Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008431.1 Hibiscus syriacus cultivar Beakdansim tig00111221_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 198689
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:1020 original size:20 final size:22
Alignment explanation
Indices: 978--1022 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
968 TTTCATCCTT
978 AACTCTAGTACACATTCACTTA
1 AACTCTAGTACACATTCACTTA
1000 AACTCTAGTACACA-T-ACTTA
1 AACTCTAGTACACATTCACTTA
1020 AAC
1 AAC
1023 CAATCTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 8 0.35
21 1 0.04
22 14 0.61
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.29
Consensus pattern (22 bp):
AACTCTAGTACACATTCACTTA
Found at i:4377 original size:18 final size:18
Alignment explanation
Indices: 4354--4392 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
4344 GGAGCAGCAC
*
4354 GAGGAACAAGCTCCTCCA
1 GAGGAACAACCTCCTCCA
*
4372 GAGGAACAACCTCGTCCA
1 GAGGAACAACCTCCTCCA
4390 GAG
1 GAG
4393 TATCAAATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.31, G:0.26, T:0.10
Consensus pattern (18 bp):
GAGGAACAACCTCCTCCA
Found at i:4684 original size:17 final size:16
Alignment explanation
Indices: 4655--4720 Score: 64
Period size: 16 Copynumber: 4.1 Consensus size: 16
4645 CATTTTAGAT
*
4655 ATTTTGGAATGTTTGA
1 ATTTTGGATTGTTTGA
4671 ATTTGTGGATTGTTTG-
1 ATTT-TGGATTGTTTGA
* *
4687 ACTTTGAATTTGTTTGA
1 ATTTTGGA-TTGTTTGA
4704 ATTTATGGA-TGTTTGA
1 ATTT-TGGATTGTTTGA
4720 A
1 A
4721 CTTATATTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
15 3 0.07
16 22 0.54
17 13 0.32
18 3 0.07
ACGTcount: A:0.23, C:0.02, G:0.24, T:0.52
Consensus pattern (16 bp):
ATTTTGGATTGTTTGA
Found at i:4996 original size:25 final size:25
Alignment explanation
Indices: 4965--5044 Score: 70
Period size: 25 Copynumber: 3.6 Consensus size: 25
4955 TAACAAAAAG
4965 GGGGAGAAATGTTAAAGTGTTTAAA
1 GGGGAGAAATGTTAAAGTGTTTAAA
* *
4990 GGGGAGAAGTGTT--AGAG--T-AA
1 GGGGAGAAATGTTAAAGTGTTTAAA
5010 GGGG-G--ATGTTAAAGTGTTTAAA
1 GGGGAGAAATGTTAAAGTGTTTAAA
*
5032 -GGGAGAAGTGTTA
1 GGGGAGAAATGTTA
5045 GAGTAAGGGG
Statistics
Matches: 42, Mismatches: 5, Indels: 17
0.66 0.08 0.27
Matches are distributed among these distances:
17 4 0.10
19 4 0.10
20 6 0.14
21 5 0.12
22 3 0.07
23 3 0.07
24 5 0.12
25 12 0.29
ACGTcount: A:0.35, C:0.00, G:0.39, T:0.26
Consensus pattern (25 bp):
GGGGAGAAATGTTAAAGTGTTTAAA
Found at i:5013 original size:20 final size:20
Alignment explanation
Indices: 4988--5054 Score: 59
Period size: 20 Copynumber: 3.3 Consensus size: 20
4978 AAAGTGTTTA
4988 AAGGGGAGAAGTGTTAGAGT
1 AAGGGGAGAAGTGTTAGAGT
*
5008 AAGGGG-G-A-TGTTAAAGTGTTT
1 AAGGGGAGAAGTGTT--AGAG--T
*
5029 AAAGGGAGAAGTGTTAGAGT
1 AAGGGGAGAAGTGTTAGAGT
5049 AAGGGG
1 AAGGGG
5055 GAGTAATTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
17 4 0.11
18 1 0.03
19 4 0.11
20 12 0.33
21 6 0.17
22 4 0.11
23 1 0.03
24 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.43, T:0.22
Consensus pattern (20 bp):
AAGGGGAGAAGTGTTAGAGT
Found at i:5048 original size:41 final size:42
Alignment explanation
Indices: 4973--5056 Score: 161
Period size: 41 Copynumber: 2.0 Consensus size: 42
4963 AGGGGGAGAA
4973 ATGTTAAAGTGTTTAAAGGGGAGAAGTGTTAGAGTAAGGGGG
1 ATGTTAAAGTGTTTAAAGGGGAGAAGTGTTAGAGTAAGGGGG
5015 ATGTTAAAGTGTTTAAA-GGGAGAAGTGTTAGAGTAAGGGGG
