Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1546
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: 169418
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Found at i:662 original size:18 final size:17
Alignment explanation
Indices: 636--669 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
626 TTCAAATAAT
636 TTAAAATTTTTTAAATTA
1 TTAAAA-TTTTTAAATTA
*
654 TTAATATTTTTAAATT
1 TTAAAATTTTTAAATT
670 TGATTATAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTAAAATTTTTAAATTA
Found at i:5672 original size:20 final size:19
Alignment explanation
Indices: 5626--5682 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
5616 TTGTATCGAA
* *
5626 ACATTTTATCGATACATGT
1 ACATTGTATCGATACATGG
*
5645 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
5664 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
5683 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:10047 original size:20 final size:20
Alignment explanation
Indices: 10022--10059 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
10012 AAAATTTTTC
10022 AGAATGTATTGATACATTGA
1 AGAATGTATTGATACATTGA
10042 AGAATGTATTGATACATT
1 AGAATGTATTGATACATT
10060 TGAAAAATCC
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:0.39, C:0.05, G:0.18, T:0.37
Consensus pattern (20 bp):
AGAATGTATTGATACATTGA
Found at i:12624 original size:19 final size:19
Alignment explanation
Indices: 12581--12653 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
12571 CACACCCAGA
*
12581 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
12601 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
12620 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
12640 TGTATCGATACATG
1 TGTATCGATACATG
12654 AAACTAGCAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 17 0.35
20 30 0.62
21 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:12746 original size:33 final size:33
Alignment explanation
Indices: 12682--12749 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
12672 CTACCACTGT
* *
12682 TTGTATCGATACATGGTACATTATATTGATACA
1 TTGTATCGATACATGATACATTATATCGATACA
*
12715 TTGTATCGATACATGATGA-ATTGTATCGATACA
1 TTGTATCGATACATGAT-ACATTATATCGATACA
12748 TT
1 TT
12750 ACTTGTAACG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (33 bp):
TTGTATCGATACATGATACATTATATCGATACA
Found at i:20256 original size:17 final size:17
Alignment explanation
Indices: 20219--20256 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
20209 CTTTCTTAGC
*
20219 ATTTTTTAAATATAATT
1 ATTTTTTAAATATAATA
20236 ATTTTTTAAAATATAA-A
1 ATTTTTT-AAATATAATA
20253 ATTT
1 ATTT
20257 ATGATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTTTTAAATATAATA
Found at i:25554 original size:22 final size:23
Alignment explanation
Indices: 25529--25577 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
25519 ATTCTTTAAA
25529 TAATATTATAAAT-TTTTTAT-AT
1 TAATATT-TAAATATTTTTATAAT
*
25551 TAATATTTATATATTTTTATAAT
1 TAATATTTAAATATTTTTATAAT
25574 TAAT
1 TAAT
25578 TTAATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 14 0.58
23 6 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TAATATTTAAATATTTTTATAAT
Found at i:25566 original size:23 final size:22
Alignment explanation
Indices: 25529--25577 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
25519 ATTCTTTAAA
25529 TAATATTATAAATTTTT-TATAT
1 TAATATTATAAATTTTTATA-AT
*
25551 TAATATTTATATATTTTTATAAT
1 TAATA-TTATAAATTTTTATAAT
25574 TAAT
1 TAAT
25578 TTAATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 5 0.21
23 17 0.71
24 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TAATATTATAAATTTTTATAAT
Found at i:27618 original size:19 final size:20
Alignment explanation
Indices: 27596--27641 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
27586 GTTCTTTTAA
*
27596 AAGAATAGTAA-TTTTTTTT
1 AAGAATAGTAAGTTTTATTT
*
27615 AAG-AGAGTAAGTTTTATTT
1 AAGAATAGTAAGTTTTATTT
*
27634 AAAAATAG
1 AAGAATAG
27642 AATAATTAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
18 6 0.29
19 12 0.57
20 3 0.14
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.41
Consensus pattern (20 bp):
AAGAATAGTAAGTTTTATTT
Found at i:32005 original size:484 final size:485
Alignment explanation
Indices: 31096--32063 Score: 1857
Period size: 484 Copynumber: 2.0 Consensus size: 485
31086 AGGGACGATT
31096 GAAATATATCTCATAATTATCCTTGATTATCCGAAAAATAACCAAATTAATAATATTAGAGACGT
1 GAAATATATCTCATAATTATCCTTGATTATCCGAAAAATAACCAAATTAATAATATTAGAGACGT
31161 GTCTGGATTTATTGATCGATTAAAGTTCAAAGACAGACATAACTTAAAATTTGGGAGAGAGAAAA
66 GTCTGGATTTATTGATCGATTAAAGTTCAAAGACAGACATAACTTAAAATTTGGGAGAGAGAAAA
*
31226 TGATTTAATTTTTTTATTGAAAAACGGGGTTGGAGTATCCCCTCGAAAGAATGGGGTTGAAGTAT
131 TGATTTAATTTTTTTATTGAAAAACGGGATTGGAGTATCCCCTCGAAAGAATGGGGTTGAAGTAT
31291 ACCCGATGATAATAATTTAAGCGAAAATAAGATATAAATTTTGATGATTTTAAAAGTGGGGTTAG
196 ACCCGATGATAATAATTTAAGCGAAAATAAGATATAAATTTTGATGATTTTAAAAGTGGGGTTAG
*
31356 AATATCCCTGGTAGATAAAAATTTTAATTCTTTTTTATAAAGAAAATTAATGTGAATGAGGATGG
261 AATATCCCCGGTAGATAAAAATTTTAATTCTTTTTTATAAAGAAAATTAATGTGAATGAGGATGG
31421 TAAAACTGTAAAAGTGTTTGTGCCTTGACATAGTCCCGAGGGAAGTTCAAAAAAGGTTTTGAGAT
326 TAAAACTGTAAAAGTGTTTGTGCCTTGACATAGTCCCGAGGGAAGTTCAAAAAAGGTTTTGAGAT
*
31486 TGATCGGGGTTGTATGGAGACATCCGAATTTCTCGAGATGAAATCAGGGAAAACAAACCAATTTT
391 TGATCGGGGTTGTATGAAGACATCCGAATTTCTCGAGATGAAATCAGGGAAAACAAACCAATTTT
31551 GGCAGTAATCGAAAATATGAGACAGCATCC
456 GGCAGTAATCGAAAATATGAGACAGCATCC
* *
31581 GAAATATATCTCATAATTATCCTTGATTATCTGAAAAATAACCAAATTAATAATATTGGAGACGT
1 GAAATATATCTCATAATTATCCTTGATTATCCGAAAAATAACCAAATTAATAATATTAGAGACGT
*
31646 GTCTGGATTTATTGATTGATTAAAGTTCAAAGACAGACATAACTTAAAATTTGGGAGAGAGAAAA
66 GTCTGGATTTATTGATCGATTAAAGTTCAAAGACAGACATAACTTAAAATTTGGGAGAGAGAAAA
31711 TGATTTAA-TTTTTTATTGAAAAACGGGATTGGAGTATCCCCTCGAAAGAATGGGGTTGAAGTAT
131 TGATTTAATTTTTTTATTGAAAAACGGGATTGGAGTATCCCCTCGAAAGAATGGGGTTGAAGTAT
31775 ACCCGATGATAATAATTTAAGCGAAAATAAGATATAAATTTTGATGATTTTAAAAGTGGGGTTAG
196 ACCCGATGATAATAATTTAAGCGAAAATAAGATATAAATTTTGATGATTTTAAAAGTGGGGTTAG
*
31840 AGTATCCCCGGTAGATAAAAATTTTAATTCTTTTTTATAAAGAAAATTAATGTGAATGAGGATGG
261 AATATCCCCGGTAGATAAAAATTTTAATTCTTTTTTATAAAGAAAATTAATGTGAATGAGGATGG
31905 TAAAACTGTAAAAGTGTTTGTGCCTTGACATAGTCCCGAGGGAAGTTCAAAAAAGGTTTTGAGAT
326 TAAAACTGTAAAAGTGTTTGTGCCTTGACATAGTCCCGAGGGAAGTTCAAAAAAGGTTTTGAGAT
31970 TGATCGGGGTTGTATGAAGACATCCGAATTTCTCGAGATGAAATCAGGGAAAACAAACCAATTTT
391 TGATCGGGGTTGTATGAAGACATCCGAATTTCTCGAGATGAAATCAGGGAAAACAAACCAATTTT
*
32035 GGCAGTAATCGAAAATATGGGACAGCATC
456 GGCAGTAATCGAAAATATGAGACAGCATC
32064 ATGCTGTTCC
Statistics
Matches: 475, Mismatches: 8, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
484 340 0.72
485 135 0.28
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.31
Consensus pattern (485 bp):
GAAATATATCTCATAATTATCCTTGATTATCCGAAAAATAACCAAATTAATAATATTAGAGACGT
GTCTGGATTTATTGATCGATTAAAGTTCAAAGACAGACATAACTTAAAATTTGGGAGAGAGAAAA
TGATTTAATTTTTTTATTGAAAAACGGGATTGGAGTATCCCCTCGAAAGAATGGGGTTGAAGTAT
ACCCGATGATAATAATTTAAGCGAAAATAAGATATAAATTTTGATGATTTTAAAAGTGGGGTTAG
AATATCCCCGGTAGATAAAAATTTTAATTCTTTTTTATAAAGAAAATTAATGTGAATGAGGATGG
TAAAACTGTAAAAGTGTTTGTGCCTTGACATAGTCCCGAGGGAAGTTCAAAAAAGGTTTTGAGAT
TGATCGGGGTTGTATGAAGACATCCGAATTTCTCGAGATGAAATCAGGGAAAACAAACCAATTTT
GGCAGTAATCGAAAATATGAGACAGCATCC
Found at i:34333 original size:13 final size:13
Alignment explanation
Indices: 34315--34340 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34305 CAGGGTGGTT
34315 TTGTATCGATACA
1 TTGTATCGATACA
34328 TTGTATCGATACA
1 TTGTATCGATACA
34341 AAACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:36149 original size:54 final size:55
Alignment explanation
Indices: 35951--36207 Score: 216
Period size: 54 Copynumber: 4.7 Consensus size: 55
35941 TTTGATAGAA
* * * * ** * *
35951 GTGACTTGGTGTCATTGATAATGATGCCCTAATGGCGATTAGAATTTGGGT-AAG
1 GTGACTTGGTGTCAGTGATAGTGATGTCATGGTGGCGATCAAAATTTGGGTAAAG
* * * * *
36005 TGTGACTTGGCGTCAATGATAAG-GATGCCATGGTGGCGATCAAAATTT-AGTAAAT
1 -GTGACTTGGTGTCAGTGAT-AGTGATGTCATGGTGGCGATCAAAATTTGGGTAAAG
* ** * **
36060 ATGACTTGACGTTAGTGATAGTGATGTTGTGGTGGCGATCAAAATTT-GGTAAAG
1 GTGACTTGGTGTCAGTGATAGTGATGTCATGGTGGCGATCAAAATTTGGGTAAAG
* * * * **
36114 GTTACTTGGTGTCAGTGATAGTGATGTCATAGTGGCGATTAGAATTTGGGTAGTG
1 GTGACTTGGTGTCAGTGATAGTGATGTCATGGTGGCGATCAAAATTTGGGTAAAG
* * *
36169 GTGACTTAGTGTCATTGATAATGATGTCATGGTGGCGAT
1 GTGACTTGGTGTCAGTGATAGTGATGTCATGGTGGCGAT
36208 TAGAACTTGA
Statistics
Matches: 162, Mismatches: 36, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
53 2 0.01
54 81 0.50
55 78 0.48
56 1 0.01
ACGTcount: A:0.26, C:0.10, G:0.31, T:0.33
Consensus pattern (55 bp):
GTGACTTGGTGTCAGTGATAGTGATGTCATGGTGGCGATCAAAATTTGGGTAAAG
Found at i:36265 original size:163 final size:163
Alignment explanation
Indices: 35954--36270 Score: 361
Period size: 163 Copynumber: 1.9 Consensus size: 163
35944 GATAGAAGTG
* * *
35954 ACTTGGTGTCATTGATAATGATGCCCTAATGGCGATTAGAATTTGGGTAAGTGTGACTTGGCGTC
1 ACTTGGTGTCAGTGATAATGATGCCATAATGGCGATTAGAATTTGGGTAAGTGTGACTTAGCGTC
* ** * *
36019 AATGATAAGGATGCCATGGTGGCGATCAAAATTTAGTAAATATGACTTGACGTTAGTGATAGTGA
66 AATGATAAGGATGCCATGGTGGCGATCAAAATTGAGTAAATATGACTTGACGCCACTGATAATGA
*** * *
36084 TGTTGTGGTGGCGATCAAAATTTGGTAAAGGTT
131 TGCCATGATGACGATCAAAATTTGGTAAAGGTT
* * * *
36117 ACTTGGTGTCAGTGATAGTGATGTCATAGTGGCGATTAGAATTTGGGT-AGTGGTGACTTAGTGT
1 ACTTGGTGTCAGTGATAATGATGCCATAATGGCGATTAGAATTTGGGTAAGT-GTGACTTAGCGT
* * * * * **
36181 CATTGATAATGATGTCATGGTGGCGATTAGAACTTGA-T-AATAATGACTTGGTGCCACTGATAA
65 CAATGATAAGGATGCCATGGTGGCGATCA-AAATTGAGTAAAT-ATGACTTGACGCCACTGATAA
*
36244 TGATGCCATGATGATGATCAAAATTTG
128 TGATGCCATGATGACGATCAAAATTTG
36271 ATAGTAGTGA
Statistics
Matches: 126, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
162 6 0.05
163 115 0.91
164 5 0.04
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.33
Consensus pattern (163 bp):
ACTTGGTGTCAGTGATAATGATGCCATAATGGCGATTAGAATTTGGGTAAGTGTGACTTAGCGTC
AATGATAAGGATGCCATGGTGGCGATCAAAATTGAGTAAATATGACTTGACGCCACTGATAATGA
TGCCATGATGACGATCAAAATTTGGTAAAGGTT
Found at i:40267 original size:25 final size:25
Alignment explanation
Indices: 40233--40283 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
40223 TGCTAGGTTG
40233 ACAAGGCTGTTTCTATTGAGATTCA
1 ACAAGGCTGTTTCTATTGAGATTCA
*
40258 ACAAGGCTGTTTTTATTGAGATTCA
1 ACAAGGCTGTTTCTATTGAGATTCA
40283 A
1 A
40284 TTATCTACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (25 bp):
ACAAGGCTGTTTCTATTGAGATTCA
Found at i:41578 original size:17 final size:17
Alignment explanation
Indices: 41558--41591 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
41548 TTTGTAACTC
41558 CTAAAAAATCTAAGATT
1 CTAAAAAATCTAAGATT
* *
41575 CTAAGAAATCTATGATT
1 CTAAAAAATCTAAGATT
41592 TATTCTAATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (17 bp):
CTAAAAAATCTAAGATT
Found at i:43887 original size:18 final size:18
Alignment explanation
Indices: 43866--43924 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
43856 TAAGATTACA
* *
43866 AAAATATATGATTTTTAG
1 AAAATTTATGATTCTTAG
*
43884 AAAATTTATGATTCCTA-
1 AAAATTTATGATTCTTAG
43901 AAAATTTAATGATTCTTAG
1 AAAATTT-ATGATTCTTAG
43920 AAAAT
1 AAAAT
43925 CTAAAATGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
17 7 0.20
18 23 0.66
19 5 0.14
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (18 bp):
AAAATTTATGATTCTTAG
Found at i:47575 original size:14 final size:13
Alignment explanation
Indices: 47539--47577 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
47529 TTTAAGTAAA
47539 TTTATAAAATAAT
1 TTTATAAAATAAT
* *
47552 TTTTTAAAATTAT
1 TTTATAAAATAAT
47565 GTTTATAAAATAA
1 -TTTATAAAATAA
47578 AACTAATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (13 bp):
TTTATAAAATAAT
Found at i:47806 original size:21 final size:20
Alignment explanation
Indices: 47764--47813 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
47754 AGTTTATATT
* *
47764 TATTTAATTATAATTTACTTA
1 TATTT-ATTTTAATTTAATTA
*
47785 TTTTTATTTTAATATTAATTA
1 TATTTATTTTAAT-TTAATTA
47806 TATTTATT
1 TATTTATT
47814 ATTTTAGCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTTATTTTAATTTAATTA
Found at i:54011 original size:24 final size:24
Alignment explanation
Indices: 53984--54040 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
53974 TATAAAAGTA
* *
53984 AAATTAATCTGAAA-TTAAATATAT
1 AAATTAATATCAAATTTAAATAT-T
*
54008 AAATAAATATCAAATTTAAATATT
1 AAATTAATATCAAATTTAAATATT
54032 AAATATAAT
1 AAAT-TAAT
54041 GTTTTTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATTAATATCAAATTTAAATATT
Found at i:54224 original size:32 final size:33
