAAC
Statistics
Matches: 101, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.17
21 83 0.82
22 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:89653 original size:62 final size:62
Alignment explanation
Indices: 89582--89722 Score: 230
Period size: 62 Copynumber: 2.3 Consensus size: 62
89572 CGCGAACTTG
*
89582 GACTATCGCATTGTGATTTACATATTCGCATTGCGATAGTCCAAGTTCACATTGCGATAGTC
1 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCACATTGCGATAGTC
*
89644 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCC
1 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCACATTGCGATAGT-C
* *
89707 AAGT-TCGCATTGCGAT
1 GACTATCGCATTGCGAT
89723 AGTCGAAGTT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
62 71 0.96
63 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.33
Consensus pattern (62 bp):
GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCACATTGCGATAGTC
Found at i:89674 original size:20 final size:21
Alignment explanation
Indices: 89587--89725 Score: 121
Period size: 21 Copynumber: 6.7 Consensus size: 21
89577 ACTTGGACTA
* *
89587 TCGCATTGTGAT-TTACATAT
1 TCGCATTGCGATAGTACATAT
*
89607 TCGCATTGCGATAGTCCA-AGT
1 TCGCATTGCGATAGTACATA-T
*
89628 TCACATTGCGATAGT-CGACTA-
1 TCGCATTGCGATAGTAC-A-TAT
*
89649 TCGCATTGCGAT-TTACATAT
1 TCGCATTGCGATAGTACATAT
*
89669 TCGCATTGCGATAGTCCA-AGT
1 TCGCATTGCGATAGTACATA-T
*
89690 TCGCATTGCGATAGTCCA-AGT
1 TCGCATTGCGATAGTACATA-T
89711 TCGCATTGCGATAGT
1 TCGCATTGCGATAGT
89726 CGAAGTTCGC
Statistics
Matches: 102, Mismatches: 8, Indels: 17
0.80 0.06 0.13
Matches are distributed among these distances:
19 2 0.02
20 28 0.27
21 71 0.70
23 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (21 bp):
TCGCATTGCGATAGTACATAT
Found at i:96417 original size:101 final size:100
Alignment explanation
Indices: 96231--96433 Score: 304
Period size: 101 Copynumber: 2.0 Consensus size: 100
96221 ATACCCAGAA
*
96231 TATATTATTATATACAATAAAGCTTAAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCTCAGCTT
1 TATATTATTATATACAATAAAGCTTAAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCTCAGCTT
*
96296 TATGGATAAGATTCATCTAGCCTGATAAAGGTGAT
66 TATGGATAAGATTCAGCTAGCCTGATAAAGGTGAT
* *
96331 TATATTATATATATACAATAAAGCTTGAA-CTGTCCCTCTAGAGCAATTGGTTAATCGTCC-C-G
1 TATATTAT-TATATACAATAAAGCTT-AAGCTGTCCCTCTAAAGCAATTGGTTAAACG-CCTCAG
*
96393 CCTTTATTGATAAGATTCAGCTAGCCTGATAAAGGTGAT
63 -CTTTATGGATAAGATTCAGCTAGCCTGATAAAGGTGAT
96432 TA
1 TA
96434 CAATAAAGTT
Statistics
Matches: 94, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
100 9 0.10
101 81 0.86
102 4 0.04
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (100 bp):
TATATTATTATATACAATAAAGCTTAAGCTGTCCCTCTAAAGCAATTGGTTAAACGCCTCAGCTT
TATGGATAAGATTCAGCTAGCCTGATAAAGGTGAT
Found at i:98581 original size:37 final size:34
Alignment explanation
Indices: 98525--98592 Score: 84
Period size: 37 Copynumber: 1.9 Consensus size: 34
98515 TTCATACATG
*
98525 ATACATGAATTTATGTCATTACATCATACATAATTTC
1 ATACATAAATTTATGTCATT-C-TCATA-ATAATTTC
98562 ATACATAAATTT-TGATCATTCTCATAATAAT
1 ATACATAAATTTATG-TCATTCTCATAATAAT
98593 GTGTATGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 5 0.17
35 5 0.17
36 3 0.10
37 16 0.55
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.41
Consensus pattern (34 bp):
ATACATAAATTTATGTCATTCTCATAATAATTTC
Found at i:98707 original size:38 final size:38
Alignment explanation
Indices: 98613--98837 Score: 215
Period size: 38 Copynumber: 5.9 Consensus size: 38
98603 TGAGAAAATT
* * * * *
98613 TTGACTTCCTCATGAAGAGAAGTCATTTTATTGTTATAC
1 TTGACTTCCTCGTAAAGAGAAGTCAATCT-TTGTTATCC
* * * * *
98652 TTGAC-TCCATTGCAAAGAGGAGTTAATCTTTATTAAT-C
1 TTGACTTCC-TCGTAAAGAGAAGTCAATCTTTGTT-ATCC
* * *
98690 TTGACTTCCTCGTAAAGAGAAGTTAATTTTTGTTATTC