1 ATGTTAAAGTGTTTAAAGGGGAGAAGTGTTAGAGTAAGGGGG
5056 A
1 A
5057 GTAATTTCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 25 0.60
42 17 0.40
ACGTcount: A:0.35, C:0.00, G:0.39, T:0.26
Consensus pattern (42 bp):
ATGTTAAAGTGTTTAAAGGGGAGAAGTGTTAGAGTAAGGGGG
Found at i:5057 original size:21 final size:21
Alignment explanation
Indices: 4990--5057 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
4980 AGTGTTTAAA
4990 GGGGAGAAGTGTTAGAGTAAG
1 GGGGAGAAGTGTTAGAGTAAG
5011 GGGGATGTTAAAGTGTT----TAA-
1 GGGGA-G---AAGTGTTAGAGTAAG
*
5031 AGGGAGAAGTGTTAGAGTAAG
1 GGGGAGAAGTGTTAGAGTAAG
5052 GGGGAG
1 GGGGAG
5058 TAATTTCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 18
0.64 0.04 0.32
Matches are distributed among these distances:
16 7 0.19
19 1 0.03
20 7 0.19
21 13 0.36
22 1 0.03
25 7 0.19
ACGTcount: A:0.32, C:0.00, G:0.46, T:0.22
Consensus pattern (21 bp):
GGGGAGAAGTGTTAGAGTAAG
Found at i:8786 original size:18 final size:19
Alignment explanation
Indices: 8745--8786 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
8735 CCTTTTTTAT
**
8745 ATATTATTTTATTTCTCTA
1 ATATTATTTTATCCCTCTA
*
8764 TTATTATTTT-TCCCTCTA
1 ATATTATTTTATCCCTCTA
8782 ATATT
1 ATATT
8787 TAATTATATA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (19 bp):
ATATTATTTTATCCCTCTA
Found at i:8936 original size:3 final size:3
Alignment explanation
Indices: 8901--8964 Score: 78
Period size: 3 Copynumber: 21.3 Consensus size: 3
8891 TCCTCTTTAT
* *
8901 TTA TTT TTA TTA ATA TTA -TA TTA -TA TATA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA -TTA TTA TTA
8946 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
8965 GGTTTTGTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 4 0.08
3 43 0.81
4 6 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:19389 original size:5 final size:5
Alignment explanation
Indices: 19375--19415 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
19365 GTCTTAAGTC
*
19375 AAAA- AAAAG AAAAG AAAAG AAAAG AAAAG AACAAA AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA-AAG AAAAG A
19416 GAAAAACGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
4 4 0.12
5 25 0.76
6 4 0.12
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:19399 original size:15 final size:14
Alignment explanation
Indices: 19375--19421 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 14
19365 GTCTTAAGTC
19375 AAAAAAAAGAAAAG
1 AAAAAAAAGAAAAG
19389 AAAAGAAAAGAAAAG
1 AAAA-AAAAGAAAAG
* *
19404 AACAAAAA-AAGAG
1 AAAAAAAAGAAAAG
19417 AAAAA
1 AAAAA
19422 CGTTTAGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 8 0.28
14 8 0.28
15 13 0.45
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAAAG
Found at i:19402 original size:23 final size:23
Alignment explanation
Indices: 19376--19420 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
19366 TCTTAAGTCA
*
19376 AAAAAAAGAAAAGAAA-AGAAAAG
1 AAAAAAACAAAA-AAAGAGAAAAG
*
19399 AAAAGAACAAAAAAAGAGAAAA
1 AAAAAAACAAAAAAAGAGAAAA
19421 ACGTTTAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (23 bp):
AAAAAAACAAAAAAAGAGAAAAG
Found at i:22420 original size:13 final size:14
Alignment explanation
Indices: 22402--22477 Score: 59
Period size: 14 Copynumber: 5.4 Consensus size: 14
22392 TATATTTTTA
*
22402 TATTTTTATTCT-T
1 TATTTTTATTATAT
*
22415 TATTTTTACTATAT
1 TATTTTTATTATAT
*
22429 TATTTTTATTATTTT