Alignment explanation
Indices: 54185--54249 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
54175 TTAAGTTAGA
**
54185 TTATTTTAGTTTTAAA-TTATTTTAAGTTTAAG
1 TTATTTTAAATTTAAATTTATTTTAAGTTTAAG
* *
54217 TTATTTTAAATTTAAATTTTTTTTATGTTTAAG
1 TTATTTTAAATTTAAATTTATTTTAAGTTTAAG
54250 AACTATTTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (33 bp):
TTATTTTAAATTTAAATTTATTTTAAGTTTAAG
Found at i:54239 original size:16 final size:16
Alignment explanation
Indices: 54184--54238 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
54174 TTTAAGTTAG
**
54184 ATTATTTTAGTTTTAA
1 ATTATTTTAAATTTAA
*
54200 ATTATTTTAAGTTTAA
1 ATTATTTTAAATTTAA
*
54216 GTTATTTTAAATTTAA
1 ATTATTTTAAATTTAA
54232 ATT-TTTT
1 ATTATTTT
54239 TTATGTTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 4 0.12
16 30 0.88
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (16 bp):
ATTATTTTAAATTTAA
Found at i:61079 original size:18 final size:19
Alignment explanation
Indices: 61048--61084 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
61038 TTCCAGGCCA
61048 CTCATTTTCTTTTT-TTTT
1 CTCATTTTCTTTTTCTTTT
61066 CTCATTTT-TGTTTTCTTTT
1 CTCATTTTCT-TTTTCTTTT
61085 TGATTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.06
18 12 0.71
19 4 0.24
ACGTcount: A:0.05, C:0.16, G:0.03, T:0.76
Consensus pattern (19 bp):
CTCATTTTCTTTTTCTTTT
Found at i:61084 original size:11 final size:11
Alignment explanation
Indices: 61052--61099 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
61042 AGGCCACTCA
*
61052 TTTTCTTTTTT
1 TTTTCTTTTTG
61063 TTTCTCATTTTTG
1 TTT-TC-TTTTTG
61076 TTTTCTTTTTG
1 TTTTCTTTTTG
* *
61087 ATTTGTTTTTG
1 TTTTCTTTTTG
61098 TT
1 TT
61100 AGTTTATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 19 0.61
12 4 0.13
13 8 0.26
ACGTcount: A:0.04, C:0.08, G:0.08, T:0.79
Consensus pattern (11 bp):
TTTTCTTTTTG
Found at i:63653 original size:59 final size:57
Alignment explanation
Indices: 63501--63672 Score: 177
Period size: 59 Copynumber: 2.9 Consensus size: 57
63491 TTTCTCCTTT
* *
63501 TAATTTATTTTTATCTAACGAAGAAAAAGAAAACACAAAGAAAAAATTTATTGTTTCTCCTCC
1 TAATTTATTTTTACCTAA-GAAGAAAAAG-AAACACAAGGAAAAAA-TTA-T-TTT-TCCTCC
* * * *
63564 TAATTTATTTTTGCCGAACAA-AGAAA-AAACACAAGGAAAAAATTATTTTTCCTCC
1 TAATTTATTTTTACCTAAGAAGAAAAAGAAACACAAGGAAAAAATTATTTTTCCTCC
* * *
63619 TAATTTATTTCTACCTAATGAAGAAAAAGGAAACACAAGAAAAAAAATATTTTT
1 TAATTTATTTTTACCTAA-GAAGAAAAA-GAAACACAAGGAAAAAATTATTTTT
63673 TCTTCTACTC
Statistics
Matches: 92, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
55 21 0.23
56 5 0.05
57 5 0.05
58 3 0.03
59 37 0.40
61 4 0.04
62 2 0.02
63 15 0.16
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (57 bp):
TAATTTATTTTTACCTAAGAAGAAAAAGAAACACAAGGAAAAAATTATTTTTCCTCC
Found at i:65971 original size:24 final size:22
Alignment explanation
Indices: 65944--65998 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
65934 ATTTATGACT
*
65944 TAAGAATAACAATATTTTATAATA
1 TAAGAATAA-AA-ATTTTATAAAA
** *
65968 TAAGTCTTAAAATTTTATAAAA
1 TAAGAATAAAAATTTTATAAAA
65990 TAAGAATAA
1 TAAGAATAA
65999 TATAAATTCA
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
22 16 0.67
23 2 0.08
24 6 0.25
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (22 bp):
TAAGAATAAAAATTTTATAAAA
Found at i:68832 original size:23 final size:21
Alignment explanation
Indices: 68781--68835 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 21
68771 TTATTAAAAA
68781 TTATAATTTTTATATTTATTTT
1 TTAT-ATTTTTATATTTATTTT
* *
68803 TAAATATTATTTATTATTTGTTTT
1 T-TATATT-TTTA-TATTTATTTT
68827 TTATATTTT
1 TTATATTTT
68836 GATAAAACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
22 6 0.22
23 11 0.41
24 10 0.37
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (21 bp):
TTATATTTTTATATTTATTTT
Found at i:74778 original size:8 final size:8
Alignment explanation
Indices: 74765--74871 Score: 53
Period size: 8 Copynumber: 13.2 Consensus size: 8
74755 ATCAATAATT
74765 ATATATAA
1 ATATATAA
74773 ATATATTAAA
1 ATATA-T-AA
74783 ATATATATA
1 ATATATA-A
*
74792 A-AAATAA
1 ATATATAA
74799 AT-TATTAA
1 ATATA-TAA
*
74807 A-ATATTA
1 ATATATAA
*
74814 ATATATAT
1 ATATATAA
*
74822 ATATATAT
1 ATATATAA
74830 A-ATAT-A
1 ATATATAA
*
74836 ATATTTAA
1 ATATATAA
*
74844 ATATAATTA
1 ATAT-ATAA
* *
74853 TTAAATAAA
1 ATATAT-AA
74862 ATATATAA
1 ATATATAA
74870 AT
1 AT
74872 TACTAAATCT
Statistics
Matches: 74, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
6 1 0.01
7 13 0.18
8 40 0.54
9 13 0.18
10 7 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATATAA
Found at i:74849 original size:18 final size:17
Alignment explanation
Indices: 74783--74850 Score: 59
Period size: 18 Copynumber: 4.0 Consensus size: 17
74773 ATATATTAAA
* *
74783 ATATATATAAAAATAA-
1 ATATATTTAAATATAAT
*
74799 AT-TATTAAAATATTAAT
1 ATATATTTAAATA-TAAT
* *
74816 ATATATATATATATAAT
1 ATATATTTAAATATAAT
74833 ATAATATTTAAATATAAT
1 AT-ATATTTAAATATAAT
74851 TATTAAATAA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
15 7 0.17
16 5 0.12
17 8 0.20
18 20 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATATTTAAATATAAT
Found at i:74898 original size:14 final size:14
Alignment explanation
Indices: 74835--74901 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 14
74825 TATATAATAT
*
74835 AATATTTAAA-TAT
1 AATATTTAAATTAA
74848 AAT-TATTAAA-TAA
1 AATAT-TTAAATTAA
* *
74861 AATATATAAATTACT
1 AATATTTAAATTA-A
*
74876 AA-ATCTAAATTAA
1 AATATTTAAATTAA
74889 AATATTTAAATTA
1 AATATTTAAATTA
74902 TTATTTACTA
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
12 1 0.02
13 19 0.44
14 21 0.49
15 2 0.05
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATTTAAATTAA
Found at i:75268 original size:29 final size:28
Alignment explanation
Indices: 75235--75305 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 28
75225 TAACGGAGAA
*
75235 AATATTATAATTTTTATATTATTAAATTT
1 AATATTATAATATTTATATTATTAAA-TT
* *
75264 AATATTTTAATATTTATATTTTTAAATT
1 AATATTATAATATTTATATTATTAAATT
*
75292 AATAGTAATAATAT
1 AATA-TTATAATAT
75306 ATTAAAAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 6 0.17
29 30 0.83
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (28 bp):
AATATTATAATATTTATATTATTAAATT
Found at i:75284 original size:14 final size:14
Alignment explanation
Indices: 75236--75285 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
75226 AACGGAGAAA
* *
75236 ATATTATAATTTTT
1 ATATTTTAATATTT
75250 ATATTATTAA-ATTT
1 ATATT-TTAATATTT
75264 AATATTTTAATATTT
1 -ATATTTTAATATTT
75279 ATATTTT
1 ATATTTT
75286 TAAATTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 19 0.61
15 12 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATATTTTAATATTT
Found at i:75286 original size:15 final size:15
Alignment explanation
Indices: 75242--75288 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
75232 GAAAATATTA
* *
75242 TAATTTTTATATTAT
1 TAATATTTATATTTT
75257 TAA-ATTTA-ATATTT
1 TAATATTTATAT-TTT
75271 TAATATTTATATTTT
1 TAATATTTATATTTT
75286 TAA
1 TAA
75289 ATTAATAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 2 0.07
14 9 0.33
15 14 0.52
16 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TAATATTTATATTTT
Found at i:75557 original size:28 final size:28
Alignment explanation
Indices: 75513--75566 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
75503 CTTATTTATT
*
75513 GTAATTTTAAAAGTATATAAATTAAATA
1 GTAAATTTAAAAGTATATAAATTAAATA
75541 GTAAATTTAATAA-TATATAAATTAAA
1 GTAAATTTAA-AAGTATATAAATTAAA
75567 ATACTTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (28 bp):
GTAAATTTAAAAGTATATAAATTAAATA
Found at i:75744 original size:12 final size:11
Alignment explanation
Indices: 75723--75819 Score: 66
Period size: 10 Copynumber: 9.3 Consensus size: 11
75713 TCTTAAAATT
75723 AATATAATATA
1 AATATAATATA
75734 AATATTAATATA
1 AATA-TAATATA
*
75746 ACA-A-AATTTA
1 A-ATATAATATA
*
75756 CATA-AATATA
1 AATATAATATA
* *
75766 AA-AT-CTTTA
1 AATATAATATA
*
75775 AACATAAT-TA
1 AATATAATATA
75785 TAATATAATAT-
1 -AATATAATATA
75796 AATAT-ATATA
1 AATATAATATA
75806 AATATAATATA
1 AATATAATATA
75817 AAT
1 AAT
75820 TATTCAATTT
Statistics
Matches: 68, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
9 11 0.16
10 26 0.38
11 20 0.29
12 10 0.15
13 1 0.01
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (11 bp):
AATATAATATA
Found at i:75793 original size:5 final size:5
Alignment explanation
Indices: 75778--75817 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
75768 ATCTTTAAAC
75778 ATAATT ATAAT ATAAT ATAAT AT-AT ATAAAT ATAAT ATAA
1 ATAA-T ATAAT ATAAT ATAAT ATAAT AT-AAT ATAAT ATAA
75818 ATTATTCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.12
5 20 0.62
6 8 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:75809 original size:15 final size:15
Alignment explanation
Indices: 75644--75816 Score: 66
Period size: 15 Copynumber: 11.9 Consensus size: 15
75634 TTAATAACTT
*
75644 TAAATAAAAT-TATA
1 TAAATATAATATATA
*
75658 TGAATATAATATATA
1 TAAATATAATATATA
*
75673 TATATATAATACT-TA
1 TAAATATAATA-TATA
* *
75688 -ATAA-ACAATACGATA
1 TA-AATATAATA-TATA
* *
75703 TAAATA-CATATCT-
1 TAAATATAATATATA
75716 TAAA-ATTAATATAATA
1 TAAATA-TAATAT-ATA
75732 TAAATAT--TA-ATA
1 TAAATATAATATATA
* *
75744 TAACA-A-AATTTACA
1 TAA-ATATAATATATA
* * *
75758 TAAATATAAAATCTT
1 TAAATATAATATATA
*
75773 TAAACATAAT-TATAA
1 TAAATATAATATAT-A
75788 TATAATATAATATATA
1 TA-AATATAATATATA
75804 TAAATATAATATA
1 TAAATATAATATA
75817 AATTATTCAA
Statistics
Matches: 115, Mismatches: 24, Indels: 39
0.65 0.13 0.22
Matches are distributed among these distances:
12 8 0.07
13 7 0.06
14 30 0.26
15 48 0.42
16 18 0.16
17 4 0.03
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (15 bp):
TAAATATAATATATA
Found at i:77420 original size:22 final size:23
Alignment explanation
Indices: 77392--77440 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
77382 TATCGATATC
77392 AATATTTATCATAATTT-ATGAT
1 AATATTTATCATAATTTAATGAT
* * *
77414 AATATTTATTATATTTTAATTAT
1 AATATTTATCATAATTTAATGAT
77437 AATA
1 AATA
77441 AATATGATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
AATATTTATCATAATTTAATGAT
Found at i:78611 original size:32 final size:32
Alignment explanation
Indices: 78564--78630 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
78554 TATATTTAAA
*
78564 TAATTTTTTTTTCGATTTTTT-AAGTAAAAAT
1 TAATTTTTTTGTCGATTTTTTAAAGTAAAAAT
78595 TAATTTATTTTGTCGATTTTTTAAAGTAAAAAT
1 TAATTT-TTTTGTCGATTTTTTAAAGTAAAAAT
78628 TAA
1 TAA
78631 ATGTTAGAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
31 6 0.18
32 14 0.42
33 13 0.39
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (32 bp):
TAATTTTTTTGTCGATTTTTTAAAGTAAAAAT
Found at i:78616 original size:33 final size:31
Alignment explanation
Indices: 78564--78630 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 31
78554 TATATTTAAA
* *
78564 TAATTTTTTTTTCGATTTTTTAAGTAAAAAT
1 TAATTTTTTTGTCGATTTTTAAAGTAAAAAT
78595 TAATTTATTTTGTCGATTTTTTAAAGTAAAAAT
1 TAATTT-TTTTGTCGA-TTTTTAAAGTAAAAAT
78628 TAA
1 TAA
78631 ATGTTAGAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 6 0.19
32 8 0.25
33 18 0.56
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (31 bp):
TAATTTTTTTGTCGATTTTTAAAGTAAAAAT
Found at i:79263 original size:26 final size:26
Alignment explanation
Indices: 79231--79290 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
79221 AAATTCATTT
*
79231 AATTTAAATATATGAACATCAACACA
1 AATTTAAATAAATGAACATCAACACA
* * * *
79257 ATTTTAAATAAATGAATATGAGCACA
1 AATTTAAATAAATGAACATCAACACA
79283 AATTTAAA
1 AATTTAAA
79291 ATTCTTAACG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (26 bp):
AATTTAAATAAATGAACATCAACACA
Found at i:82012 original size:19 final size:19
Alignment explanation
Indices: 81988--82030 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
81978 GGGACGATTG
*
81988 AATATTTATGTATATATAA
1 AATATTTATATATATATAA
* *
82007 AATATTTATATTTATATAT
1 AATATTTATATATATATAA
82026 AATAT
1 AATAT
82031 AAATTATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
AATATTTATATATATATAA
Found at i:82042 original size:23 final size:21
Alignment explanation
Indices: 81998--82038 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
81988 AATATTTATG
*
81998 TATATATAAAATATTTATATT
1 TATATATAAAATAATTATATT
*
82019 TATATATAATATAAATTATA
1 TATATATAAAAT-AATTATA
82039 ATTTTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATATAAAATAATTATATT
Found at i:87613 original size:19 final size:21
Alignment explanation
Indices: 87575--87614 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
87565 GGATAACCAA
87575 AATTAAAAAGTAATAGTACAAC