1 TTGACTTCCTCGTAAAGAGAAGTCAATCTTTGTTATCC
* *
98728 TTGACTTCCTCGTGAAGAGAAGTCAACCTTTGTTATCC
1 TTGACTTCCTCGTAAAGAGAAGTCAATCTTTGTTATCC
* * *
98766 TTGACTTTCTCGTGAAGAGAAGTCAATATTTGTTATCC
1 TTGACTTCCTCGTAAAGAGAAGTCAATCTTTGTTATCC
* *
98804 TTGACTTCCCCGTAAAAAGAAGT-AAT-TTTGTTAT
1 TTGACTTCCTCGTAAAGAGAAGTCAATCTTTGTTAT
98838 TTTTGACTCC
Statistics
Matches: 156, Mismatches: 26, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
36 8 0.05
37 5 0.03
38 121 0.78
39 22 0.14
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (38 bp):
TTGACTTCCTCGTAAAGAGAAGTCAATCTTTGTTATCC
Found at i:98933 original size:62 final size:62
Alignment explanation
Indices: 98802--99136 Score: 383
Period size: 62 Copynumber: 5.5 Consensus size: 62
98792 TATTTGTTAT
* * * * *
98802 CCTTGACTTCCCCGTAAAAAGAAGT-AA-TTTTGTTATTTTTGACTCCC-AGTAGAGTCAAT
1 CCTTGACTTCCTCGTGAAAAGAAGTCAACCTTTGTTATTTCTGACTCCCTAGTAGAGTCAAC
* * * *
98861 CCTTTACTTCCTCATGAAAAGAAGTCAATCATTGTTATTTCTGACTCCCTAGTAGAGTCAAC
1 CCTTGACTTCCTCGTGAAAAGAAGTCAACCTTTGTTATTTCTGACTCCCTAGTAGAGTCAAC
* *
98923 CATTGACTTCCTCGTGAAGAGAAGTCAACCTTTGTTATTTCTGACT-CCTCAGTAGAGTCAAC
1 CCTTGACTTCCTCGTGAAAAGAAGTCAACCTTTGTTATTTCTGACTCCCT-AGTAGAGTCAAC
* * * * *
98985 CCTTGACTTTCTTGTGAAGAGAAGTCAACCTTTGTTATTTCTGACTCCCCAGTAGATTCAAC
1 CCTTGACTTCCTCGTGAAAAGAAGTCAACCTTTGTTATTTCTGACTCCCTAGTAGAGTCAAC
* * * * *
99047 CCTTGACTTCCTCGT-AAATAGAAGTCAACCTTTTTTATTTTTTACTCCCTATTAGAGTCAAT
1 CCTTGACTTCCTCGTGAAA-AGAAGTCAACCTTTGTTATTTCTGACTCCCTAGTAGAGTCAAC
* * * * *
99109 CCTTAACATCATCGTGAAGAGAAATCAA
1 CCTTGACTTCCTCGTGAAAAGAAGTCAA
99137 TATTACACAT
Statistics
Matches: 235, Mismatches: 34, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
59 21 0.09
60 2 0.01
61 22 0.09
62 186 0.79
63 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (62 bp):
CCTTGACTTCCTCGTGAAAAGAAGTCAACCTTTGTTATTTCTGACTCCCTAGTAGAGTCAAC
Found at i:98982 original size:33 final size:33
Alignment explanation
Indices: 98945--99047 Score: 85
Period size: 33 Copynumber: 3.2 Consensus size: 33
98935 CGTGAAGAGA
*
98945 AGTCAACCTTTGTTATTTCTGACTCCTCAGTAG
1 AGTCAACCTTTGTTATTTCTGACTCCCCAGTAG
* **
98978 AGTCAACCCTTG--ACTTTCTTG--T--GAAG-AG
1 AGTCAACCTTTGTTA-TTTC-TGACTCCCCAGTAG
99006 AAGTCAACCTTTGTTATTTCTGACTCCCCAGTAG
1 -AGTCAACCTTTGTTATTTCTGACTCCCCAGTAG
*
99040 ATTCAACC
1 AGTCAACC
99048 CTTGACTTCC
Statistics
Matches: 53, Mismatches: 7, Indels: 20
0.66 0.09 0.25
Matches are distributed among these distances:
28 2 0.04
29 15 0.28
30 4 0.08
31 4 0.08
32 4 0.08
33 22 0.42
34 2 0.04
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (33 bp):
AGTCAACCTTTGTTATTTCTGACTCCCCAGTAG
Found at i:99296 original size:89 final size:89
Alignment explanation
Indices: 99145--99818 Score: 891
Period size: 89 Copynumber: 7.6 Consensus size: 89
99135 AATATTACAC
* ** * *
99145 ATTTGGTCTTCTTCAAAAAACAGCGAATCAAATCAACCTCGCA-TCTGATCATCATGGAAGAGTA
1 ATTTGGTCTTCCTGGAAAAGCAGCGAATCAAATCAACCTCG-AGTCTGATCTTCATGGAAGAGTA
** *
99209 GTGGAACAGATTCTTAGCATCCCAT
65 GTGGAACAGATTCTTCTCATCCCAG
* * * **
99234 ATTTGGTCTTCCTGGAAAAGAAGCGAAACAAATCAACCTCGAGTCTAATCTTCACAGAAGAGTAG
1 ATTTGGTCTTCCTGGAAAAGCAGCGAATCAAATCAACCTCGAGTCTGATCTTCATGGAAGAGTAG
99299 TGGAACAGATTCTTCTCATCCCAG
66 TGGAACAGATTCTTCTCATCCCAG
* * *
99323 ATTTGGTCTTCCTGGCAAAGCAGCGAATCAAATCAGCCTCGAGTATGATCTTCATGGAAGAGTAG
1 ATTTGGTCTTCCTGGAAAAGCAGCGAATCAAATCAACCTCGAGTCTGATCTTCATGGAAGAGTAG
* * *
99388 TGGAACATATTCTTCTCATTCCAT
66 TGGAACAGATTCTTCTCATCCCAG
* *
99412 ATTTGGTCTTCCTGGAAAAGCATCGAATCAAATCAACCTCGAGCCTGATCTTCATGGAAGAGTAG
1 ATTTGGTCTTCCTGGAAAAGCAGCGAATCAAATCAACCTCGAGTCTGATCTTCATGGAAGAGTAG
* *
99477 TGGAACAAATTCTTCTTATCCCAG
66 TGGAACAGATTCTTCTCATCCCAG
* * * *
99501 ATTTGGTCTTCCTAGCAAAGCAACGAATCAAATCAACCTCGAGTCTGATCTTTATGGAAGAGTAG