1 TATTTTTATTA-TAT
**
22444 TATTACTATTATAT
1 TATTTTTATTATAT
22458 CCT-TTTTTA-TATAT
1 --TATTTTTATTATAT
22472 TATTTT
1 TATTTT
22478 ATTTCTCTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
12 1 0.02
13 14 0.29
14 18 0.37
15 15 0.31
16 1 0.02
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTTTTATTATAT
Found at i:22432 original size:27 final size:26
Alignment explanation
Indices: 22402--22452 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
22392 TATATTTTTA
* *
22402 TATTTTTATTCTTTATTTTTACTATAT
1 TATTTTTATTATTT-TTATTACTATAT
22429 TATTTTTATTATTTTTATTACTAT
1 TATTTTTATTATTTTTATTACTAT
22453 TATATCCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (26 bp):
TATTTTTATTATTTTTATTACTATAT
Found at i:22440 original size:9 final size:9
Alignment explanation
Indices: 22394--22448 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
22384 TATACATATA
22394 TATTTTTA-
1 TATTTTTAT
22402 TATTTTTAT
1 TATTTTTAT
* *
22411 TCTTTATTTT
1 TATTT-TTAT
* *
22421 TA-CTATAT
1 TATTTTTAT
22429 TATTTTTAT
1 TATTTTTAT
22438 TATTTTTAT
1 TATTTTTAT
22447 TA
1 TA
22449 CTATTATATC
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
8 12 0.33
9 20 0.56
10 4 0.11
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.73
Consensus pattern (9 bp):
TATTTTTAT
Found at i:22504 original size:19 final size:19
Alignment explanation
Indices: 22468--22510 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
22458 CCTTTTTTAT
*
22468 ATATTATTTTATTTCTCTA
1 ATATTATTTTATTCCTCTA
*
22487 TTATTATTTT-TTCCCTCTA
1 ATATTATTTTATT-CCTCTA
22506 ATATT
1 ATATT
22511 TAATTATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (19 bp):
ATATTATTTTATTCCTCTA
Found at i:22559 original size:25 final size:25
Alignment explanation
Indices: 22515--22563 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
22505 AATATTTAAT
* *
22515 TATATATGTATCTATACATTTATTA
1 TATATATATATATATACATTTATTA
*
22540 TATATATATATATATTCATTTATT
1 TATATATATATATATACATTTATT
22564 CATTTTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (25 bp):
TATATATATATATATACATTTATTA
Found at i:22661 original size:3 final size:3
Alignment explanation
Indices: 22624--22676 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
22614 TCCTCTTTAT
* * * *
22624 TTA TTT TTA TTA ATA TTA ATA TTA GTA TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
22670 TTA TTA T
1 TTA TTA T
22677 GGTTTTGTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:22704 original size:17 final size:17
Alignment explanation
Indices: 22679--22725 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
22669 ATTATTATGG
22679 TTTTGTTTTCTTTATAT-
1 TTTT-TTTTCTTTATATA
* *
22696 TTATTTTTTATTTATCTA
1 TT-TTTTTTCTTTATATA
22714 TTTTTTTTCTTT
1 TTTTTTTTCTTT
22726 GCTTTTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTTTTTCTTTATATA
Found at i:22722 original size:34 final size:36
Alignment explanation
Indices: 22679--22745 Score: 95
Period size: 34 Copynumber: 1.9 Consensus size: 36
22669 ATTATTATGG
22679 TTTTGTTTTCTTT-ATATTTATTT-TTTATTTATCTA
1 TTTTGTTTTCTTTGAT-TTTATTTATTTATTTATCTA
*
22714 TTTT-TTTTCTTTGCTTTTATTTATTTATTTAT
1 TTTTGTTTTCTTTGATTTTATTTATTTATTTAT
22746 TATGTATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 15 0.52
35 14 0.48
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (36 bp):