1 AATTAAAAAG-AATAGTACAAC
87597 AATTAAAAA-AA-AGTACAA
1 AATTAAAAAGAATAGTACAA
87615 AGCCCAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
22 9 0.50
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.20
Consensus pattern (21 bp):
AATTAAAAAGAATAGTACAAC
Found at i:89780 original size:13 final size:15
Alignment explanation
Indices: 89752--89784 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
89742 ATTTAGACGT
89752 TTTAAGTTTAAATTA
1 TTTAAGTTTAAATTA
89767 TTTAA-TTT-AATTA
1 TTTAAGTTTAAATTA
89780 TTTAA
1 TTTAA
89785 ATCAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 3 0.17
15 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
TTTAAGTTTAAATTA
Found at i:89808 original size:24 final size:23
Alignment explanation
Indices: 89766--89810 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
89756 AGTTTAAATT
* *
89766 ATTTAATTTAATTATTTAAATCA
1 ATTTAATTAAATTAATTAAATCA
89789 ATTTAATTCAAATTAATTAAAT
1 ATTTAATT-AAATTAATTAAAT
89811 TAAAGTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTAATTAAATTAATTAAATCA
Found at i:95141 original size:13 final size:14
Alignment explanation
Indices: 95123--95151 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
95113 TTTAGGTATA
95123 TATCAA-ATATAAG
1 TATCAATATATAAG
95136 TATCAATATATAAG
1 TATCAATATATAAG
95150 TA
1 TA
95152 ATTTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (14 bp):
TATCAATATATAAG
Found at i:95624 original size:16 final size:16
Alignment explanation
Indices: 95605--95637 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
95595 TTAATTTTGA
95605 TATTAATATATTATGT
1 TATTAATATATTATGT
95621 TATTAATATATTATGT
1 TATTAATATATTATGT
95637 T
1 T
95638 TTTTTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
TATTAATATATTATGT
Found at i:95831 original size:14 final size:13
Alignment explanation
Indices: 95814--95843 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
95804 TTTTTATATA
95814 TTTTTTATTCTTCT
1 TTTTTTATTCTT-T
95828 TTTTTTATTCTTT
1 TTTTTTATTCTTT
95841 TTT
1 TTT
95844 AATTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTATTCTTT
Found at i:96732 original size:23 final size:23
Alignment explanation
Indices: 96706--96759 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
96696 TACTATAATT
96706 TTAAAAGTATAAAAAATA-AAATA
1 TTAAAA-TATAAAAAATAGAAATA
* *
96729 TT-AAATTTAATAAATAGAAATA
1 TTAAAATATAAAAAATAGAAATA
96751 TTAAAATAT
1 TTAAAATAT
96760 TTCTTTCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 9 0.35
22 10 0.38
23 7 0.27
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
TTAAAATATAAAAAATAGAAATA
Found at i:100313 original size:23 final size:23
Alignment explanation
Indices: 100287--100391 Score: 79
Period size: 23 Copynumber: 4.4 Consensus size: 23
100277 ACCATTATAT
100287 AAATATAATATATAAAATAATTA
1 AAATATAATATATAAAATAATTA
**
100310 AAATATAATATA-AATATATTTTTA
1 AAATATAATATATAA-A-ATAATTA
*
100334 AAATTTATATAATATAAAAT-ATTA
1 AAATATA-AT-ATATAAAATAATTA
* * * *
100358 ATATTATAATTTTTAAATTAATTA
1 A-AATATAATATATAAAATAATTA
*
100382 TAATATAATA
1 AAATATAATA
100392 AAATATATAA
Statistics
Matches: 63, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
22 2 0.03
23 26 0.41
24 21 0.33
25 8 0.13
26 4 0.06
27 2 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATATAATATATAAAATAATTA
Found at i:100343 original size:44 final size:40
Alignment explanation
Indices: 100295--100398 Score: 106
Period size: 41 Copynumber: 2.5 Consensus size: 40
100285 ATAAATATAA
100295 TATATAAAATAATTAAAATATAATATAAATATATTTTTAAAATT
1 TATATAAAATAA-TAAAATATAATAT-AATA-ATTTTT-AAATT
*
100339 TATAT--AAT-ATAAAATATTAATATTATAATTTTTAAATT
1 TATATAAAATAATAAAATA-TAATATAATAATTTTTAAATT
* *
100377 AATTATAATATAATAAAATATA
1 TA-TATAAAATAATAAAATATA
100399 TAAATATAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
38 6 0.12
39 9 0.17
40 10 0.19
41 11 0.21
42 11 0.21
44 5 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (40 bp):
TATATAAAATAATAAAATATAATATAATAATTTTTAAATT
Found at i:100370 original size:39 final size:40
Alignment explanation
Indices: 100303--100406 Score: 119
Period size: 39 Copynumber: 2.6 Consensus size: 40
100293 AATATATAAA
*
100303 ATAAT-TAAAATATAATATAAATATATTTTTAAAATTTA-T
1 ATAATATAAAATATAATATAAATATATTTTT-AAATTAATT
*
100342 ATAATATAAAATATTAATAT-TATA-ATTTTTAAATTAATT
1 ATAATATAAAATA-TAATATAAATATATTTTTAAATTAATT
*
100381 ATAATATAATAAAAT-ATATAAATATA
1 ATAATATAA-AATATAATATAAATATA
100407 ATACAAATAT
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
38 10 0.18
39 25 0.45
40 14 0.25
41 6 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (40 bp):
ATAATATAAAATATAATATAAATATATTTTTAAATTAATT
Found at i:100404 original size:18 final size:19
Alignment explanation
Indices: 100383--100422 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
100373 AATTAATTAT
100383 AATATAATA-AAATATATA
1 AATATAATACAAATATATA
100401 AATATAATACAAATATATA
1 AATATAATACAAATATATA
100420 AAT
1 AAT
100423 TATTTGATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
AATATAATACAAATATATA
Found at i:101666 original size:16 final size:15
Alignment explanation
Indices: 101645--101674 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
101635 TAATATCTAC
101645 ATAAATTATTATAAAT
1 ATAAATTA-TATAAAT
101661 ATAAATTATATAAA
1 ATAAATTATATAAA
101675 AATTTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAATTATATAAAT
Found at i:103873 original size:14 final size:14
Alignment explanation
Indices: 103851--103883 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
103841 TAATTTTCAT
103851 TAAAT-TTAATATA
1 TAAATATTAATATA
103864 TAAATATTAATATA
1 TAAATATTAATATA
*
103878 AAAATA
1 TAAATA
103884 ATATTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TAAATATTAATATA
Found at i:103885 original size:25 final size:25
Alignment explanation
Indices: 103857--103913 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
103847 TCATTAAATT
103857 TAATATATAAATATTAATATAAA-AA
1 TAATATATAAATA-TAATATAAATAA
* * * *
103882 TAATATTTTAATATATTTTAAATAA
1 TAATATATAAATATAATATAAATAA
103907 TAATATA
1 TAATATA
103914 AATTTTTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
TAATATATAAATATAATATAAATAA
Found at i:103904 original size:22 final size:21
Alignment explanation
Indices: 103879--103925 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
103869 ATTAATATAA
* *
103879 AAATAATATTTTAATATATTTT
1 AAATAATAATATAA-ATATTTT
*
103901 AAATAATAATATAAATTTTTT
1 AAATAATAATATAAATATTTT
103922 AAAT
1 AAAT
103926 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATAATAATATAAATATTTT
Found at i:103950 original size:31 final size:32
Alignment explanation
Indices: 103901--103962 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
103891 AATATATTTT
*
103901 AAATAATAATATAAA-TTTTTTAAATTTTAAA
1 AAATAATAATATAAATTTTTTTAAAATTTAAA
* **
103932 AAATAATTATATTTATTTTTTTAAAATTTAA
1 AAATAATAATATAAATTTTTTTAAAATTTAA
103963 TTTGAGATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 12 0.46
32 14 0.54
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (32 bp):
AAATAATAATATAAATTTTTTTAAAATTTAAA
Found at i:104263 original size:2 final size:2
Alignment explanation
Indices: 104258--104315 Score: 66
Period size: 2 Copynumber: 30.0 Consensus size: 2
104248 TTTTTCTTAT
* * * *
104258 TA TA TA TA T- TA -A TA TA TA TA TA TA TG TA TG TA TG TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
104298 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
104316 GATTGAGGGG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
1 2 0.04
2 44 0.96
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (2 bp):
TA
Found at i:104462 original size:2 final size:2
Alignment explanation
Indices: 104457--104489 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
104447 TTTTTCTTAT
*
104457 TA TA TA TA TA TA TA AA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
104490 TAGGTATGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:105350 original size:13 final size:13
Alignment explanation
Indices: 105332--105361 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
105322 CAAAATATAT
105332 ATATTTTTAAAAA
1 ATATTTTTAAAAA
105345 ATATTTTTAAAAA
1 ATATTTTTAAAAA
105358 ATAT
1 ATAT
105362 ACTTAATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATTTTTAAAAA
Found at i:106680 original size:27 final size:28
Alignment explanation
Indices: 106614--106684 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
106604 TTTTATATAA
* *
106614 ATTTTAATATATTTATATATTCGTGTAAT
1 ATTTTAAT-TATTTTTATATTCATGTAAT
* *
106643 A-TTTATGTTATTTTTATA-TCATGTCAT
1 ATTTTA-ATTATTTTTATATTCATGTAAT
106670 ATTTTAATTATTTTT
1 ATTTTAATTATTTTT
106685 TCATATTGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
27 16 0.46
28 17 0.49
29 2 0.06
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.61
Consensus pattern (28 bp):
ATTTTAATTATTTTTATATTCATGTAAT
Found at i:108629 original size:24 final size:22
Alignment explanation
Indices: 108599--108651 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 22
108589 GAAACTGAAA
108599 TTTCCTTT-CTCTCCATTCTCACAT
1 TTTCCTTTCCT-TCCATTCT-AC-T
*
108623 TTTCCTTTCCTTCCATTGTACT
1 TTTCCTTTCCTTCCATTCTACT
108645 TTTCCTT
1 TTTCCTT
108652 CCTAGTCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 8 0.30
23 2 0.07
24 15 0.56
25 2 0.07
ACGTcount: A:0.09, C:0.34, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTCCTTTCCTTCCATTCTACT
Found at i:111685 original size:2 final size:2
Alignment explanation
Indices: 111680--111731 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
111670 TTTTTCTTAT
* *
111680 TA TA TA TC TT 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
111722 TA TA TA TA TA
1 TA TA TA TA TA
111732 GATTGAGGGG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:114026 original size:28 final size:27
Alignment explanation
Indices: 113986--114054 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 27
113976 TTTTATATAG
*
113986 ATTTTAATATATTTGTATATTCGTGTCAT
1 ATTTTAAT-TATTTGTATA-TCATGTCAT
*
114015 A-TTTATATTATTTTTATATCATGTCAT
1 ATTTTA-ATTATTTGTATATCATGTCAT
114042 ATTTTAATTATTT
1 ATTTTAATTATTT
114055 TTTCATATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
27 16 0.44
28 17 0.47
29 3 0.08
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (27 bp):
ATTTTAATTATTTGTATATCATGTCAT
Found at i:114039 original size:27 final size:28
Alignment explanation
Indices: 113986--114056 Score: 92
Period size: 27 Copynumber: 2.5 Consensus size: 28
113976 TTTTATATAG
* *
113986 ATTTTAATATATTTGTATATTCGTGTCAT
1 ATTTTAAT-TATTTTTATATTCATGTCAT
114015 A-TTTATATTATTTTTATA-TCATGTCAT
1 ATTTTA-ATTATTTTTATATTCATGTCAT
114042 ATTTTAATTATTTTT
1 ATTTTAATTATTTTT
114057 TCATATTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 18 0.47
28 17 0.45
29 3 0.08
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (28 bp):
ATTTTAATTATTTTTATATTCATGTCAT
Found at i:114056 original size:28 final size:28
Alignment explanation
Indices: 113986--114062 Score: 79
Period size: 28 Copynumber: 2.7 Consensus size: 28
113976 TTTTATATAG
* *
113986 ATTTTAA-TATATTTGTATATTCGTGTCAT
1 ATTTTAATTAT-TTTTTATA-TCATGTCAT
114015 A-TTTATATTA-TTTTTATATCATGTCAT
1 ATTTTA-ATTATTTTTTATATCATGTCAT
114042 ATTTTAATTATTTTTTCATAT
1 ATTTTAATTATTTTTT-ATAT
114063 TATATTTGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
27 13 0.32
28 20 0.49
29 6 0.15
30 2 0.05
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (28 bp):
ATTTTAATTATTTTTTATATCATGTCAT
Found at i:121289 original size:8 final size:8
Alignment explanation
Indices: 121276--121301 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
121266 CAAAAGATGG
121276 CATCAAAA
1 CATCAAAA
121284 CATCAAAA
1 CATCAAAA
121292 CATCAAAA
1 CATCAAAA
121300 CA
1 CA
121302 ATCTTAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.27, G:0.00, T:0.12
Consensus pattern (8 bp):
CATCAAAA
Found at i:122185 original size:20 final size:20
Alignment explanation
Indices: 122159--122213 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
122149 AAAAAGACGG
*
122159 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
122179 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
*
122199 AATGTATCAATACAT
1 AATGTATCGATACAT
122214 CTGGGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:122301 original size:85 final size:85
Alignment explanation
Indices: 122158--122320 Score: 274
Period size: 85 Copynumber: 1.9 Consensus size: 85
122148 AAAAAAGACG
122158 GAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCAATACATCTGGGTAAA
1 GAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCAATACATCTGGGTAAA
*
122223 AAGATAGAATGTACATGTAT
66 AAGACAGAATGTACATGTAT
* * *
122243 GAATGTATCGATACATTC-TGCAATGTATCGATACATTGAAAGATGTATCGATACATCTGGGTAA
1 GAATGTATCGATACATTCATAC-ATGTATCGATACATTGAAAAATGTATCAATACATCTGGGTAA
122307 AAAGACAGAATGTA
65 AAAGACAGAATGTA
122321 TCGATACATC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
84 2 0.03
85 71 0.97
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.29
Consensus pattern (85 bp):
GAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCAATACATCTGGGTAAA
AAGACAGAATGTACATGTAT
Found at i:123068 original size:48 final size:47
Alignment explanation
Indices: 123006--123185 Score: 261
Period size: 48 Copynumber: 3.7 Consensus size: 47
122996 AGAGGAGTGC
** * * *
123006 CAATGTGCCAATTCAAGGTCAACGACATCGAGCTAAGGGAAAAGTGAA
1 CAATGTGCTGATTCAAGG-CAGCGACATTGAGCTAAGGGAAAAGTGGA
123054 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGG-CAGCGACATTGAGCTAAGGGAAAAGTGGA
123102 CAATGTGCTGATTCAAGGCTAGCGACATTGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGC-AGCGACATTGAGCTAAGGGAAAAGTGGA
* *
123150 TAATGTGCTGATTCAAGGCTAGCGATATTGAGCTAA
1 CAATGTGCTGATTCAAGGC-AGCGACATTGAGCTAA
123186 TAAAGGTGCC
Statistics
Matches: 123, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
47 1 0.01
48 122 0.99
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.21
Consensus pattern (47 bp):
CAATGTGCTGATTCAAGGCAGCGACATTGAGCTAAGGGAAAAGTGGA
Found at i:123128 original size:96 final size:93
Alignment explanation
Indices: 123001--123224 Score: 270
Period size: 96 Copynumber: 2.4 Consensus size: 93
122991 AGATGAGAGG
* ** *
123001 AGTGCCAATGTGCCAATTCAAGG-TCAACGACATCGAGCTAAGGGAAAAGTGAACAATGTGCTGA
1 AGTGACAATGTGCTGATTCAAGGCT-AGCGACATCGAGCTAAGGGAAAAGTGAACAATGTGCTGA
123065 TTCAAGGCCAGCGACATTGAGCTAAGGGAAA
65 TTCAAGGCCAGCGACATTGAGCTAA--GAAA
* * *
123096 AGTGGACAATGTGCTGATTCAAGGCTAGCGACATTGAGCTAAGGGAAAAGTGGATAATGTGCTGA
1 AGT-GACAATGTGCTGATTCAAGGCTAGCGACATCGAGCTAAGGGAAAAGTGAACAATGTGCTGA
* * *
123161 TTCAAGGCTAGCGATATTGAGCTAATAAA
65 TTCAAGGCCAGCGACATTGAGCTAAGAAA
* * * * *
123190 GGTGCCAATATGCTGATTCAATGCTAGCGATATCG
1 AGTGACAATGTGCTGATTCAAGGCTAGCGACATCG
123225 GACATTAAGA
Statistics
Matches: 111, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
93 27 0.24
94 5 0.05
95 3 0.03
96 75 0.68
97 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (93 bp):
AGTGACAATGTGCTGATTCAAGGCTAGCGACATCGAGCTAAGGGAAAAGTGAACAATGTGCTGAT
TCAAGGCCAGCGACATTGAGCTAAGAAA
Found at i:123395 original size:28 final size:28
Alignment explanation
Indices: 123333--124145 Score: 912
Period size: 28 Copynumber: 28.5 Consensus size: 28
123323 CACCGATTTG
* *
123333 TGTGGGCTTTAAAAGGGGATGCCATTGACT
1 TGTGGGCTTTGAAA-GGG-TGCCACTGACT
* *
123363 TGTGGGCTTTGAAGGGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
123391 TGTGGGCTTTGAAATGGTGCCACTGATTT
1 TGTGGGCTTTGAAAGGGTGCCACTGA-CT
*
123420 GTGTGGGCTTTGAAAGGGTATTCCACTGACT
1 -TGTGGGCTTTGAAAGGG--TGCCACTGACT
*
123451 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
123479 TGTAGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
123507 TATGGTCTTTTG-AAGAGATGCCACTAACT
1 TGTGGGC-TTTGAAAG-GGTGCCACTGACT
* *
123536 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* * *
123566 TGTGGGCTTTGAAAAGGTGCTATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
123594 TGTGGGCTTTGAAGGGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
123622 TGTGGGCTTTGAAAGGGTGCCAATGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
123650 TGTGGGCTTTGAAAGGGTTCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
123678 TGTGGGCTTTGGAAGGGTGCCACTGATTT
1 TGTGGGCTTTGAAAGGGTGCCACTGA-CT
* *
123707 ATGTCGGCTTTGAAAGGGTATACCACTGACT
1 -TGTGGGCTTTGAAAGGG--TGCCACTGACT
*
123738 CGTGGGCTTTGAAAGGGTATGCCACTGACT
1 TGTGGGCTTTGAAAGGG--TGCCACTGACT
*
123768 CGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
123796 TGTGGGCTTTAAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
123824 TGTGGGTTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* * *
123854 TGTGGGCTTTGAAAGAGTGCCGCCGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
123882 TGTAGGCTTTGAAGGGGTACCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
123910 TATGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
123938 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
123966 TGTGGGCTTTGAAAGGATGCCACT-ATCT
1 TGTGGGCTTTGAAAGGGTGCCACTGA-CT
* *
123994 TATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
124022 TATGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
124050 TGTGGGCTTTGAAAGGATGCCGCTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
124078 TGTGGGCTATGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
124106 TGTGGGCTTTGAAAGGATGCC-CTTACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
124133 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
124146 GAGATGAATG
Statistics
Matches: 679, Mismatches: 88, Indels: 35
0.85 0.11 0.04
Matches are distributed among these distances:
27 19 0.03
28 455 0.67
29 39 0.06
30 148 0.22
31 2 0.00
32 16 0.02
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:125094 original size:13 final size:13
Alignment explanation
Indices: 125076--125132 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
125066 CATAAAGTGT
125076 TGTATCGATACAA
1 TGTATCGATACAA
125089 TGTATCGATACATAA
1 TGTATCGATAC--AA
125104 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
125121 TGTATCGATACA
1 TGTATCGATACA
125133 TAAAGTGTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:125111 original size:32 final size:33
Alignment explanation
Indices: 125058--125155 Score: 189
Period size: 32 Copynumber: 3.0 Consensus size: 33
125048 CAACGATTTA
125058 TATCGATACATAAAGTGTTGTATCGATACAATG
1 TATCGATACATAAAGTGTTGTATCGATACAATG
125091 TATCGATACAT-AAGTGTTGTATCGATACAATG
1 TATCGATACATAAAGTGTTGTATCGATACAATG
125123 TATCGATACATAAAGTGTTGTATCGATACAATG
1 TATCGATACATAAAGTGTTGTATCGATACAATG
125156 CTACTGCCAA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
32 32 0.50
33 32 0.50
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (33 bp):
TATCGATACATAAAGTGTTGTATCGATACAATG
Found at i:125269 original size:52 final size:52
Alignment explanation
Indices: 125224--125352 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
125214 CACTGATCTT
*
125224 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATTGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
125276 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
125328 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
125353 TCATATTCCT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:132082 original size:15 final size:15
Alignment explanation
Indices: 132036--132102 Score: 61
Period size: 15 Copynumber: 4.6 Consensus size: 15
132026 GTTCTTTTCT
132036 AAAA-AAGAAACAAA
1 AAAAGAAGAAACAAA
* *
132050 ATAAAAAAG-GA-AAA
1 A-AAAGAAGAAACAAA
132064 AAAAGAAGAAACAACA
1 AAAAGAAGAAACAA-A
*
132080 AAAA-AACAAACAAA
1 AAAAGAAGAAACAAA
132094 AAAAGAAGA
1 AAAAGAAGA
132103 GAGGAAAAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
13 6 0.14
14 11 0.26
15 17 0.40
16 8 0.19
ACGTcount: A:0.81, C:0.07, G:0.10, T:0.01
Consensus pattern (15 bp):
AAAAGAAGAAACAAA
Found at i:133171 original size:33 final size:33
Alignment explanation
Indices: 133083--133314 Score: 194
Period size: 33 Copynumber: 7.1 Consensus size: 33
133073 TGTGGCATCT
* *
133083 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 TTTT-AAGTCCACAACTCCGTGGCAC-CTTGTTCC
* ** *
133118 ATCAAAGTCCACAACCCCGTGGCACCTTGTTCC
1 TTTTAAGTCCACAACTCCGTGGCACCTTGTTCC
* *
133151 TTTTAAGTCCATAACTCCGTGGCATCTTGTTCC
1 TTTTAAGTCCACAACTCCGTGGCACCTTGTTCC
*
133184 TTTTAAGTCCACAACTCCGTGGCACCTTCTT--
1 TTTTAAGTCCACAACTCCGTGGCACCTTGTTCC
** * * *
133215 TTCAAAGCCCACAACTCCATGGCACTCTTTTTCC
1 TTTTAAGTCCACAACTCCGTGGCAC-CTTGTTCC
* *
133249 TTTTTAAAGCCCACAACTTCGTGGCA-C-----CC
1 -TTTT-AAGTCCACAACTCCGTGGCACCTTGTTCC
*
133278 TTTTAAGTCCACAACTCCGTGGCATCTT-TCTCC
1 TTTTAAGTCCACAACTCCGTGGCACCTTGT-TCC
133311 TTTT
1 TTTT
133315 CAAAAGCCCA
Statistics
Matches: 160, Mismatches: 26, Indels: 24
0.76 0.12 0.11
Matches are distributed among these distances:
27 18 0.11
28 5 0.03
29 2 0.01
31 21 0.13
32 5 0.03
33 68 0.43
34 20 0.12
35 3 0.02
36 18 0.11
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (33 bp):
TTTTAAGTCCACAACTCCGTGGCACCTTGTTCC
Found at i:133204 original size:66 final size:66
Alignment explanation
Indices: 133083--133314 Score: 232
Period size: 67 Copynumber: 3.6 Consensus size: 66
133073 TGTGGCATCT
* * ** *
133083 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCATCAAAGTCCACAACCCCGTGGCACCTTGT
1 TTTT-AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTT-T
133148 TCC
64 TCC
* *
133151 TTTTAAGTCCATAACTCCGTGGCA-TCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACC--TT-
1 TTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTC
133212 C
66 C
* * * *
133213 TTTTCAAAGCCCACAACTCCATGGCACTCTTTTTCCTTTTTAAAGCCCACAACTTCGTGGCA-C-
1 TTTT--AAGTCCACAACTCCGTGGCACTCTTTTTCC-TTTT-AAGTCCACAACTCCGTGGCACCT
133276 ---CC
62 TTTCC
*
133278 TTTTAAGTCCACAACTCCGTGGCA-TCTTTCTCCTTTT
1 TTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTT
133315 CAAAAGCCCA
Statistics
Matches: 142, Mismatches: 16, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
61 4 0.03
62 13 0.09
63 20 0.14
64 17 0.12
65 13 0.09
66 35 0.25
67 36 0.25
68 4 0.03
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (66 bp):
TTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTC
C
Found at i:133272 original size:100 final size:92
Alignment explanation
Indices: 133060--133306 Score: 257
Period size: 100 Copynumber: 2.6 Consensus size: 92
133050 TACTTTCTAA
* * * *
133060 AAGCCCACAACTCTGTGGCATCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCATCAAAG
1 AAGCCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACTCTTTTT-C-TCAAAG
* *
133125 TCCACAACCCCGTGGCACCTTGTTCCTTTT
63 CCCACAACCCCATGGCACCTTGTTCCTTTT
* *
133155 AAGTCCATAACTCCGTGGCATCTTGTTCCTTTTAAGTCCACAACTCCGTGGCAC-CTTCTTT-TC
1 AAGCCCACAACTCCGTGGCA-C-----CCTTTTAAGTCCACAACTCCGTGGCACTCTT-TTTCTC
* *
133218 AAAGCCCACAACTCCATGGCACTCTTTTTCCTTTTT
59 AAAGCCCACAACCCCATGGCAC-CTTGTTCC-TTTT
*
133254 AAAGCCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-TCTTT
1 -AAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTCTTT
133307 CTCCTTTTCA
Statistics
Matches: 128, Mismatches: 13, Indels: 24
0.78 0.08 0.15
Matches are distributed among these distances:
93 1 0.01
94 29 0.23
95 17 0.13
97 21 0.16
98 7 0.05
99 8 0.06
100 40 0.31
101 5 0.04
ACGTcount: A:0.22, C:0.34, G:0.13, T:0.31
Consensus pattern (92 bp):
AAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCTCAAAGCCC
ACAACCCCATGGCACCTTGTTCCTTTT
Found at i:133423 original size:32 final size:32
Alignment explanation
Indices: 133317--133581 Score: 403
Period size: 32 Copynumber: 8.2 Consensus size: 32
133307 CTCCTTTTCA
133317 AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
* *
133349 TAAAGCCCACACAAGTCGGTGGCAACCTTTTTTTC
1 -AAAGCCCACACAAGTCGGTGGCAACC--CTTCTC
133384 AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
*
133416 AAAGCCCACACAAGTCGGTGGCAACACTTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
*
133448 AAAGCCCACACAAGTCGGTGGCAATCCTTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
133480 AAAGCCCACACAAGTCGGTGGCAACCC-TCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
* *
133511 TAAAGCCCACACAAGTCGATGACAA-CCTTCTC
1 -AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
133543 TAAAGCCCACACAAGTCGGTGGCAACCCTTCT-
1 -AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
133575 -AAGCCCA
1 AAAGCCCA
133582 ATATCGATGG
Statistics
Matches: 215, Mismatches: 12, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
30 7 0.03
31 6 0.03
32 140 0.65
33 32 0.15
34 26 0.12
35 4 0.02
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.18
Consensus pattern (32 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
Found at i:133690 original size:43 final size:45
Alignment explanation
Indices: 133574--134286 Score: 614
Period size: 50 Copynumber: 14.9 Consensus size: 45
133564 GCAACCCTTC
* * * * *
133574 TAAGCCCAATATCGATGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TCCTC-T
* *
133623 TAAGTCCAATATTGCTGGCATTGAATCAGCACATTGGCA-CCTC-
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCCTCT
* * *
133666 CAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TCCTC-T
* * * *
133715 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATT-G-G-C---ATCCTC-T