1 ATTTGGTCTTCCTGGAAAAGCAGCGAATCAAATCAACCTCGAGTCTGATCTTCATGGAAGAGTAG
*
99566 TGGAATAGATTCTTCTCATCCCAG
66 TGGAACAGATTCTTCTCATCCCAG
* * * * * *
99590 ATTTGGTCTTCTTGGAAAAGCATCAAATTAAATCAACCTTGAGTCTGATCTTCACGGAAGAGTAG
1 ATTTGGTCTTCCTGGAAAAGCAGCGAATCAAATCAACCTCGAGTCTGATCTTCATGGAAGAGTAG
*
99655 TGGAACAGATTCTTCTCATCCCAA
66 TGGAACAGATTCTTCTCATCCCAG
* * * * * * * *
99679 ATTTTGTCTTCCTGGTAAAGCAACGAATCAAATCTACGTCGAGTCTGATCTTCACGAAAGAGTAA
1 ATTTGGTCTTCCTGGAAAAGCAGCGAATCAAATCAACCTCGAGTCTGATCTTCATGGAAGAGTAG
* *
99744 TTGAACATATTCTTCTCATCCCAG
66 TGGAACAGATTCTTCTCATCCCAG
* * * *
99768 ATTTGGTCTTCTTGGTAAAGCAGTGAATCAAATCAACCTCAAGTCTGATCT
1 ATTTGGTCTTCCTGGAAAAGCAGCGAATCAAATCAACCTCGAGTCTGATCT
99819 CCCCTGAATG
Statistics
Matches: 511, Mismatches: 73, Indels: 2
0.87 0.12 0.00
Matches are distributed among these distances:
88 1 0.00
89 510 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (89 bp):
ATTTGGTCTTCCTGGAAAAGCAGCGAATCAAATCAACCTCGAGTCTGATCTTCATGGAAGAGTAG
TGGAACAGATTCTTCTCATCCCAG
Found at i:100050 original size:166 final size:165
Alignment explanation
Indices: 99806--100250 Score: 570
Period size: 166 Copynumber: 2.7 Consensus size: 165
99796 CAAATCAACC
* * *
99806 TCAAGTCTGATCTCCCCTGAATGAATAGTGGAGCAGACACATCTTCCAAAATTGATCTGAATACC
1 TCAAGTATGATCTCCCCTGAATGAATAGTGGAGCAGACACATCTTCCAAAATTAATCTGACTACC
** *
99871 CGAAAAAGAGGCACATATCAAGTCTGATCTCCCCTGAATAAATAGTGGAGTTGTCACGTCTTTCC
66 CGAAAAAGAGGCACATATCAAGTCTGATCTCCCCTGAATAAATAGTGGAGCAGGCACGTCTTTCC
*
99936 AAAATTGATCTGACTA-CT-CAAAAAAGAGCTAAAGA
131 AAAATTGATCTAACTACCTGCAAAAAAGA-C-AAAGA
* * * * * * *
99971 TCATGTTTGATATCCCCTGAGTGCATAATGGAGCAGACACATCTTTTCAAAATTAATCTGACTAC
1 TCAAGTATGATCTCCCCTGAATGAATAGTGGAGCAGACACATC-TTCCAAAATTAATCTGACTAC
* *
100036 CCGAAAAAGAGGCACATATCAAGTCTGATCTCCCCTGAATAAATAGTAGAGCAGGCACGTCTTTT
65 CCGAAAAAGAGGCACATATCAAGTCTGATCTCCCCTGAATAAATAGTGGAGCAGGCACGTCTTTC
* * * *
100101 CAAAATTGATCTAACTACCTGGAAAATAGACACATA
130 CAAAATTGATCTAACTACCTGCAAAAAAGACAAAGA
* * * * *
100137 TCAAGTATAATCTCCCCTGAATGAATAGTAGAGTAGACACGTCTTCCAAAATTAATCTGACTGCC
1 TCAAGTATGATCTCCCCTGAATGAATAGTGGAGCAGACACATCTTCCAAAATTAATCTGACTACC
* * * * * *
100202 CGAAAAAGAGACACAAATCAAGTTTGACCTCCCCCGAATGAATAGTGGA
66 CGAAAAAGAGGCACATATCAAGTCTGATCTCCCCTGAATAAATAGTGGA
100251 ACAGACCCAT
Statistics
Matches: 239, Mismatches: 38, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
165 99 0.41
166 130 0.54
167 3 0.01
168 7 0.03
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (165 bp):
TCAAGTATGATCTCCCCTGAATGAATAGTGGAGCAGACACATCTTCCAAAATTAATCTGACTACC
CGAAAAAGAGGCACATATCAAGTCTGATCTCCCCTGAATAAATAGTGGAGCAGGCACGTCTTTCC
AAAATTGATCTAACTACCTGCAAAAAAGACAAAGA
Found at i:100264 original size:82 final size:83
Alignment explanation
Indices: 99806--100267 Score: 509
Period size: 83 Copynumber: 5.6 Consensus size: 83
99796 CAAATCAACC
*
99806 TCAAGTCTGATCTCCCCTGAATGAATAGTGGAGCAGACACATC-TTCCAAAATTGATCTGAATAC
1 TCAAGTCTGATCTCCCCTGAATGAATAGTGGAGCAGACACATCTTTCCAAAATTGATCTGACTAC
*
99870 CCGAAAAAGAGGCACATA
66 CCGAAAAAGAGACACATA
* ** * *
99888 TCAAGTCTGATCTCCCCTGAATAAATAGTGGAGTTGTCACGTCTTTCCAAAATTGATCTGACTAC
1 TCAAGTCTGATCTCCCCTGAATGAATAGTGGAGCAGACACATCTTTCCAAAATTGATCTGACTAC
* * * *
99953 TCAAAAAAGAG-CTAAAGA
66 CCGAAAAAGAGAC-ACATA
* * * * * * * *
99971 TCATGTTTGATATCCCCTGAGTGCATAATGGAGCAGACACATCTTTTCAAAATTAATCTGACTAC
1 TCAAGTCTGATCTCCCCTGAATGAATAGTGGAGCAGACACATCTTTCCAAAATTGATCTGACTAC
*
100036 CCGAAAAAGAGGCACATA
66 CCGAAAAAGAGACACATA
* * * * * *
100054 TCAAGTCTGATCTCCCCTGAATAAATAGTAGAGCAGGCACGTCTTTTCAAAATTGATCTAACTAC
1 TCAAGTCTGATCTCCCCTGAATGAATAGTGGAGCAGACACATCTTTCCAAAATTGATCTGACTAC
* * *
100119 CTGGAAAATAGACACATA
66 CCGAAAAAGAGACACATA
* * * * * * *