TTTTGTTTTCTTTGATTTTATTTATTTATTTATCTA
Found at i:35316 original size:20 final size:20
Alignment explanation
Indices: 35275--35350 Score: 125
Period size: 20 Copynumber: 3.7 Consensus size: 20
35265 TTCGCTTGAG
*
35275 GGGTATCGATTCCCCATTGAAT
1 GGGTACCGATT-CCC-TTGAAT
35297 GGGTACCGATTCCCTTGAAT
1 GGGTACCGATTCCCTTGAAT
35317 GGGTACCGATTCCCTTGAAT
1 GGGTACCGATTCCCTTGAAT
35337 GGGTACCGATTCCC
1 GGGTACCGATTCCC
35351 CTTGCCTAGA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
20 40 0.75
21 3 0.06
22 10 0.19
ACGTcount: A:0.20, C:0.26, G:0.25, T:0.29
Consensus pattern (20 bp):
GGGTACCGATTCCCTTGAAT
Found at i:36285 original size:16 final size:16
Alignment explanation
Indices: 36246--36288 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
36236 AGCATCAGTT
*
36246 CTTATCACTCAAAATC
1 CTTATCAATCAAAATC
* *
36262 ATTAATCAATCAAATTC
1 CTT-ATCAATCAAAATC
36279 CTTATCAATC
1 CTTATCAATC
36289 TTTAATTACC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.35
Consensus pattern (16 bp):
CTTATCAATCAAAATC
Found at i:44648 original size:18 final size:17
Alignment explanation
Indices: 44621--44654 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
44611 AATAATTATT
44621 TTATAATATTTAATAAC
1 TTATAATATTTAATAAC
*
44638 TTATAACTATTTTATAA
1 TTATAA-TATTTAATAA
44655 ATTTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATAATATTTAATAAC
Found at i:62596 original size:70 final size:70
Alignment explanation
Indices: 62470--62608 Score: 199
Period size: 70 Copynumber: 2.0 Consensus size: 70
62460 TTAAGTGATA
* * * * * *
62470 CAAACTCAAATTAACAAGAGAAATTCGGTTCTAGTTAAAATATCAAGAGTTCTGGCATGCTATCA
1 CAAACTCAAATTAACAAGAGAAAATCAGTTCTAATTAAAATATCAAGAATTCTGGCATGCCAGCA
62535 AATAG
66 AATAG
*
62540 CAAACTCAAATTAACAAGAGAAAATCAGTTCTAATTAAAATATCTAGAATGT-TGGCATGCCAGC
1 CAAACTCAAATTAACAAGAGAAAATCAGTTCTAATTAAAATATCAAGAAT-TCTGGCATGCCAGC
62604 AAATA
65 AAATA
62609 TCAAGAAATG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
70 60 0.98
71 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (70 bp):
CAAACTCAAATTAACAAGAGAAAATCAGTTCTAATTAAAATATCAAGAATTCTGGCATGCCAGCA
AATAG
Found at i:82805 original size:30 final size:31
Alignment explanation
Indices: 82753--82813 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
82743 AGCTAGTTTA
82753 AGACAAGTGGTGGGGGTAATTGACAAAGAGT
1 AGACAAGTGGTGGGGGTAATTGACAAAGAGT
*
82784 AGACAAGTGGT-GGGGTCATTGACAAAGAGT
1 AGACAAGTGGTGGGGGTAATTGACAAAGAGT
82814 TGTGAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 18 0.62
31 11 0.38
ACGTcount: A:0.34, C:0.08, G:0.38, T:0.20
Consensus pattern (31 bp):
AGACAAGTGGTGGGGGTAATTGACAAAGAGT
Found at i:86022 original size:24 final size:23
Alignment explanation
Indices: 85969--86022 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
85959 CTAATCTAAG
* *
85969 AAGAAAAAAACAAAATAAAAATA
1 AAGAAGAAAACAAAATAAAAAGA
*
85992 AATGAAGAAAACATATATAAAAAGA
1 AA-GAAGAAAACA-AAATAAAAAGA
86017 AAGAAG
1 AAGAAG
86023 GTTCTTACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 2 0.08
24 13 0.50
25 11 0.42
ACGTcount: A:0.74, C:0.04, G:0.11, T:0.11
Consensus pattern (23 bp):
AAGAAGAAAACAAAATAAAAAGA
Found at i:88594 original size:60 final size:60
Alignment explanation
Indices: 88431--88605 Score: 162
Period size: 60 Copynumber: 2.9 Consensus size: 60
88421 TTTGGATGAA
* * * * * **