* * *
133767 TAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCATCTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TCC-TC-T
* * *
133817 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATC---CTC-T
* *
133866 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCAT-CT-T
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCCTCT
*
133909 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TCC-TC-T
* *
133959 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCATCTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TCC-TC-T
*
134009 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TCC-TC-T
134059 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CCT-T
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCCTCT
* * *
134102 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATC---CTC-T
*
134151 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCT-T
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCCTCT
*
134194 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG--CA---TCC-TC-T
* * *
134246 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATC
134287 TTTTTTCTCA
Statistics
Matches: 579, Mismatches: 44, Indels: 84
0.82 0.06 0.12
Matches are distributed among these distances:
43 149 0.26
44 1 0.00
45 8 0.01
46 3 0.01
47 9 0.02
48 2 0.00
49 149 0.26
50 182 0.31
51 2 0.00
52 74 0.13
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (45 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCCTCT
Found at i:133739 original size:92 final size:93
Alignment explanation
Indices: 133589--134281 Score: 707
Period size: 92 Copynumber: 7.2 Consensus size: 93
133579 CCAATATCGA
* * *
133589 TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATTGCTGGCATTGAATCAGCA
1 TGGCCTTGAATCAGCACATTGGCA-C-TCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA
* * * *
133654 CATTGGCA-CC-TC-CAAGTCCAATATCGC
64 TATTGGCATCCTTCTTAAGTCCAATGTAGC
*
133681 TGGCCTTGAATCAGCACATTGGCACCCTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCACATTGGCA--CTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCA
* *
133746 TATTGGC-GCCTTTGTCATCTTTAAGTCCAATGTCGC
64 TATTGGCATCC----T--TC-TTAAGTCCAATGTAGC
* *
133782 TGGCCTTGAATCAACACATTGGCATCTTCCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
1 TGGCCTTGAATCAGCACATTGGCA-C-T-CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGC
*
133847 ATATTGGCATCTTTTTCTTTAAGTCCAATGTAGC
63 ATATTGGCATC--CTTC-TTAAGTCCAATGTAGC
* * *
133881 TGGCCTTGAATCAGCACATT---A-GCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACA
1 TGGCCTTGAATCAGCACATTGGCACTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
*
133942 TTGGCATCTTCCATCTTTAAGTCCAATGTAGC
66 TTGGCA---TCCTTC-TTAAGTCCAATGTAGC
* *
133974 TGGCCTTGAATCAGCATATTGGCATCTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC
1 TGGCCTTGAATCAGCACATTGGCA-C-T-CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGC
* * *
134039 ACATTGGCATCTTCCATCTTTAAGTCCAATATAGC
63 ATATTGGCA---TCCTTC-TTAAGTCCAATGTAGC
*
134074 TGGCCTTGAATCAGCACATTGGCA--C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
1 TGGCCTTGAATCAGCACATTGGCACTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
*
134135 TTGGCATCTTTTTCTTTAAGTCCAATGTAGC
66 TTGGCATC--CTTC-TTAAGTCCAATGTAGC
134166 TGGCCTTGAATCAGCACATTGGCA--C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
1 TGGCCTTGAATCAGCACATTGGCACTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
* *
134227 TTGGCACATTTTCCATCTTTAAGTTCAATGTAGC
66 TTGG--CA---TCCTTC-TTAAGTCCAATGTAGC
134261 TGGCCTTGAATCAGCACATTG
1 TGGCCTTGAATCAGCACATTG
134282 ACATCTTTTT
Statistics
Matches: 536, Mismatches: 32, Indels: 63
0.85 0.05 0.10
Matches are distributed among these distances:
90 2 0.00
92 191 0.36
93 79 0.15
94 2 0.00
95 42 0.08
96 2 0.00
97 2 0.00
99 39 0.07
100 94 0.18
101 38 0.07
102 44 0.08
103 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (93 bp):
TGGCCTTGAATCAGCACATTGGCACTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
TTGGCATCCTTCTTAAGTCCAATGTAGC
Found at i:133834 original size:50 final size:50
Alignment explanation
Indices: 133667--134343 Score: 763
Period size: 50 Copynumber: 13.8 Consensus size: 50
133657 TGGCACCTCC
* * *
133667 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCCT-CATCTTT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCCATCTTT
* * ** *
133716 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATC-TT-CCATCTTT
* * *
133768 AAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCATCTTCCATCTTT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCCATCTTT
* * **
133818 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT-TTTCTTT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCCATCTTT
* *
133867 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATT---A----GCATCTTT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCCATCTTT
*
133910 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCCATCTTT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCCATCTTT
* *
133960 AAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCATCTTCCATCTTT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCCATCTTT
*
134010 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCCATCTTT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCCATCTTT
134060 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-----C--CTTT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCCATCTTT
* * **
134103 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT-TTTCTTT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCCATCTTT
*
134152 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-----C--CTTT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCCATCTTT
* *
134195 AAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGG--CATCTTCCATCTTT
* * * *
134247 AAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCTTTTTTCTCATCTTG
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATC----TTC-CATCTTT
* * * * * *
134302 AAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTT
134344 TATCACTTTT
Statistics
Matches: 550, Mismatches: 47, Indels: 60
0.84 0.07 0.09
Matches are distributed among these distances:
43 117 0.21
45 3 0.01
46 2 0.00
49 113 0.21
50 193 0.35
51 4 0.01
52 78 0.14
54 3 0.01
55 37 0.07
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (50 bp):
AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCTTCCATCTTT
Found at i:134402 original size:67 final size:68
Alignment explanation
Indices: 134294--134420 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
134284 ATCTTTTTTC
* * *
134294 TCATCTTGAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTGAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
134358 TCT
66 TCT
* * * * *
134361 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTGAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
134421 AAAACCCAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (68 bp):
TCATCTTGAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:135249 original size:13 final size:13
Alignment explanation
Indices: 135231--135287 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
135221 CATAAAGTGT
135231 TGTATCGATACAA
1 TGTATCGATACAA
135244 TGTATCGATACATAA
1 TGTATCGATAC--AA
135259 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
135276 TATATCGATACA
1 TGTATCGATACA
135288 TAAAGTGTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 22 0.59
15 2 0.05
17 2 0.05
19 11 0.30
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:135266 original size:32 final size:33
Alignment explanation
Indices: 135211--135310 Score: 175
Period size: 33 Copynumber: 3.1 Consensus size: 33
135201 TTCAACGATT
*
135211 TGTATGGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
135244 TGTATCGATACAT-AAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
135276 TATATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
135309 TG
1 TG
135311 CTACTGCCAA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
32 31 0.49
33 32 0.51
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:135423 original size:52 final size:52
Alignment explanation
Indices: 135379--135507 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
135369 CACTGATCTT
*
135379 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
135431 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
135483 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
135508 TCATATTTTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:139225 original size:15 final size:15
Alignment explanation
Indices: 139207--139261 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
139197 CCCTTTTTTG
*
139207 TTTTTGTTTTTTATT
1 TTTTTGTTTTTGATT
* *
139222 TTTTT-TGTTTGCTT
1 TTTTTGTTTTTGATT
*
139236 TTTTTGTTTTTGGTT
1 TTTTTGTTTTTGATT
139251 TTTTTGTTTTT
1 TTTTTGTTTTT
139262 TTTCTTGAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 11 0.32
15 23 0.68
ACGTcount: A:0.02, C:0.02, G:0.13, T:0.84
Consensus pattern (15 bp):
TTTTTGTTTTTGATT
Found at i:139226 original size:21 final size:20
Alignment explanation
Indices: 139200--139285 Score: 68
Period size: 21 Copynumber: 4.0 Consensus size: 20
139190 TCTGGACCCC
139200 TTTTTTGTTTTTGTTTTTTAT
1 TTTTTTGTTTTTGTTTTTT-T
*
139221 TTTTTT-TGTTTGCTTTTTTT
1 TTTTTTGTTTTTG-TTTTTTT
*
139241 GTTTTTGGTTTTT-TTGTTTTT
1 -TTTTTTGTTTTTGTT-TTTTT
*
139262 TTTCTTGAATTTTTTGTTTTTTT
1 TTTTTTG---TTTTTGTTTTTTT
139285 T
1 T
139286 GGGTTTTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
20 13 0.25
21 22 0.42
22 4 0.08
23 11 0.21
24 2 0.04
ACGTcount: A:0.03, C:0.02, G:0.12, T:0.83
Consensus pattern (20 bp):
TTTTTTGTTTTTGTTTTTTT
Found at i:139227 original size:9 final size:9
Alignment explanation
Indices: 139213--139297 Score: 64
Period size: 9 Copynumber: 8.8 Consensus size: 9
139203 TTTGTTTTTG
*
139213 TTTTTTATT
1 TTTTTTGTT
139222 TTTTTTGTT
1 TTTTTTGTT
139231 TGCTTTTT-TT
1 T--TTTTTGTT
* *
139241 GTTTTTGGT
1 TTTTTTGTT
139250 TTTTTTGTT
1 TTTTTTGTT
*
139259 TTTTTTCTT
1 TTTTTTGTT
139268 GAATTTTTTGTT
1 ---TTTTTTGTT
139280 TTTTTTGGGTT
1 TTTTTT--GTT
139291 TTTTTTG
1 TTTTTTG
139298 GGACGAAGGA
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
8 5 0.08
9 32 0.52
10 2 0.03
11 14 0.23
12 8 0.13
ACGTcount: A:0.04, C:0.02, G:0.14, T:0.80
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:139239 original size:29 final size:27
Alignment explanation
Indices: 139201--139297 Score: 97
Period size: 30 Copynumber: 3.4 Consensus size: 27
139191 CTGGACCCCT
*
139201 TTTTTGTTTTTGTTTTTTATTTTTTTTG
1 TTTTT-TTTTTGTTTTTTGTTTTTTTTG
*
139229 TTTGCTTTTTTTG-TTTTTGGTTTTTTTG
1 TTT--TTTTTTTGTTTTTTGTTTTTTTTG
139257 TTTTTTTTCTTGAATTTTTTGTTTTTTTTG
1 TTTTTTTT-TTG--TTTTTTGTTTTTTTTG
**
139287 GGTTTTTTTTG
1 TTTTTTTTTTG
139298 GGACGAAGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
26 5 0.09
27 3 0.05
28 19 0.33
29 9 0.16
30 22 0.38
ACGTcount: A:0.03, C:0.02, G:0.14, T:0.80
Consensus pattern (27 bp):
TTTTTTTTTTGTTTTTTGTTTTTTTTG
Found at i:139252 original size:36 final size:35
Alignment explanation
Indices: 139200--139282 Score: 107
Period size: 36 Copynumber: 2.3 Consensus size: 35
139190 TCTGGACCCC
**
139200 TTTTTTGTTTTTGTTTTTTAT-TTTTTTTGT-TTGCT
1 TTTTTTGTTTTTGTTTTTT-TGTTTTTTT-TCTTGAA
139235 TTTTTTGTTTTTGGTTTTTTTGTTTTTTTTCTTGAA
1 TTTTTTGTTTTT-GTTTTTTTGTTTTTTTTCTTGAA
139271 TTTTTTGTTTTT
1 TTTTTTGTTTTT
139283 TTTGGGTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
35 14 0.33
36 29 0.67
ACGTcount: A:0.04, C:0.02, G:0.12, T:0.82
Consensus pattern (35 bp):
TTTTTTGTTTTTGTTTTTTTGTTTTTTTTCTTGAA
Found at i:146593 original size:22 final size:23
Alignment explanation
Indices: 146543--146615 Score: 60
Period size: 21 Copynumber: 3.2 Consensus size: 23
146533 CAAAATGACC
* **
146543 AAAAAAAGGTCAAAAGCAAAAGTA
1 AAAAAAATG-CAAAAGCAAAACAA
* *
146567 CAAAATATG-AAAAG-AAAACAA
1 AAAAAAATGCAAAAGCAAAACAA
* *
146588 AAAAAAGTGCAAAAGCAAAATAA
1 AAAAAAATGCAAAAGCAAAACAA
146611 AAAAA
1 AAAAA
146616 GGAACAACAA
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
21 11 0.29
22 10 0.26
23 11 0.29
24 6 0.16
ACGTcount: A:0.71, C:0.08, G:0.12, T:0.08
Consensus pattern (23 bp):
AAAAAAATGCAAAAGCAAAACAA
Found at i:146616 original size:22 final size:23
Alignment explanation
Indices: 146543--146616 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 23
146533 CAAAATGACC
*
146543 AAAAAAAG-GTCAAAAGCAAAAGT
1 AAAAAAAGTG-CAAAAGCAAAACT
* *
146566 ACAAAATA-TG-AAAAG-AAAACA
1 A-AAAAAAGTGCAAAAGCAAAACT
146587 AAAAAAAGTGCAAAAGCAAAA-T