100137 TCAAGTATAATCTCCCCTGAATGAATAGTAGAGTAGACACGTC-TTCCAAAATTAATCTGACTGC
1 TCAAGTCTGATCTCCCCTGAATGAATAGTGGAGCAGACACATCTTTCCAAAATTGATCTGACTAC
*
100201 CCGAAAAAGAGACACAAA
66 CCGAAAAAGAGACACATA
* * * * *
100219 TCAAGTTTGACCTCCCCCGAATGAATAGTGGAACAGACCCATC-TTCCAA
1 TCAAGTCTGATCTCCCCTGAATGAATAGTGGAGCAGACACATCTTTCCAA
100268 TGATTTTTCG
Statistics
Matches: 312, Mismatches: 65, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
82 110 0.35
83 201 0.64
84 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (83 bp):
TCAAGTCTGATCTCCCCTGAATGAATAGTGGAGCAGACACATCTTTCCAAAATTGATCTGACTAC
CCGAAAAAGAGACACATA
Found at i:100455 original size:102 final size:101
Alignment explanation
Indices: 100269--100660 Score: 407
Period size: 102 Copynumber: 3.9 Consensus size: 101
100259 ATCTTCCAAT
* * * ** *
100269 GATTTTTCGAGTCTTATCTCCCTGAAAGAAGAGTAGAGCAGATTTTTCTTCCCTTGGATCATATC
1 GATTTCTCGAGTCTTATCTCCATGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATC
* * *
100334 TCCCTGAAAGAAAAATGGAGCAGATACGTTTTACAAA
66 TTCCTGAAAGAAGAGTGGAGCAGAT-CGTTTTACAAA
* * * * *
100371 TATTTCCCGAGTCTTATCTCCATGAAAGAAAAGTGGAACAGATTCGTCTTCCCTTGGATTTTATC
1 GATTTCTCGAGTCTTATCTCCATGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATC
*
100436 TTCCTGAAAGAAGAGTGGAGTAGATCTGTTTTACAAA
66 TTCCTGAAAGAAGAGTGGAGCAGATC-GTTTTACAAA
* **
100473 GATTTCTTGAGTCTTATCGT-TGTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGAT-TTAT
1 GATTTCTCGAGTCTTATC-TCCATGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTAT
* * *
100536 C-TCTCTAAAATAAGAGTGGAGCATATTCGTTTT-CTAAA
65 CTTC-CTGAAAGAAGAGTGGAGCAGA-TCGTTTTAC-AAA
* * * * * * * * *
100574 GGTTTCTTGGGTATTGTCTCCTTGAAAGAATACTGGAGCAGATTCGTCTTCCC-TCGAGTCTTAT
1 GATTTCTCGAGTCTTATCTCCATGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGA-TCTTAT
*
100638 TTTCCTGAAAGAAGAGTGGAGCA
65 CTTCCTGAAAGAAGAGTGGAGCA
100661 TACTCGTCTT
Statistics
Matches: 243, Mismatches: 38, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
100 7 0.03
101 75 0.31
102 158 0.65
103 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (101 bp):
GATTTCTCGAGTCTTATCTCCATGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATC
TTCCTGAAAGAAGAGTGGAGCAGATCGTTTTACAAA
Found at i:100651 original size:203 final size:204
Alignment explanation
Indices: 100291--100658 Score: 472
Period size: 203 Copynumber: 1.8 Consensus size: 204
100281 CTTATCTCCC
** *
100291 TGAAAGAAGAGTAGAGCAGATTTTTCTTCCCTTGGATCATATCTCCCTGAAAGAAAAATGGAGCA
1 TGAAAGAAGAGTAGAGCAGATTCGTCTTCCCTTGGATCATATCTCCCTAAAAGAAAAATGGAGCA
* * *
100356 GATACGTTTTACAAATATTTCCCGAGTCTTATCTCCATGAAAGAAAAGTGGAACAGATTCGTCTT
66 GATACGTTTTACAAAGATTTCCCGAGTATTATCTCCATGAAAGAAAACTGGAACAGATTCGTCTT
* *
100421 CCCTTGGATTTTATCTTCCTGAAAGAAGAGTGGAGTAGATCTGTTTTACAAAGATTTCTTGAGTC
131 CCCTCGGATCTTATCTTCCTGAAAGAAGAGTGGAGTAGATCTGTTTTACAAAGATTTCTTGAGTC
100486 TTATCGTTG
196 TTATCGTTG
* * * * * *
100495 TGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGAT-TTATCTCTCTAAAATAAGAGTGGAGCA
1 TGAAAGAAGAGTAGAGCAGATTCGTCTTCCCTTGGATCATATCTCCCTAAAAGAAAAATGGAGCA
* * * ** * * * * *
100559 TATTCGTTTT-CTAAAGGTTTCTTGGGTATTGTCTCCTTGAAAGAATACTGGAGCAGATTCGTCT
66 GATACGTTTTAC-AAAGATTTCCCGAGTATTATCTCCATGAAAGAAAACTGGAACAGATTCGTCT
*
100623 TCCCTC-GAGTCTTATTTTCCTGAAAGAAGAGTGGAG
130 TCCCTCGGA-TCTTATCTTCCTGAAAGAAGAGTGGAG
100659 CATACTCGTC
Statistics
Matches: 137, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
202 3 0.02
203 100 0.73
204 34 0.25
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (204 bp):
TGAAAGAAGAGTAGAGCAGATTCGTCTTCCCTTGGATCATATCTCCCTAAAAGAAAAATGGAGCA
GATACGTTTTACAAAGATTTCCCGAGTATTATCTCCATGAAAGAAAACTGGAACAGATTCGTCTT
CCCTCGGATCTTATCTTCCTGAAAGAAGAGTGGAGTAGATCTGTTTTACAAAGATTTCTTGAGTC
TTATCGTTG