88431 TTTGAGGATGAAATTAGAATATTCAAAAGTGTGGGGACCAATTTAGGA-AGAGGTTCATAG
1 TTTGAGGATGAAATTAGAATATTCAAAAGTTTAGAGACAAATTTAGAATAGA-AATCATAG
* * *
88491 TTT-AGAGATAAAATTAGAATGTTCAAAAGTTTA-AGA-ATTAATTTAGAATAGAAATCATAT
1 TTTGAG-GATGAAATTAGAATATTCAAAAGTTTAGAGACA--AATTTAGAATAGAAATCATAG
* * *
88551 TTTGAGGATGAAATTAGAATATTTAAAAATTTAGAGACAAATTTAAAATA-AAATC
1 TTTGAGGATGAAATTAGAATATTCAAAAGTTTAGAGACAAATTTAGAATAGAAATC
88606 CTAATTGAAG
Statistics
Matches: 93, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
59 9 0.10
60 75 0.81
61 8 0.09
62 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (60 bp):
TTTGAGGATGAAATTAGAATATTCAAAAGTTTAGAGACAAATTTAGAATAGAAATCATAG
Found at i:91876 original size:31 final size:31
Alignment explanation
Indices: 91816--91898 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 31
91806 CCCAACAGTT
* *
91816 ATGTT-GGGGACCATATTGCAAACATACTAA
1 ATGTTAGGGGACTATATTGCAAACAGACTAA
**
91846 ATGTTAGGGGACTATATTGCAAATGGACTAA
1 ATGTTAGGGGACTATATTGCAAACAGACTAA
*
91877 ATATTTA-GGGACTATATTGCAA
1 AT-GTTAGGGGACTATATTGCAA
91899 GTTTTAAAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
30 5 0.11
31 38 0.83
32 3 0.07
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (31 bp):
ATGTTAGGGGACTATATTGCAAACAGACTAA
Found at i:95007 original size:182 final size:181
Alignment explanation
Indices: 94643--95263 Score: 811
Period size: 182 Copynumber: 3.4 Consensus size: 181
94633 ATACAAATGA
* * * ** *
94643 AAAAATGTATCGCTCCATAGCAATATAACAGGTAAAAATATGATAAAACCGGTTTC-ATTATGAT
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCACGA-AATGAT
** * * * *
94707 AAAACCGGTAAACCGCTACTGGATATATTGAAAGTATCGATTAGATTTAA-ATACGTATTGACAC
65 AAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGA-TAG--TTAATATAAGTATCGACAC
* *
94771 TTTTGGAATTTAAAAGAGAAGAAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
127 TTTTCGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAT
* * *
94826 AAAAATGTATCGATCCATAACAATATAACATGTATAAGTATGACAAAACCGGTCACGAAATGATA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCACGAAATGATA
* *
94891 AAACCGGTAAAGAGCTACCGGATATATTAAAAGTGTCGATACGTTAATATAAGTATCGACACTTT
66 AAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATA-GTTAATATAAGTATCGACACTTT
* *
94956 TTGAATTTAAAAGGGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAT
130 TCGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAT
* * * * * *
95008 ACAAATGTATTGATCCATAGA-AATATACCAGGTAAGAATATGACAAAACAGGTCTCGAAATGAT
1 AAAAATGTATCGATCCATA-ACAATATAACAGGTAAAAATATGACAAAACCGGTCACGAAATGAT
* *
95072 AAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACA-AT
65 AAAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGAT-AGTTAATATAAGTATCGACACTT
* *
95136 TTCGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGATACTTTAT
129 TTCG-AATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAT
* * * *
95190 GAAAATGTATCGATTCATAACAATATAATAGGTAAAAATATGACAAAACCGGT-ATCGAAATGAC
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCA-CGAAATGAT
95254 AAAACCGGTA
65 AAAACCGGTA
95264 TCGAAAGTAT
Statistics
Matches: 384, Mismatches: 46, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
181 9 0.02
182 283 0.74
183 91 0.24
184 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (181 bp):
AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCACGAAATGATA
AAACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAGTTAATATAAGTATCGACACTTTT
CGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAT
Found at i:95252 original size:20 final size:20
Alignment explanation
Indices: 95229--95269 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
95219 AGGTAAAAAT
95229 ATGACAAAACCGGTATCGAA
1 ATGACAAAACCGGTATCGAA
95249 ATGACAAAACCGGTATCGAA
1 ATGACAAAACCGGTATCGAA
95269 A
1 A
95270 GTATCGACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.15
Consensus pattern (20 bp):
ATGACAAAACCGGTATCGAA
Found at i:97104 original size:22 final size:22
Alignment explanation
Indices: 97053--97108 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
97043 AATGTTTTTG
*
97053 TTTTTTTATATAAAATGATGGTA
1 TTTTATTATATAAAATGAT-GTA
*
97076 TAGTTATTATATAAAATGAT-TAA
1 T-TTTATTATATAAAATGATGT-A
97099 TTTTATTATA
1 TTTTATTATA
97109 AATTCAGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 9 0.32
23 3 0.11
24 16 0.57
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (22 bp):
TTTTATTATATAAAATGATGTA
Found at i:97400 original size:15 final size:15
Alignment explanation
Indices: 97380--97408 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
97370 TGGAGGGGTA
97380 GATTACGGTCAGGGG
1 GATTACGGTCAGGGG
97395 GATTACGGTCAGGG
1 GATTACGGTCAGGG
97409 AAAACAGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.45, T:0.21
Consensus pattern (15 bp):
GATTACGGTCAGGGG
Found at i:98108 original size:17 final size:17
Alignment explanation
Indices: 98086--98121 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
98076 TTTAAATATT
98086 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
98103 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
98120 TC
1 TC
98122 CTAATGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (17 bp):
TCATGAAAAGATATTAA
Found at i:99292 original size:19 final size:18
Alignment explanation
Indices: 99268--99317 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
99258 AAATGTAGGG
99268 TTAATTTTGTATAAGATAT
1 TTAATTTTGTATAAGAT-T
*
99287 TTAATTTTGTATACGATT
1 TTAATTTTGTATAAGATT
99305 TATAATTTTGTAT
1 T-TAATTTTGTAT
99318 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 2 0.07
19 27 0.93
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.56
Consensus pattern (18 bp):
TTAATTTTGTATAAGATT
Found at i:100171 original size:21 final size:21
Alignment explanation
Indices: 100145--100185 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
100135 CCAGATTCGC
100145 AACGCGAACATCGACTATCGT
1 AACGCGAACATCGACTATCGT
*
100166 AACGCGAACTTCGACTATCG
1 AACGCGAACATCGACTATCG
100186 CAATTTTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.20
Consensus pattern (21 bp):
AACGCGAACATCGACTATCGT
Found at i:100269 original size:42 final size:41
Alignment explanation
Indices: 100191--100525 Score: 322
Period size: 42 Copynumber: 7.9 Consensus size: 41
100181 TATCGCAATT
* *
100191 TTCCAAATTCGTTGCGATAGTCCAAGTTCGCATTGCGTTTTA
1 TTCCAAATTCGTTGCGATAGTCCAAGTTC-CGTTGCGATTTA
100233 TTCCAAATTCGTGTTGCGATAGTCCAAGTT-CGTTGCGA--TA
1 TTCCAAATTC--GTTGCGATAGTCCAAGTTCCGTTGCGATTTA
* * * * *
100273 GTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGCGTTGCGA--TA
1 TTCCAAATT--CGTTGCGA--TAGTCCAAGTTC-CGTTGCGATTTA
* * * *
100317 GTCTAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTA
1 TTCCAAATTCGTTGCGATAGTCCAAGTTC-CGTTGCGATTTA
* *