1 AAAAAAAGTGCAAAAGCAAAACT
146609 AAAAAAAG
1 AAAAAAAG
146617 GAACAACAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
20 5 0.12
21 7 0.17
22 18 0.44
23 5 0.12
24 6 0.15
ACGTcount: A:0.70, C:0.08, G:0.14, T:0.08
Consensus pattern (23 bp):
AAAAAAAGTGCAAAAGCAAAACT
Found at i:147949 original size:27 final size:27
Alignment explanation
Indices: 147911--148227 Score: 444
Period size: 27 Copynumber: 11.7 Consensus size: 27
147901 TTTCTTTTCA
*
147911 AAGTCCATAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
147938 AAGTCCACAACTCCATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
147965 AAAGTCCACAACTCCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
147993 AAAGTCCACAACTCCGTGGCATCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
* *
148021 AAGT-CACAACTCCGTGGCACCCTTTA
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
148047 AAGTCCATAACTCCGTGGCA--CTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * *
148072 AAGTCCGCAACTCCGTGGCACCCTCTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
148099 AAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
148126 AAAGTCCACCACTCCGTGGCA-CCGTTTT
1 -AAGTCCACAACTCCGTGGCATCC-TTTT
*
148154 AAGTCCACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
148181 AAGTCTACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
148208 AAGTCCACAACTCCGTGGCA
1 AAGTCCACAACTCCGTGGCA
148228 ACACCCTTTT
Statistics
Matches: 261, Mismatches: 22, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
25 22 0.08
26 24 0.09
27 139 0.53
28 76 0.29
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.28
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCATCCTTTT
Found at i:147979 original size:55 final size:54
Alignment explanation
Indices: 147911--148227 Score: 460
Period size: 55 Copynumber: 5.9 Consensus size: 54
147901 TTTCTTTTCA
* * *
147911 AAGTCCATAACTCCGTGGCATCCTTTTAAGTCCACAACTCCATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT
147965 AAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTT
* *
148021 AAGT-CACAACTCCGTGGCACCCTTTAAAGTCCATAACTCCGTGGCA--CTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT
* * * *
148072 AAGTCCGCAACTCCGTGGCACCCTCTTAAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT
* * *
148126 AAAGTCCACCACTCCGTGGCACCGTTTTAAGTCCACAACTCTGTGGCATCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT
* *
148181 AAGTCTACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA
148228 ACACCCTTTT
Statistics
Matches: 237, Mismatches: 20, Indels: 11
0.88 0.07 0.04
Matches are distributed among these distances:
51 9 0.04
52 37 0.16
53 19 0.08
54 68 0.29
55 78 0.33
56 26 0.11
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.28
Consensus pattern (54 bp):
AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT
Found at i:148193 original size:161 final size:161
Alignment explanation
Indices: 147919--148227 Score: 503
Period size: 161 Copynumber: 1.9 Consensus size: 161
147909 CAAAGTCCAT
* * *
147919 AACTCCGTGGCATCCTTTTAAGTCCACAACTCCATGGCATCCTTTTAAAGTCCACAACTCCGTGG
1 AACTCCGTGGCACCCTCTTAAGTCCACAACTCCATGGCACCCTTTTAAAGTCCACAACTCCGTGG
147984 CACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCACAACTCCGTGGCACCCTTTAAA
66 CACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCACAACTCCGTGGCACCCTTTAAA
*
148049 GTCCATAACTCCGTGGCACTTTTAAGTCCGC
131 GTCCACAACTCCGTGGCACTTTTAAGTCCGC
** *
148080 AACTCCGTGGCACCCTCTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACCACTCCGTGG
1 AACTCCGTGGCACCCTCTTAAGTCCACAACTCCATGGCACCCTTTTAAAGTCCACAACTCCGTGG
* * * *
148145 CACCGTTTT-AAGTCCACAACTCTGTGGCATCCTTTTAAGTCTACAACTCCGTGGCATCCTTTTA
66 CACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTC-ACAACTCCGTGGCACCCTTTAA
148209 AGTCCACAACTCCGTGGCA
130 AGTCCACAACTCCGTGGCA
148228 ACACCCTTTT
Statistics
Matches: 136, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
160 31 0.23
161 105 0.77
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (161 bp):
AACTCCGTGGCACCCTCTTAAGTCCACAACTCCATGGCACCCTTTTAAAGTCCACAACTCCGTGG
CACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCACAACTCCGTGGCACCCTTTAAA
GTCCACAACTCCGTGGCACTTTTAAGTCCGC
Found at i:148369 original size:32 final size:32
Alignment explanation
Indices: 148259--151608 Score: 2502
Period size: 32 Copynumber: 109.7 Consensus size: 32
148249 GTTAGGGGCA
** *
148259 TCATTTCAAAG-CC-CACAAGTTAGTGGCATC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
148289 -CA-TTCAAAG-CC-CACAAGTCAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
148315 TCATTTCAAAG-CC-CACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
148345 TCATTTCAAAGCCCACACAAGTCGGTGGCAGC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
148377 TCATTTGAAAGCCCACACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
148409 CCGTTTCAAAGCCCACACAAGTCGGTGGTAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
148441 CCATTTCAAAG-CC-TACAAGTCTGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
148469 TCATTTCAAAGCCCACATAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * *
148501 TCATTTGAAAGGCTACACAAGTTGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
148533 CCATTTTAAAGCCCACACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * *
148565 CCATTTCAAAG--CTCACAAGTCAGTGGCATC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
148595 -CTTTTCAAAG-CC-CACAAGTCAGTGGCATC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* **
148624 -CTTTTCAAAG-CC-CACAAGTTAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
148651 TCATTTCAAAG--C-CACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
148680 TCATTTCAAAGCCCACACAAGTCGGTGGCAGC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
148712 TCATTTGAAAGCCCACACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
148744 CCGTTTCAAAGCCCACACAAGTCGGTGGTAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
148776 CCATTTCAAAG-CC-TACAAGTCTGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
148804 TCATTTCAAAGCCCACATAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * *
148836 TCATTTGAAAGGCTACACAAGTTGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
148868 CCATTTTAAAGCTCACACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
148900 CCATTTCAAAG--CTCACAAGTCAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
148928 TCATTTTCAAAG-CC-CACAAGTCAGTGGCATC
1 TCA-TTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
148959 -CTTTTCAAAG-CC-CACAAGTCAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
148986 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
149018 TCATTTGAAAGCCCACACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
149050 TCGTTTCAAAGCCCATACAAGTCGGTGGTAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
**
149082 -CTATTTCAAAG-CC-CACAAGTTAGTGGC-A-
1 TC-ATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
149110 TCATTTCAAAGCCCACACAAGTCAGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
149142 TCATTTAAAAGCCCGCACAAGTTGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
149174 CCATTTTAAAGCCCACATAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * * * *
149206 CCATTTCAAA--ACTCATAAGTCAGTGGCATC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
149236 -CTTTTCAAAG-CC-CACAAGTCAGTGGCATC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
149265 -CTTTTCAAAG--CTCACAAGTCAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
149292 TCCTTTCAAAGCCCACACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* ** *
149324 TCTTTTTTCAAAG-CC-CACAAGTCACTAGC-A-
1 TC--ATTTCAAAGCCCACACAAGTCGGTGGCAAC
* **
149354 TCTTTTGCAAAG-CCA-ACAAGTCAATGGC-A-
1 TCATTT-CAAAGCCCACACAAGTCGGTGGCAAC
* *
149383 TCCTTTCAAAGCCCACACAAGTTGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
149415 TCTTTTTTCAAAG-CC-CATAAGTCAGTGGC-A-
1 TC--ATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
149445 TTATTTCAAAG-CC-CATAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
149475 TCATTTCAAAGCCCATACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
**
149507 TCATTTCAAAGCCCACACAAGTTAGT-GCTAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGC-AAC
* *
149539 CCGTTTCAAAGCCCACACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
149571 CCATTTCAAAG--CGCACAAGTCAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
149599 TCATTTCAAAGCCCACACAAGTCGGTGACAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* **
149631 TCATTTGAAAGCCCACACAAGTTTGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * *
149663 CCATTTTAAAGCTCATACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * ** ***
149695 CCATTTCAAAG-CC-CATAAGTTAGTGGTGTC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
149725 -CTTTTCAAAG-CC-CACAAGTCAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
149752 TCCTTTCAAAGCCCACACAAGTCGGTGGC-TC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
** *
149783 TTTTTTCAAAG-CC-CACAAGTCAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
149811 TTATTTCAAAG-CC-CACAAGTTGGTAGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* **
149841 TTATTTCAAAGCCCACACAAGTTAGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
149873 -CTGTTTCAAAGCCCACACAAGTCGGTGGCAAC
1 TC-ATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
149905 CCGTTTCAAAGCCCACACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * *
149937 CCATTCCAAAG-CC-CATAAGTCAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
149965 TCTTTTCAAAACCCACACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
149997 TCATTTCAAAACCCACACAAGTTGGCGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * ** *
150029 CCATTTTAAAGCTTATACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * ** ***
150061 CCATTTTAAAG-CC-CACAAGTTAGTGGTGTC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * *
150091 -CTTTTCAAA-ACC-CATAAGTCAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
150118 TCATTTCAAAG-CC-CACAAGTCAGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
150148 TCATTTCAAAGCCCACACAAGTCGGTGAG-AAC
1 TCATTTCAAAGCCCACACAAGTCGGTG-GCAAC
* * * *
150180 TCATTTGAAAGCCCACATAAGTTGGTGGAAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
150212 -CTATTTTAAAGCTCATACAAGTCGGTGGCAAC
1 TC-ATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * ** *
150244 CCATTTCAAA-ACC-CATAAGTTAGTGGCATC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
150274 -CTTTTCAAAG-CC-CACAAGTCAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
150301 TCCTTTCAAAGCCCACACAAGGCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* **
150333 TCTTTTTTCAAAG-CC-CACAAGTCACT-GC-A-
1 TC--ATTTCAAAGCCCACACAAGTCGGTGGCAAC
* **
150362 TCCTTTGCAAAGCCCACA-AA-TCAATGGC-A-
1 TCATTT-CAAAGCCCACACAAGTCGGTGGCAAC
*
150391 TCCTTTCAAAGCCCACACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
**
150423 T-ATTTTTTCAAAG-CCA-ACAAGTTAGTGGC-A-
1 TCA---TTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * *
150453 TTATTTCAAAG-AC-CACAAGTTGGTAGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
150483 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
150515 CCGTTTCAAAGCCCACACGAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * **
150547 CCATTTCAAAG-CC-CATAAGTCAATGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
150575 TCATCTT-AAAACCCACACAAGTCGGTGGCAAC
1 TCAT-TTCAAAGCCCACACAAGTCGGTGGCAAC
* *
150607 TCATTTGAAAGCCCACACAAGTTGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* ** *
150639 TCATTTTAAAGCTTATACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * ** * **
150671 CCATTTCAAA-ACC-CACAAGTTAGTAGCGTC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
150701 -CTTTTCAAA-ACC-CACAAGTCAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
150728 TCATTTCAAAGCCCACA-AA-TCAGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
150758 TCATTTCAAAGCCCACACAAGTCAGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
150790 TCATTTGAAAGCCCACACTAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * *
150822 CCGTTTCAAAGCCCACACAAGTTGGTGGTAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
150854 CCATTTCAAAG-CC-CACAAGTCAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
150882 TCATTTCAAAGCCCACATAAGTTGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
150914 TCATTTGAAAGCCCACACAAGTTGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
150946 CCATTTTAAAGCCCACACAAGTCGGTGGAAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * ** *
150978 CCATTTCAAA--ACTCACAAGTTAGTGGCATC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * *
151008 -CTTTTTAAAG-CC-CACAAGTCAGTGGCATC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