Found at i:100864 original size:3 final size:3
Alignment explanation
Indices: 100856--100884 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
100846 TTTTCGTCCT
100856 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
100885 TATTGAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:101126 original size:47 final size:47
Alignment explanation
Indices: 101051--101334 Score: 149
Period size: 55 Copynumber: 5.7 Consensus size: 47
101041 ATTTTCCGAG
* * *
101051 TCTTATCTCCCTGATAGAAGAGTAGAGCAGATTCTTCTTCCCTTGGA
1 TCTTATCTCCCTGAAAGAAAAGTGGAGCAGATTCTTCTTCCCTTGGA
* * * *** *
101098 TCATATCTCCCTGAAAGAAAAGTGGAGCAGATACGTTTTATAAAGATTTCTCGA
1 TCTTATCTCCCTGAAAGAAAAGTGGAGCAGATTC-TTCT-T----CCCT-TGGA
* * *
101152 GTCTTATCTCCATGAAAGAAAAGTGGAACAGATTCGTCTTCCCTTGGA
1 -TCTTATCTCCCTGAAAGAAAAGTGGAGCAGATTCTTCTTCCCTTGGA
* * * * ** *
101200 TTTTATCTCCCTGAAAGAAGAGTGGAGCATA-TCTGTTTTACAAAGATTTCTCGA
1 TCTTATCTCCCTGAAAGAAAAGTGGAGCAGATTCT-TCTT-C-----CCT-TGGA
* * *
101254 GTCTTATCTCCCTGAAAGAAGAGTGGAGCATATTCGTCTTCCCTTGGA
1 -TCTTATCTCCCTGAAAGAAAAGTGGAGCAGATTCTTCTTCCCTTGGA
* * * * *
101302 T-TTCTCTCTCTAAAAGAAGAGTGGAGCATATTC
1 TCTTATCTCCCTGAAAGAAAAGTGGAGCAGATTC
101335 ATTTTCTAAA
Statistics
Matches: 180, Mismatches: 39, Indels: 37
0.70 0.15 0.14
Matches are distributed among these distances:
46 31 0.17
47 59 0.33
48 10 0.06
49 3 0.02
53 3 0.02
54 9 0.05
55 63 0.35
56 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (47 bp):
TCTTATCTCCCTGAAAGAAAAGTGGAGCAGATTCTTCTTCCCTTGGA
Found at i:101192 original size:102 final size:101
Alignment explanation
Indices: 101043--101432 Score: 471
Period size: 102 Copynumber: 3.9 Consensus size: 101
101033 TTCCAATGAT
* * * *
101043 TTTC-CGAGTCTTATCTCCCTGATAGAAGAGTAGAGCAGATTCTTCTTCCCTTGGATCATATCTC
1 TTTCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTC
* *
101107 CCTGAAAGAAAAGTGGAGCAGATACGTTTTATAAAGA
66 CCTGAAAGAAGAGTGGAGCATAT-CGTTTTATAAAGA
* * * *
101144 TTTCTCGAGTCTTATCTCCATGAAAGAAAAGTGGAACAGATTCGTCTTCCCTTGGATTTTATCTC
1 TTTCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTC
*
101209 CCTGAAAGAAGAGTGGAGCATATCTGTTTTACAAAGA
66 CCTGAAAGAAGAGTGGAGCATATC-GTTTTATAAAGA
* *
101246 TTTCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCATATTCGTCTTCCCTTGGAT-TTCTCTC
1 TTTCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTC
* * * * *
101310 TCTAAAAGAAGAGTGGAGCATATTCATTTTCTAAAGG
66 CCTGAAAGAAGAGTGGAGCATA-TCGTTTTATAAAGA
* * * * * * * * * *
101347 TTTCTTGGGTATTGTCTCCTTGAAAGAATACTGGAGCAAATTCGTCTTCCC-TCGAGTCTTATTT
1 TTTCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGA-TCTTATCT
101411 CCCTGAAAGAAGAGTGGAGCAT
65 CCCTGAAAGAAGAGTGGAGCAT
101433 GCTCGTCTTC
Statistics
Matches: 249, Mismatches: 35, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
100 3 0.01
101 83 0.33
102 163 0.65
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (101 bp):
TTTCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGATTCGTCTTCCCTTGGATCTTATCTC
CCTGAAAGAAGAGTGGAGCATATCGTTTTATAAAGA
Found at i:101418 original size:203 final size:203
Alignment explanation
Indices: 101043--101432 Score: 514
Period size: 203 Copynumber: 1.9 Consensus size: 203
101033 TTCCAATGAT
* *
101043 TTTCCGAGTCTTATCTCCCTGATAGAAGAGTAGAGCAGATTCTTCTTCCCTTGGATCATATCTCC
1 TTTCCGAGTCTTATCTCCCTGAAAGAAGAGTAGAGCAGATTCGTCTTCCCTTGGATCATATCTCC
* * *
101108 CTGAAAGAAAAGTGGAGCAGATACGTTTTATAAAGATTTCTCGAGTCTTATCTCCATGAAAGAAA
66 CTAAAAGAAAAGTGGAGCAGATACATTTTATAAAGATTTCTCGAGTATTATCTCCATGAAAGAAA
* * * *
101173 AGTGGAACAGATTCGTCTTCCCTTGGATTTTATCTCCCTGAAAGAAGAGTGGAGCATATCTGTTT
131 ACTGGAACAAATTCGTCTTCCCTCGGATCTTATCTCCCTGAAAGAAGAGTGGAGCATATCTGTTT
101238 TACAAAGA
196 TACAAAGA
* * * *