100359 TTCCAAATTCGTTGCGATAGTCGAAGTTCGAGTTGCGATTTA
1 TTCCAAATTCGTTGCGATAGTCCAAGTTC-CGTTGCGATTTA
* *
100401 TTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTA
1 TTCCAAATTCGTTGCGATAGTCCAAGTTC-CGTTGCGATTTA
*
100443 TTCCAAATTAGTTGCGATAGTCCAAGTTCGCGTTGCGATTTA
1 TTCCAAATTCGTTGCGATAGTCCAAGTTC-CGTTGCGATTTA
* *
100485 TTCCAAGTTAGCGTTGCGATTTATTCCAAGTT-CGTTGCGAT
1 TTCCAAATT--CGTTGCGA--TAGTCCAAGTTCCGTTGCGAT
100526 AGTCCAAAAT
Statistics
Matches: 256, Mismatches: 23, Indels: 26
0.84 0.08 0.09
Matches are distributed among these distances:
40 33 0.13
42 161 0.63
44 52 0.20
46 10 0.04
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (41 bp):
TTCCAAATTCGTTGCGATAGTCCAAGTTCCGTTGCGATTTA
Found at i:100296 original size:63 final size:63
Alignment explanation
Indices: 100192--100532 Score: 406
Period size: 63 Copynumber: 5.4 Consensus size: 63
100182 ATCGCAATTT
* * * *
100192 TCCAAATTCGTTGCGATAGTCCAAGTTCGCATTGCGTTTTATTCCAAATTCGTGTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGCGTTGCGATAG
*
100255 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGCGTTGCGATAG
* *
100318 TCTAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT--CGTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGCGTTGCGATAG
* * * * *
100379 TCGAAGTTCGAGTTGCGATTTATTCCAAGTT--CGTTGCGA--TAGTCGAAGTTCGCGTTGCGAT
1 TCCAAGTTC--GTTGCGA--TAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGCGTTGCGA-
*
100440 TTAT
61 -TAG
* * * * *
100444 TCCAAATTAGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTAGCGTTGCGATTTAT
1 TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGCGTTGCGA--TAG
100509 TCCAAGTTCGTTGCGATAGTCCAA
1 TCCAAGTTCGTTGCGATAGTCCAA
100533 AATCGCAACG
Statistics
Matches: 244, Mismatches: 22, Indels: 22
0.85 0.08 0.08
Matches are distributed among these distances:
61 37 0.15
63 145 0.59
65 62 0.25
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.35
Consensus pattern (63 bp):
TCCAAGTTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGCGTTGCGATAG
Found at i:100373 original size:105 final size:101
Alignment explanation
Indices: 100191--100532 Score: 355
Period size: 105 Copynumber: 3.2 Consensus size: 101
100181 TATCGCAATT
* * *
100191 TTCCAAATTCGTTGCGATAGTCCAAGTTCGCATTGCGTTTTATTCCAAATTCGTGTTGCGATAGT
1 TTCCAAATTCGTTGCGATAGTCCAAGTTCG--TTGCG--ATAGTCCAAATTCGCGTTGCGATAGT
* *
100256 CCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTA
62 CCAAATTCGTTGCGATAGTCGAAGTTCGAGTTGCGATTTA
* * * *
100296 TTCCAAATTCGCGTTGCGATAGTCTAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATT
1 TTCCAAATT--CGTTGCGATAGTCCAAGTTCGTTGCGATAGTCCAAATTCGCGTTGCGA--TAGT
100361 CCAAATTCGTTGCGATAGTCGAAGTTCGAGTTGCGATTTA
62 CCAAATTCGTTGCGATAGTCGAAGTTCGAGTTGCGATTTA
* * * *
100401 TTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT--AGTTGCGATAGT
1 TTCCAAATTCGTTGCGATAGTCCAAGTT--CGTTGCGA--TAGTCCAAATTCGCGTTGCGATAGT
* * * * *
100464 CCAAGTTCGCGTTGCGATTTATTCCAAGTTAGCGTTGCGATTTA
62 CCAAATT--CGTTGCGA--TAGTCGAAGTTCGAGTTGCGATTTA
*
100508 TTCCAAGTTCGTTGCGATAGTCCAA
1 TTCCAAATTCGTTGCGATAGTCCAA
100533 AATCGCAACG
Statistics
Matches: 203, Mismatches: 22, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
103 44 0.22
105 86 0.42
107 73 0.36
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (101 bp):
TTCCAAATTCGTTGCGATAGTCCAAGTTCGTTGCGATAGTCCAAATTCGCGTTGCGATAGTCCAA