151037 -CTTTTCAAAG-CC-CACAAGTCAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
151064 TCCTTTCAAAGCCCACACAAGTCGATGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* **
151096 TCTTTTTTCAAAG-CC-CACAAGTCACTGGC-A-
1 TC--ATTTCAAAGCCCACACAAGTCGGTGGCAAC
* **
151126 TCCTTTGCAAAG-CC-CACAAGTCAATGGCAAC
1 TCATTT-CAAAGCCCACACAAGTCGGTGGCAAC
*
151157 -C-TTTCAAAGCCCACACAAGTTGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
151187 TCTTTTTTTCAAAG-CC-CACAAGT-GAGTGGC--C
1 TC---ATTTCAAAGCCCACACAAGTCG-GTGGCAAC
* *
151218 TTATTTCAAAG-CC-CACAAGTCGATGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
151248 TCATTTCAAAGCCCATATAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * * * *
151280 CCGTTTCAAAGCTCACACAAATTGGTGGTAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * *
151312 CCATTTCAAAG--CTCAGAAGTCAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * **
151340 TTATTTTAAAGTGCACACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * *
151372 TTATTTGAAAGCCCACACAAGTTGGTAGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * * *
151404 CCATTTTAAAGCTCATACAAGTCGTTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* ** *
151436 CCATTTCAAAG-CC-CACAAGTTAGTGGCATC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* **
151466 -CTTTTCAAAG-CC-CACAAGTTAGTGGC-A-
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
151493 TCCTTTTAAAGCCCACACAAGTCGGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * *
151525 TCTTTTTTTAAAG-CC-TACAAGTCAGTGGC-AC
1 TC--ATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
151556 -CCTTTCAAAGCCCACACAAGTCAGTGGCAAC
1 TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
151587 TCTTTTCAAAGCCCACATAAGT
1 TCATTTCAAAGCCCACACAAGT
151609 TAGTGACACC
Statistics
Matches: 2745, Mismatches: 406, Indels: 336
0.79 0.12 0.10
Matches are distributed among these distances:
27 18 0.01
28 350 0.13
29 447 0.16
30 521 0.19
31 74 0.03
32 1247 0.45
33 30 0.01
34 50 0.02
35 8 0.00
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (32 bp):
TCATTTCAAAGCCCACACAAGTCGGTGGCAAC
Found at i:148485 original size:124 final size:124
Alignment explanation
Indices: 148238--151608 Score: 2376
Period size: 124 Copynumber: 27.6 Consensus size: 124
148228 ACACCCTTTT
* * ** *
148238 AAAGCCCACAAGTTAGGGGC-A-TCATTTCAAAG-CC-CACAAGTTAGTGGC-ATCCA-TTCAAA
1 AAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAA
* *
148297 G-CC-CACAAGTCAGTGGC-A-TCATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTC
66 GCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTC
* * * *
148352 AAAGCCCACACAAGTCGGTGGCAGCTCATTTGAAAGCCCACACAAGTCGGTGGCAACCCGTTTCA
1 AAAG-CC-CACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCA
* * *
148417 AAGCCCACACAAGTCGGTGGTAACCCATTTCAAAGCCTACAAGTCTGTGGC-A-TCATTTC
64 AAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTC
* * * * * *
148476 AAAGCCCACATAAGTCGGTGGCAACTCATTTGAAAGGCTACACAAGTTGGTGGCAACCCATTTTA
1 AAAGCCCAC--AAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCA
* * * *
148541 AAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCTCACAAGTCAGTGGCATC-CTTTTC
64 AAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTC
* * ** *
148601 AAAGCCCACAAGTCAGTGGCATC-CTTTTCAAAG-CC-CACAAGTTAGTGGC-A-TCATTTCAAA
1 AAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAA
* * *
148661 G--C-CACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAGCTCATTTG
66 GCCCACACAAGTCGGTGGCAACCCATTTCAAAG-CC-CACAAGTCGGTGGCAACTCATTTC
* * * *
148719 AAAGCCCACACAAGTCGGTGGCAACCCGTTTCAAAGCCCACACAAGTCGGTGGTAACCCATTTCA
1 AAAG-CC-CACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCA
* * * *
148784 AAG-CC-TACAAGTCTGTGGC-A-TCATTTCAAAGCCCACATAAGTCGGTGGCAACTCATTTG
64 AAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC--AAGTCGGTGGCAACTCATTTC
* ** * * *
148843 AAAGGCTACACAAGTTGGTGGCAACCCATTTTAAAGCTCACACAAGTCGGTGGCAACCCATTTCA
1 AAA-GC-CCACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCA
* * * * * *
148908 AAG--CTCACAAGTCAGTGGC-A-TCATTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTTC
64 AAGCCCACACAAGTCGGTGGCAACCCA-TTTCAAAGCCCACAAGTCGGTGGCAACTCATTTC
* *
148965 AAAGCCCACAAGTCAGTGGC-A-TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAA
1 AAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAA
* * *
149028 GCCCACACAAGTCGGTGGCAACTCGTTTCAAAGCCCATACAAGTCGGTGGTAAC-CTATTTC
66 GCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCC--ACAAGTCGGTGGCAACTC-ATTTC
* * * *
149089 AAAGCCCACAAGTTAGTGGC-A-TCATTTCAAAGCCCACACAAGTCAGTGGCAACTCATTTAAAA
1 AAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAA
* * * *
149152 GCCCGCACAAGTTGGTGGCAACCCATTTTAAAGCCCACATAAGTCGGTGGCAACCCATTTC
66 GCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC--AAGTCGGTGGCAACTCATTTC
* * * * * * * *
149213 AAAACTCATAAGTCAGTGGCATC-CTTTTCAAAG-CC-CACAAGTCAGTGGC-ATCCTTTTCAAA
1 AAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAA
* * * *
149274 G--CTCACAAGTCAGTGGC-ATCC-TTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTTTC
66 GCCCACACAAGTCGGTGGCAACCCATTTCAAAG-CC-CACAAGTCGGTGGCAACTC--ATTTC
* * * ** *
149333 AAAGCCCACAAGTCACTAGC-A-TCTTTTGCAAAG-CCA-ACAAGTCAATGGC-ATCC-TTTCAA
1 AAAGCCCACAAGTCAGTGGCAACTCATTT-CAAAGCCCACACAAGTCGGTGGCAACCCATTTCAA
* ** * * *
149392 AGCCCACACAAGTTGGTGGCAACTCTTTTTTCAAAGCCCATAAGTCAGTGGC-A-TTATTTC
65 AGCCCACACAAGTCGGTGGCAAC-C-CATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTC
* * * *
149452 AAAGCCCATAAGTCGGTGGCAACTCATTTCAAAGCCCATACAAGTCGGTGGCAACTCATTTCAAA
1 AAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAA
** * *
149517 GCCCACACAAGTTAGT-GCTAACCCGTTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTC
66 GCCCACACAAGTCGGTGGC-AACCCATTTCAAAG-CC-CACAAGTCGGTGGCAACTCATTTC
* * * *
149578 AAAGCGCACAAGTCAGTGGC-A-TCATTTCAAAGCCCACACAAGTCGGTGACAACTCATTTGAAA
1 AAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAA
** * * *
149641 GCCCACACAAGTTTGTGGCAACCCATTTTAAAGCTCATACAAGTCGGTGGCAACCCATTTC
66 GCCCACACAAGTCGGTGGCAACCCATTTCAAAGC-C-CACAAGTCGGTGGCAACTCATTTC
* * *** * * *
149702 AAAGCCCATAAGTTAGTGGTGTC-CTTTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-TTTCAAA
1 AAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAA
* *** * *
149762 GCCCACACAAGTCGGTGGC-TCTTTTTTCAAAGCCCACAAGTCAGTGGC-A-TTATTTC
66 GCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTC
** * * ** **
149818 AAAGCCCACAAGTTGGTAGCAACTTATTTCAAAGCCCACACAAGTTAGTGGCAACCTGTTTCAAA
1 AAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAA
* * *
149883 GCCCACACAAGTCGGTGGCAACCCGTTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCC
66 GCCCACACAAGTCGGTGGCAACCCATTTCAAAG-CC-CACAAGTCGGTGGCAACTCATTTC
* * * *
149944 AAAGCCCATAAGTCAGTGGC-A-TCTTTTCAAAACCCACACAAGTCGGTGGCAACTCATTTCAAA
1 AAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAA
* * * * ** * *
150007 ACCCACACAAGTTGGCGGCAACCCATTTTAAAGCTTATACAAGTCGGTGGCAACCCATTTT
66 GCCCACACAAGTCGGTGGCAACCCATTTCAAAGC--CCACAAGTCGGTGGCAACTCATTTC
* *** * * * * *
150068 AAAGCCCACAAGTTAGTGGTGTC-CTTTTCAAA-ACC-CATAAGTCAGTGGC-A-TCATTTCAAA
1 AAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAA
* * *
150128 G-CC-CACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGAG-AACTCATTTG
66 GCCCACACAAGTCGGTGGCAACCCATTTCAAAG-CC-CACAAGTCGGTG-GCAACTCATTTC
** * * * *
150187 AAAGCCCACATAAGTTGGTGGAAAC-CTATTTTAAAGCTCATACAAGTCGGTGGCAACCCATTTC
1 AAAGCCCAC--AAGTCAGTGGCAACTC-ATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTC
* * ** * * * *
150251 AAA-ACC-CATAAGTTAGTGGC-ATCCTTTTCAAAGCCCACAAGTCAGTGGC-A-TCCTTTC
63 AAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTC
* * * ** *
150308 AAAGCCCACACAAGGCGGTGGCAACTCTTTTTTCAAAG-CC-CACAAGTCACT-GC-ATCC-TTT
1 AAAG-CC-CACAAGTCAGTGGCAACTC--ATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTT
** *
150368 GCAAAGCCCACA-AA-TCAATGGC-ATCC-TTTCAAAGCCCACACAAGTCGGTGGCAACT-ATTT
62 -CAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAG-CC-CACAAGTCGGTGGCAACTCA---
150428 TTTC
121 TTTC
* * * * * * *
150432 AAAGCCAACAAGTTAGTGGC-A-TTATTTCAAAG-AC-CACAAGTTGGTAGCAACTCATTTCAAA
1 AAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAA
* *
150493 GCCCACACAAGTCGGTGGCAACCCGTTTCAAAGCCCACACGAGTCGGTGGCAACCCATTTC
66 GCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACA--AGTCGGTGGCAACTCATTTC
* * * * *
150554 AAAGCCCATAAGTCAATGGC-A-TCATCTT-AAAACCCACACAAGTCGGTGGCAACTCATTTGAA
1 AAAGCCCACAAGTCAGTGGCAACTCAT-TTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAA
* * * ** *
150616 AGCCCACACAAGTTGGTGGCAACTCATTTTAAAGCTTATACAAGTCGGTGGCAACCCATTTC
65 AGCCCACACAAGTCGGTGGCAACCCATTTCAAAGC--CCACAAGTCGGTGGCAACTCATTTC
* * * ** * * * *
150678 AAAACCCACAAGTTAGTAGCGTC-CTTTTCAAA-ACC-CACAAGTCAGTGGC-A-TCATTTCAAA
1 AAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAA
* * * *
150738 GCCCACA-AA-TCAGTGGCAACTCATTTCAAAGCCCACACAAGTCAGTGGCAACTCATTTG
66 GCCCACACAAGTCGGTGGCAACCCATTTCAAAG-CC-CACAAGTCGGTGGCAACTCATTTC
* * * * *
150797 AAAGCCCACACTAGTCGGTGGCAACCCGTTTCAAAGCCCACACAAGTTGGTGGTAACCCATTTCA
1 AAAGCCCACA--AGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCA
* * * *
150862 AAG-CC-CACAAGTCAGTGGC-A-TCATTTCAAAGCCCACATAAGTTGGTGGCAACTCATTTG
64 AAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC--AAGTCGGTGGCAACTCATTTC
** * * *
150921 AAAGCCCACACAAGTTGGTGGCAACCCATTTTAAAGCCCACACAAGTCGGTGGAAACCCATTTCA
1 AAAG-CC-CACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCA
* * ** * * * * * *
150986 AA--ACTCACAAGTTAGTGGC-ATCCTTTTTAAAGCCCACAAGTCAGTGGCATC-CTTTTC
64 AAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTC
* * **
151043 AAAGCCCACAAGTCAGTGGC-A-TCCTTTCAAAGCCCACACAAGTCGATGGCAACTCTTTTTTCA
1 AAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC-C-CATTTCA
** * **
151106 AAG-CC-CACAAGTCACTGGC-ATCC-TTTGCAAAGCCCACAAGTCAATGGCAAC-C-TTTC
64 AAGCCCACACAAGTCGGTGGCAACCCATTT-CAAAGCCCACAAGTCGGTGGCAACTCATTTC
** * **
151162 AAAGCCCACACAAGTTGGTGGCAACTCTTTTTTTCAAAG-CC-CACAAGT-GAGTGGC--CTTAT
1 AAAG-CC-CACAAGTCAGTGGCAACTC---ATTTCAAAGCCCACACAAGTCG-GTGGCAACCCAT
* * * * *
151222 TTCAAAG-CC-CACAAGTCGATGGCAACTCATTTCAAAGCCCATATAAGTCGGTGGCAACCCGTT
60 TTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCC--ACAAGTCGGTGGCAACTCATT
151285 TC
123 TC
* ** * * * * * ** *
151287 AAAGCTCACACAAATTGGTGGTAACCCATTTCAAAG--CTCAGAAGTCAGTGGC-A-TTATTTTA
1 AAAGC-C-CACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCA
** ** * * * * *
151348 AAGTGCACACAAGTCGGTGGCAACTTATTTGAAAGCCCACACAAGTTGGTAGCAACCCATTTT
64 AAGCCCACACAAGTCGGTGGCAACCCATTTCAAAG-CC-CACAAGTCGGTGGCAACTCATTTC
* * ** * *
151411 AAAGCTCATACAAGTC-GTTGGCAACCCATTTCAAAG-CC-CACAAGTTAGTGGC-ATCCTTTTC
1 AAAGC-C-CACAAGTCAG-TGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTC
** * * *
151472 AAAG-CC-CACAAGTTAGTGGC-ATCC-TTTTAAAGCCCACACAAGTCGGTGGCAACTCTTTTTT
63 AAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAG-CC-CACAAGTCGGTGGCAACTC--ATTT
*
151533 T
124 C
* * * * *
151534 AAAGCCTACAAGTCAGTGGC-AC-CCTTTCAAAGCCCACACAAGTCAGTGGCAACTCTTTTCAAA
1 AAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAA
*
151597 GCCCACATAAGT
66 GCCCACACAAGT
151609 TAGTGACACC
Statistics
Matches: 2664, Mismatches: 408, Indels: 360
0.78 0.12 0.10
Matches are distributed among these distances:
114 4 0.00
115 29 0.01
116 35 0.01
117 24 0.01
118 156 0.06
119 200 0.08
120 267 0.10
121 258 0.10
122 204 0.08
123 221 0.08
124 971 0.36
125 159 0.06
126 136 0.05
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (124 bp):
AAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAA
GCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCGGTGGCAACTCATTTC
Found at i:148832 original size:335 final size:334
Alignment explanation
Indices: 148213--151603 Score: 2869
Period size: 335 Copynumber: 10.1 Consensus size: 334
148203 CTTTTAAGTC
* * * * * * *
148213 CACAACTCCGTGGCAACACCCTTTTAAAGCCCACAAGTTAGGGGCAT-CATTTCAAAGCCCACAA
1 CACAAGTCGGTGGCAAC-CCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAA
* *
148277 GTTAGTGGCATCC-ATTCAAAGCCCACAAGTCAGTGGC-A-TCATTTCAAAGCCCACAAGTCGGT
65 GTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACAAGTCGGT
* *
148339 GGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAGCTCATTTGAAAGCCCACACAAGTCGGTG
130 GGCAACTCATTTCAAAGCCCACACAAGTCAGTGGCA--TCATTTCAAAGCCCACACAAGTCGGTG
* * * * * *
148404 GCAACCCGTTTCAAAGCCCACACAAGTCGGTGGTAACCCATTTCAAAGCCTACAAGTCTGTGGC-
193 GCAACCCTTTTCAAAG-CC-CACAAGTCAGTGG-CA-TCATTTCAAAGCCCACAAGTCAGTGGCA
* * * *
148468 A-TCATTTCAAAGCCCACATAAGTCGGTGGCAACTCATTTGAAAGGCTACACAAGTTGGTGGCAA