101246 TTTCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCATATTCGTCTTCCCTTGGAT-TTCTCTC
1 TTTC-CGAGTCTTATCTCCCTGAAAGAAGAGTAGAGCAGATTCGTCTTCCCTTGGATCATATCTC
* * * * * * * * * *
101310 TCTAAAAGAAGAGTGGAGCATATTCATTTTCTAAAGGTTTCTTGGGTATTGTCTCCTTGAAAGAA
65 CCTAAAAGAAAAGTGGAGCAGATACATTTTATAAAGATTTCTCGAGTATTATCTCCATGAAAGAA
* * *
101375 TACTGGAGCAAATTCGTCTTCCCTC-GAGTCTTATTTCCCTGAAAGAAGAGTGGAGCAT
130 AACTGGAACAAATTCGTCTTCCCTCGGA-TCTTATCTCCCTGAAAGAAGAGTGGAGCAT
101433 GCTCGTCTTC
Statistics
Matches: 159, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
202 2 0.01
203 109 0.69
204 48 0.30
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (203 bp):
TTTCCGAGTCTTATCTCCCTGAAAGAAGAGTAGAGCAGATTCGTCTTCCCTTGGATCATATCTCC
CTAAAAGAAAAGTGGAGCAGATACATTTTATAAAGATTTCTCGAGTATTATCTCCATGAAAGAAA
ACTGGAACAAATTCGTCTTCCCTCGGATCTTATCTCCCTGAAAGAAGAGTGGAGCATATCTGTTT
TACAAAGA
Found at i:101664 original size:12 final size:12
Alignment explanation
Indices: 101630--101660 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
101620 TCGTCCTTTA
101630 TTATTATTATTT
1 TTATTATTATTT
101642 TTATTATTATTT
1 TTATTATTATTT
101654 TT-TTATT
1 TTATTATT
101661 TATTGAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:101664 original size:15 final size:15
Alignment explanation
Indices: 101626--101660 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
101616 ATTTTCGTCC
101626 TTTATTATTATTATT
1 TTTATTATTATTATT
101641 TTTATTATTATT-TT
1 TTTATTATTATTATT
101655 TTTATT
1 TTTATT
101661 TATTGAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATTATTATTATT
Found at i:102866 original size:2 final size:2
Alignment explanation
Indices: 102859--102918 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
102849 GTAATTAACA
102859 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
102901 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
102919 TGGGTAAATC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105868 original size:29 final size:29
Alignment explanation
Indices: 105807--105890 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 29
105797 ATGAATCCTT
** * **
105807 GGTCGCCCCGAGTGCATGGCGACCTCCTT
1 GGTCGCCGGGAGTGCATGGCGACCTACGA
* *
105836 GGTCGCCGGGCGTGCATGGCGACCTAGGA
1 GGTCGCCGGGAGTGCATGGCGACCTACGA
*
105865 GGTCGCTGGGAGTGCATGGCGACCTA
1 GGTCGCCGGGAGTGCATGGCGACCTA
105891 TGGTTGGGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.13, C:0.30, G:0.39, T:0.18
Consensus pattern (29 bp):
GGTCGCCGGGAGTGCATGGCGACCTACGA
Found at i:107999 original size:2 final size:2
Alignment explanation
Indices: 107992--108096 Score: 60
Period size: 2 Copynumber: 55.0 Consensus size: 2
107982 GTGTTTAAAG
* * * * *
107992 TC TC TC TC CC CC TC TC -C CC TC TC TC T- TC -C CC TC TC CC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * *
108031 -C TC TC TC TT TC CC TC TC CC TC CC TC ATC -C TC TC TC TC CC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC -TC TC TC TC TC TC TC TC
*
108072 T- TC TT TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
108097 CCTCCCTCCC
Statistics
Matches: 78, Mismatches: 18, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
1 6 0.08
2 70 0.90
3 2 0.03
ACGTcount: A:0.01, C:0.57, G:0.00, T:0.42
Consensus pattern (2 bp):
TC
Found at i:108015 original size:17 final size:18
Alignment explanation
Indices: 107992--108072 Score: 65
Period size: 21 Copynumber: 4.2 Consensus size: 18
107982 GTGTTTAAAG
107992 TCTCTCTCCCCCTCTCCCC
1 TCTCTCT-CCCCTCTCCCC
108011 TCTCTCTTCCCCTCTCCCTCC
1 TCTCTC-TCCCCTCT-CC-CC
*
108032 TCTCTCTTTCCCTCT-CCC
1 TCTCTC-TCCCCTCTCCCC
* *
108050 TCCCTCATCCTCTCTCTCCC
1 TCTCTC-TCCCCTCTC-CCC
108070 TCT
1 TCT
108073 TCTTTCTCTC
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
18 13 0.25
19 14 0.27
20 8 0.16
21 16 0.31
ACGTcount: A:0.01, C:0.60, G:0.00, T:0.38
Consensus pattern (18 bp):
TCTCTCTCCCCTCTCCCC
Found at i:108016 original size:19 final size:19
Alignment explanation
Indices: 107992--108095 Score: 86
Period size: 19 Copynumber: 5.4 Consensus size: 19
107982 GTGTTTAAAG
*
107992 TCTCTCTCCCCCTCTCCCC
1 TCTCTCTTCCCCTCTCCCC
108011 TCTCTCTTCCCCTCTCCCTCC
1 TCTCTCTTCCCCTCT-CC-CC
*
108032 TCTCTCTTTCCCTCT-CCC
1 TCTCTCTTCCCCTCTCCCC
* * *
108050 TCCCTCATCCTCTCTCTCCC
1 TCTCTCTTCCCCTCTC-CCC
* * *
108070 TCT-TCTTTCTCTCTCTCTC
1 TCTCTCTTCCCCTCTC-CCC
108089 TCTCTCT
1 TCTCTCT
108096 CCCTCCCTCC
Statistics
Matches: 70, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
18 13 0.19
19 31 0.44
20 10 0.14
21 16 0.23
ACGTcount: A:0.01, C:0.57, G:0.00, T:0.42
Consensus pattern (19 bp):
TCTCTCTTCCCCTCTCCCC
Found at i:108033 original size:21 final size:21
Alignment explanation
Indices: 107992--108052 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
107982 GTGTTTAAAG
*
107992 TCTCTCTCCCCCTCT-CC-CC
1 TCTCTCTTCCCCTCTCCCTCC
108011 TCTCTCTTCCCCTCTCCCTCC
1 TCTCTCTTCCCCTCTCCCTCC
*
108032 TCTCTCTTTCCCTCTCCCTCC
1 TCTCTCTTCCCCTCTCCCTCC
108053 CTCATCCTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.37
20 2 0.05
21 22 0.58
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (21 bp):
TCTCTCTTCCCCTCTCCCTCC
Found at i:108077 original size:37 final size:35
Alignment explanation
Indices: 108001--108110 Score: 103
Period size: 39 Copynumber: 2.9 Consensus size: 35
107991 GTCTCTCTCC
*
108001 CCCTCTCCCCTCTCTCTTCCCCTCTCCCTCCTCTCTCTTT
1 CCCTCT-CCCTCTCTC-T-CCCTCTCTC-CCTCT-TCTTT
*
108041 CCCTCTCCCTCCCTCATCCTCTCTCTCCCTCTTCTTT
1 CCCTCTCCCTCTCTC-TCC-CTCTCTCCCTCTTCTTT
* *
108078 CTCTCTCTCTCTCTCTCTCCCTCCCTCCCTCTT
1 C-C-CTCTCCCTCTCTCTCCCTCTCTCCCTCTT
108111 TGATCTTTTA
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
37 18 0.30
38 11 0.18
39 26 0.43
40 6 0.10
ACGTcount: A:0.01, C:0.58, G:0.00, T:0.41
Consensus pattern (35 bp):
CCCTCTCCCTCTCTCTCCCTCTCTCCCTCTTCTTT
Found at i:115424 original size:41 final size:40
Alignment explanation
Indices: 115321--115421 Score: 143
Period size: 42 Copynumber: 2.5 Consensus size: 40
115311 TATATATATG
*
115321 TAATTA-AAATATATTATTTAATTATTAAAATATAAAAAA
1 TAATTATAAATATATTATTTAACTATTAAAATATAAAAAA
*
115360 TTATTATAAAGTATATTAATTTAACCT-TTAAAATATAAAAAA
1 TAATTATAAA-TATATT-ATTTAA-CTATTAAAATATAAAAAA
115402 TAATTATAAATATATTATTT
1 TAATTATAAATATATTATTT
115422 TAAAAAATAA
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
39 5 0.09
40 7 0.13
41 12 0.22
42 30 0.55
43 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (40 bp):
TAATTATAAATATATTATTTAACTATTAAAATATAAAAAA
Found at i:119380 original size:2 final size:2
Alignment explanation
Indices: 119373--119401 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
119363 TAATTAGCAA
119373 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
119402 ATTTCTTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:123170 original size:2 final size:2
Alignment explanation
Indices: 123163--123220 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
123153 TAATTAAATT
123163 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
*
123205 TA TA TA T- TA GA TA TA T
1 TA TA TA TA TA TA TA TA T
123221 TTTATAGTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:127030 original size:3 final size:3
Alignment explanation
Indices: 127022--127046 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
127012 CTCAAACCCT
127022 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
127047 AGATCTCCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:127774 original size:14 final size:15
Alignment explanation
Indices: 127744--127785 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