254 ACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTTGGTGGCAA
*
148532 CCCATTTTAAAGCCCA
319 CCCATTTCAAAGCCCA
*
148548 CACAAGTCGGTGGCAACCCATTTCAAAGCTCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAG
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAG
*
148613 TCAGTGGCATCCTTTTCAAAGCCCACAAGTTAGTGGC-A-TCATTTCAAAG-CCACAAGTCGGTG
66 TCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACAAGTCGGTG
* *
148675 GCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAGCTCATTTGAAAGCCCACACAAGTCGGTGG
131 GCAACTCATTTCAAAGCCCACACAAGTCAGTGGCA--TCATTTCAAAGCCCACACAAGTCGGTGG
* * * * * *
148740 CAACCCGTTTCAAAGCCCACACAAGTCGGTGGTAACCCATTTCAAAGCCTACAAGTCTGTGGC-A
194 CAACCCTTTTCAAAG-CC-CACAAGTCAGTGG-CA-TCATTTCAAAGCCCACAAGTCAGTGGCAA
* * * *
148804 -TCATTTCAAAGCCCACATAAGTCGGTGGCAACTCATTTGAAAGGCTACACAAGTTGGTGGCAAC
255 CTCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTTGGTGGCAAC
* *
148868 CCATTTTAAAGCTCA
320 CCATTTCAAAGCCCA
* *
148883 CACAAGTCGGTGGCAACCCATTTCAAAGCTCACAAGTCAGTGGCATCATTTTCAAAGCCCACAAG
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAG
148948 TCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGC-A-TCATTTCAAAGCCCACACAAGTCGG
66 TCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCAACTCATTTCAAAG-CC-CACAAGTCGG
* * * *
149011 TGGCAACTCATTTGAAAGCCCACACAAGTCGGTGGCAACTCGTTTCAAAGCCCATACAAGTCGGT
129 TGGCAACTCATTTCAAAGCCCACACAAGTCAGTGGC-A-TCATTTCAAAGCCCACACAAGTCGGT
* *
149076 GGTAA-CCTATTTCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACACAAGTCAGTGGCA
192 GGCAACCCT-TTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAG-CC-CACAAGTCAGTGGCA
* * * * * * *
149140 ACTCATTTAAAAGCCCGCACAAGTTGGTGGCAACCCATTTTAAAGCCCACATAAGTCGGTGGCAA
254 ACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTTGGTGGCAA
* *
149205 CCCATTTCAAA--ACT
319 CCCATTTCAAAGCCCA
* * * * *
149219 CATAAGTCAGTGGC-ATCCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCTCACAAG
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAG
* *
149283 TCAGTGGCATCC-TTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTTTCAAAGCCCACAAGTC
66 TCAGTGGCATCCTTTTCAAAG-CC-CACAAGTCAGTGGCAACTC--ATTTCAAAGCCCACAAGTC
** * * * * *
149347 ACTAGC-A-TCTTTTGCAAAG-CCA-ACAAGTCAATGGCATCCTTTCAAAGCCCACACAAGTTGG
127 GGTGGCAACTCATTT-CAAAGCCCACACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTCGG
* * * * *
149408 TGGCAACTCTTTTTTCAAAGCCCATAAGTCAGTGGCATTATTTCAAAGCCCATAAGTCGGTGGCA
191 TGGCAAC-C-CTTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCA
* *
149473 ACTCATTTCAAAGCCCATACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTTAGT-GCTA
254 ACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTTGGTGGC-A
*
149537 ACCCGTTTCAAAGCCCA
318 ACCCATTTCAAAGCCCA
* *
149554 CACAAGTCGGTGGCAACCCATTTCAAAGCGCACAAGTCAGTGGCAT-CATTTCAAAGCCCACACA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAG-CC-CACA
* * * * * ** * * *
149618 AGTCGGTGACAACTCATTTGAAAGCCCACACAAGTTTGTGGCAACCCATTTTAAAGCTCATACAA
64 AGTCAGTGGCATC-CTTTTCAAAG-CC-CACAAGTCAGTGGCAACTCATTTCAAAGC-C-CACAA
* * * ** *
149683 GTCGGTGGCAACCCATTTCAAAG-CC-CATAAGTTAGTGGTGTCCTTTTCAAAG-CC-CACAAGT
124 GTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCAGTGGCAT-CATTTCAAAGCCCACACAAGT
* * * *
149744 CAGTGGC-ATCC-TTTCAAAGCCCACACAAGTCGGTGGC-TCTTTTTTCAAAGCCCACAAGTCAG
188 CGGTGGCAACCCTTTTCAAAG-CC-CACAAGTCAGTGGCATC--ATTTCAAAGCCCACAAGTCAG
* * * * *
149806 TGGC-A-TTATTTCAAAG-CC-CACAAGTTGGTAGCAACTTATTTCAAAGCCCACACAAGTTAGT
249 TGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTTGGT
**
149867 GGCAACCTGTTTCAAAGCCCA
314 GGCAACCCATTTCAAAGCCCA
* * * * * *
149888 CACAAGTCGGTGGCAACCCGTTTCAAAGCCCACACAAGTCGGTGGCAACCCATTCCAAAGCCCAT
1 CACAAGTCGGTGGCAACCCATTTCAAAG-CC-CACAAGTCAGTGGC-ATCCTTTTCAAAGCCCAC
* * *
149953 AAGTCAGTGGCAT-CTTTTCAAAACCCACACAAGTCGGTGGCAACTCATTTCAAAACCCACACAA
63 AAGTCAGTGGCATCCTTTTC-AAAGCC-CACAAGTCAGTGGCAACTCATTTC-AAAGCC-CACAA
* * * * ** * * * *
150017 GTTGGCGGCAACCCATTTTAAAGCTTATACAAGTCGGTGGCAACCCATTTTAAAG-CC-CACAAG
124 GTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCAGTGGC-A-TCATTTCAAAGCCCACACAAG
** *** * *
150080 TTAGTGG-TGTCCTTTTCAAAACCCATAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGG
187 TCGGTGGCAACCCTTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGG
* *
150144 CAACTCATTTCAAAGCCCACACAAGTCGGTGAG-AACTCATTTGAAAGCCCACATAAGTTGGTGG
252 CAACTCATTTCAAAGCCCACACAAGTCGGTG-GCAACTCATTTCAAAGCCCACACAAGTTGGTGG
* * * *
150208 AAACCTATTTTAAAGCTCA
316 CAACCCATTTCAAAGCCCA
* * * *
150227 TACAAGTCGGTGGCAACCCATTTCAAAACCCATAAGTTAGTGGCATCCTTTTCAAAGCCCACAAG
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAG
* * *
150292 TCAGTGGCATCC-TTTCAAAGCCCACACAAGGCGGTGGCAACTCTTTTTTCAAAGCCCACAAGTC
66 TCAGTGGCATCCTTTTCAAAG-CC-CACAAGTCAGTGGCAACTC--ATTTCAAAGCCCACAAGTC
** * * *
150356 ACT-GC-A-TCCTTTGCAAAGCCCACA-AA-TCAATGGCATCCTTTCAAAGCCCACACAAGTCGG
127 GGTGGCAACTCATTT-CAAAGCCCACACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTCGG
** * * * * ** *
150416 TGGCAACTATTTTTTCAAAGCCAACAAGTTAGTGGCATTATTTCAAAGACCACAAGTTGGTAGCA
191 TGGCAAC--CCTTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCA
* * * *
150481 ACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCCGTTTCAAAGCCCACACGAGTCGGTGGCAA
254 ACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTTGGTGGCAA
150546 CCCATTTCAAAG-CC-
319 CCCATTTCAAAGCCCA
* ** * * * * * * *
150560 CATAAGTCAATGGC-A-TCATCTTAAAACCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCAC
1 CACAAGTCGGTGGCAACCCAT-TTCAAAGCC-CACAAGTCAGTGGCATC-CTTTTCAAAG-CC-C
** * ** * * *
150623 ACAAGTTGGTGGCAACTCATTTT-AAAGCTTATACAAGTCGGTGGCAACCCATTTCAAAACCCAC
61 ACAAGTCAGTGGC-A-TCCTTTTCAAAGC--CCACAAGTCAGTGGCAACTCATTTCAAAGCCCAC
** * ** * *
150687 AAGTTAGTAGCGTC-CTTTTCAAA-ACC-CACAAGTCAGTGGCATCATTTCAAAGCCCACA-AA-
122 AAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCAGTGGCATCATTTCAAAGCCCACACAAG
* * * *
150747 TCAGTGGCAACTCATTTCAAAGCCCACACAAGTCAGTGGCAACTCATTTGAAAGCCCACACTAGT
187 TCGGTGGCAACCCTTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCATTTCAAAGCCCACA--AGT
* * * * * * *
150812 CGGTGGCAACCCGTTTCAAAGCCCACACAAGTTGGTGGTAACCCATTTCAAAG-CC-CACAAGTC
246 CAGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTT
* *
150875 AGTGGC-A-TCATTTCAAAGCCCA
311 GGTGGCAACCCATTTCAAAGCCCA
* * * * ** *
150897 CATAAGTTGGTGGCAACTCATTTGAAAGCCCACACAAGTTGGTGGCAACCCATTTT-AAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-TTTTCAAAG-CC-
* * * * * * * * * *
150961 CACAAGTCGGTGGAAACCCATTTCAAAACTCACAAGTTAGTGGCATC-CTTTTTAAAGCCCACAA
60 CACAAGTCAGTGG-CATCCTTTTCAAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACAA
* * * *
151025 GTCAGTGGCATC-CTTTTCAAAG-CC-CACAAGTCAGTGGCATCCTTTCAAAGCCCACACAAGTC
124 GTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTC
* * * * *
151087 GATGGCAACTCTTTTTTCAAAGCCCACAAGTCACTGGCATCCTTTGCAAAGCCCACAAGTCAATG
189 GGTGGCAAC-C-CTTTTCAAAGCCCACAAGTCAGTGGCATCATTT-CAAAGCCCACAAGTCAGTG
* *
151152 GCAAC-C-TTTCAAAGCCCACACAAGTTGGTGGCAACTCTTTTTTTCAAAG-CC-CACAAG-TGA
251 GCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTC---ATTTCAAAGCCCACACAAGTTG-
**
151212 GTGGC--CTTATTTCAAAG-CC-
312 GTGGCAACCCATTTCAAAGCCCA
* * * * * *
151231 CACAAGTCGATGGCAACTCATTTCAAAGCCCATATAAGTCGGTGGCAACCCGTTTCAAAGCTCAC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCC--ACAAGTCAGTGGC-ATCCTTTTCAAAGC-C-C
* ** * * * * * * * *
151296 ACAAATTGGTGGTAACCCATTTCAAAGCTCAGAAGTCAGTGGC-A-TTATTTTAAAGTGCACACA
61 ACAAGTCAGTGG-CATCCTTTTCAAAGCCCACAAGTCAGTGGCAACTCATTTCAAA--GCCCACA
* * ** * * * * *
151359 AGTCGGTGGCAACTTATTTGAAAGCCCACACAAGTTGGTAGCAACCCATTTTAAAGCTCATACAA
123 AGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCAGTGGC-A-TCATTTCAAAGCCCACACAA
* * * * *
151424 GTCGTTGGCAACCCATTTCAAAGCCCACAAGTTAGTGGCATCCTTTTCAAAGCCCACAAGTTAGT
186 GTCGGTGGCAACCCTTTTCAAAGCCCACAAGTCAGTGGCAT-CATTTCAAAGCCCACAAGTCAGT
* * * * * **
151489 GGC-A-TCCTTTTAAAGCCCACACAAGTCGGTGGCAACTCTTTTTTTAAAG-CC-TACAAGTCAG
250 GGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTC--ATTTCAAAGCCCACACAAGTTGG
151550 TGGC-ACCC-TTTCAAAGCCCA
313 TGGCAACCCATTTCAAAGCCCA
* * *
151570 CACAAGTCAGTGGCAACTCTTTTCAAAGCCCACA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACA
151604 TAAGTTAGTG
Statistics
Matches: 2563, Mismatches: 364, Indels: 256
0.81 0.11 0.08
Matches are distributed among these distances:
330 8 0.00
331 6 0.00
332 28 0.01
333 183 0.07
334 286 0.11
335 730 0.28
336 388 0.15
337 238 0.09
338 352 0.14
339 263 0.10
340 68 0.03
341 13 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (334 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAG
TCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCAACTCATTTCAAAGCCCACAAGTCGGTG
GCAACTCATTTCAAAGCCCACACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTCGGTGGCA
ACCCTTTTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCAACTCATT
TCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTT
CAAAGCCCA
Found at i:152884 original size:17 final size:16
Alignment explanation
Indices: 152858--152904 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
152848 TTAGATAAGA
*
152858 AAGAAAGAAGATAAAG
1 AAGAAAGAAGAAAAAG
152874 AAGAAATGAAGAAAAAG
1 AAGAAA-GAAGAAAAAG
*
152891 AA-AAAAAAGAAAAA
1 AAGAAAGAAGAAAAA
152905 AAATATGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 8 0.29
16 9 0.32
17 11 0.39
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (16 bp):
AAGAAAGAAGAAAAAG
Found at i:152900 original size:23 final size:24
Alignment explanation
Indices: 152858--152902 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
152848 TTAGATAAGA
* *
152858 AAGAAAGAAGATAAAGAAGAAATG
1 AAGAAAGAAGAAAAAAAAGAAATG
152882 AAGAAA-AAGAAAAAAAAGAAA
1 AAGAAAGAAGAAAAAAAAGAAA
152903 AAAAATATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (24 bp):
AAGAAAGAAGAAAAAAAAGAAATG
Found at i:168984 original size:20 final size:20
Alignment explanation
Indices: 168940--168994 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
168930 AAAAAGACAG
*
168940 AATGTATTGATACATTCATA
1 AATGTATTGATACATTCAAA
* *
168960 CATGTATTGATACATTGAAA
1 AATGTATTGATACATTCAAA
* *
168980 AATGTGTCGATACAT
1 AATGTATTGATACAT
168995 CTGAGTACAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (20 bp):
AATGTATTGATACATTCAAA
Found at i:169036 original size:20 final size:21
Alignment explanation
Indices: 169011--169119 Score: 89
Period size: 20 Copynumber: 4.9 Consensus size: 21
169001 ACAAAGACAG
169011 AATGTATCGATACAT-TGAAA
1 AATGTATCGATACATCTGAAA
*
169031 AATGTATCGATACATCT-ATA
1 AATGTATCGATACATCTGAAA
*
169051 CATGTATCGATACATCTGGGTAAAAAGACA
1 AATGTATCGATACATCT--G-----A-A-A
169081 GAATGTATCGATACAT-TGAAA
1 -AATGTATCGATACATCTGAAA
169102 AATGTATCGATACATCTG
1 AATGTATCGATACATCTG
169120 GGTAAAAATG
Statistics
Matches: 72, Mismatches: 4, Indels: 25
0.71 0.04 0.25
Matches are distributed among these distances:
20 48 0.67
21 4 0.06
22 1 0.01
23 1 0.01
28 2 0.03
30 2 0.03
31 14 0.19
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATCTGAAA
Found at i:169061 original size:71 final size:72
Alignment explanation
Indices: 168930--169119 Score: 276
Period size: 71 Copynumber: 2.7 Consensus size: 72
168920 ATTCTGGAAA
* * * * * *
168930 AAAAAGACAGAATGTATTGATACATTCATACATGTATTGATACAT-TGAAAAATGTGTCGATACA
1 AAAAAGACAGAATGTATCGATACATTGAAAAATGTATCGATACATCTGAAAAATGTATCGATACA
168994 TCTGAGT
66 TCTGAGT
* * *
169001 ACAAAGACAGAATGTATCGATACATTGAAAAATGTATCGATACATCT-ATACATGTATCGATACA
1 AAAAAGACAGAATGTATCGATACATTGAAAAATGTATCGATACATCTGAAAAATGTATCGATACA
*
169065 TCTGGGT
66 TCTGAGT
169072 AAAAAGACAGAATGTATCGATACATTGAAAAATGTATCGATACATCTG
1 AAAAAGACAGAATGTATCGATACATTGAAAAATGTATCGATACATCTG
169120 GGTAAAAATG
Statistics
Matches: 106, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
71 105 0.99
72 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (72 bp):
AAAAAGACAGAATGTATCGATACATTGAAAAATGTATCGATACATCTGAAAAATGTATCGATACA
TCTGAGT
Found at i:169086 original size:51 final size:51
Alignment explanation
Indices: 169031--169127 Score: 160
Period size: 51 Copynumber: 1.9 Consensus size: 51
169021 TACATTGAAA
* *
169031 AATGTATCGATACATCT-ATACATGTATCGATACATCTGGGTAAAAAGACAG
1 AATGTATCGATACAT-TGAAAAATGTATCGATACATCTGGGTAAAAAGACAG
169082 AATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
1 AATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
169128 TGTGACTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
50 1 0.02
51 42 0.98
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (51 bp):
AATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAG
Done.