127734 CAAAATGTAA
**
127744 AAGAAAAACAATGAT
1 AAGAAAAACAAAAAT
127759 AA-AAAAACAAAAAT
1 AAGAAAAACAAAAAT
*
127773 AAGAAAAATAAAA
1 AAGAAAAACAAAA
127786 TCAACATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.79, C:0.05, G:0.07, T:0.10
Consensus pattern (15 bp):
AAGAAAAACAAAAAT
Found at i:129467 original size:9 final size:9
Alignment explanation
Indices: 129453--129478 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
129443 CTAAATGTAT
129453 AATTTTATA
1 AATTTTATA
129462 AATTTTATA
1 AATTTTATA
129471 AATTTTAT
1 AATTTTAT
129479 TAACTGTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
AATTTTATA
Found at i:130082 original size:21 final size:21
Alignment explanation
Indices: 130058--130097 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
130048 GGTTATGAAG
* *
130058 TTATGTTTTAGGGTTTAAGAT
1 TTATATTTTAGGATTTAAGAT
*
130079 TTATATTTTATGATTTAAG
1 TTATATTTTAGGATTTAAG
130098 TTAGGGGTAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (21 bp):
TTATATTTTAGGATTTAAGAT
Found at i:130918 original size:32 final size:32
Alignment explanation
Indices: 130851--130919 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
130841 AAACACTCAC
* *
130851 TTTTATTAATGAGTTTGCCTTTTGAATTCTAA
1 TTTTATTAATGAGTTCGCCTTTTGAATTCAAA
*
130883 TTTTATTAATGAGTTCGCCTTTTGGATT-AAGA
1 TTTTATTAATGAGTTCGCCTTTTGAATTCAA-A
130915 TTTTA
1 TTTTA
130920 AAATTTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 1 0.03
32 32 0.97
ACGTcount: A:0.25, C:0.09, G:0.14, T:0.52
Consensus pattern (32 bp):
TTTTATTAATGAGTTCGCCTTTTGAATTCAAA
Found at i:131648 original size:6 final size:6
Alignment explanation
Indices: 131639--131670 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
131629 CTAATTAAGT
131639 ATATTA ATATTA ATATTA ATATTA ATGATTA A
1 ATATTA ATATTA ATATTA ATATTA AT-ATTA A
131671 GACAAGGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (6 bp):
ATATTA
Found at i:135498 original size:59 final size:60
Alignment explanation
Indices: 135382--135518 Score: 222
Period size: 60 Copynumber: 2.3 Consensus size: 60
135372 AGTAAACTGC
*
135382 TCAATGACCAAAATAAGAAATATAAAAAATAAAAGTGATCAAAATGTAACCTTTTCAAAA
1 TCAATGACCAAAATAAGAAAGATAAAAAATAAAAGTGATCAAAATGTAACCTTTTCAAAA
* *
135442 TCAATGAACAAAATAAGAAAGATAAAAAATAAAAGTGATC-AAATGTAACTTTTTCAAAA
1 TCAATGACCAAAATAAGAAAGATAAAAAATAAAAGTGATCAAAATGTAACCTTTTCAAAA
* *
135501 TCAGTGACCGAAATAAGA
1 TCAATGACCAAAATAAGA
135519 TAGACGGAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 33 0.46
60 38 0.54
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.23
Consensus pattern (60 bp):
TCAATGACCAAAATAAGAAAGATAAAAAATAAAAGTGATCAAAATGTAACCTTTTCAAAA
Found at i:137806 original size:21 final size:21
Alignment explanation
Indices: 137776--137825 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
137766 AACTAGCCTG
137776 AGATGCATGGTAATAATCTTC
1 AGATGCATGGTAATAATCTTC
*
137797 AGATGTATGGTAATAATCTTC
1 AGATGCATGGTAATAATCTTC
137818 AGATGCAT
1 AGATGCAT
137826 ATGTTGAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (21 bp):
AGATGCATGGTAATAATCTTC
Found at i:140883 original size:36 final size:35
Alignment explanation
Indices: 140806--140903 Score: 115
Period size: 36 Copynumber: 2.8 Consensus size: 35
140796 AACACAGTCA
* *
140806 TCAATTACATTCTAAACCCCAAATTCCAAAATACT
1 TCAATTACATTATAAACCCCAAATTCAAAAATACT
* *
140841 TCAATTATATTATAAACCTCAAATTTCAAAAATACT
1 TCAATTACATTATAAACCCCAAA-TTCAAAAATACT
* * **
140877 TTAATTACATGACCAACCCCAAATTCA
1 TCAATTACATTATAAACCCCAAATTCA
140904 TAATCCATTC
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
35 24 0.46
36 28 0.54
ACGTcount: A:0.44, C:0.24, G:0.01, T:0.31
Consensus pattern (35 bp):
TCAATTACATTATAAACCCCAAATTCAAAAATACT
Done.