ATTCGTTGCGATAGTCGAAGTTCGAGTTGCGATTTA
Found at i:100440 original size:84 final size:84
Alignment explanation
Indices: 100191--100504 Score: 372
Period size: 84 Copynumber: 3.7 Consensus size: 84
100181 TATCGCAATT
* *
100191 TTCCAAATTCGTTGCGATAGTCCAAGTTCGCA-TTGCGTTTTATTCCAAATTCGTGTTGCGATAG
1 TTCCAAATTCGTTGCGATAGTCCAAGTTCG-AGTTGCGATTTATTCCAAGTTC--GTTGCGATAG
*
100255 TCCAAGTT--CGTTGCGA--TA
63 TCGAAGTTCGCGTTGCGATTTA
* * * * * * * *
100273 GTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGCGTTGCGA--TAGTCTAAGTTCGTTGCGATA
1 TTCCAAATT--CGTTGCGA--TAGTCCAAGTTCGAGTTGCGATTTATTCCAAGTTCGTTGCGATA
100336 GTCGAAGTTCGCGTTGCGATTTA
62 GTCGAAGTTCGCGTTGCGATTTA
*
100359 TTCCAAATTCGTTGCGATAGTCGAAGTTCGAGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCG
1 TTCCAAATTCGTTGCGATAGTCCAAGTTCGAGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCG
100424 AAGTTCGCGTTGCGATTTA
66 AAGTTCGCGTTGCGATTTA
* *
100443 TTCCAAATTAGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTAGCGTTGCGAT
1 TTCCAAATTCGTTGCGATAGTCCAAGTTCGAGTTGCGATTTATTCCAAGTT--CGTTGCGAT
100505 TTATTCCAAG
Statistics
Matches: 196, Mismatches: 23, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
82 40 0.20
84 123 0.63
86 33 0.17
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (84 bp):
TTCCAAATTCGTTGCGATAGTCCAAGTTCGAGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCG
AAGTTCGCGTTGCGATTTA
Found at i:100633 original size:6 final size:6
Alignment explanation
Indices: 100622--100648 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
100612 GACACGTATT
100622 ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
100649 CAACCCGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:101440 original size:21 final size:21
Alignment explanation
Indices: 101414--101526 Score: 117
Period size: 21 Copynumber: 5.4 Consensus size: 21
101404 ATTTTGGACT
*
101414 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
101435 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
101456 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
101477 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
101498 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
101519 ATCGCAAC
1 ATCGCAAC
101527 ACAAACTTGG
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
19 20 0.27
21 36 0.48
23 19 0.25
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:101472 original size:42 final size:42
Alignment explanation
Indices: 101410--101546 Score: 238
Period size: 42 Copynumber: 3.3 Consensus size: 42
101400 TGCGATTTTG
*
101410 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
101452 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* * *
101494 GACTATCGCAACGAACTTGGAATAAATCGCAACACAAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
101536 GACTATCGCAA
1 GACTATCGCAA
101547 TGCGAATATG
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:101543 original size:21 final size:21
Alignment explanation
Indices: 101407--101546 Score: 103
Period size: 21 Copynumber: 6.7 Consensus size: 21
101397 TGTTGCGATT
*
101407 TTGGACTATCGC-A-ACGAAT
1 TTGGACTATCGCAACACGAAC
* *
101426 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACACGAAC
*
101449 TTCGACTATCGC-A-ACGAAC
1 TTGGACTATCGCAACACGAAC
* *
101468 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACACGAAC
*
101491 TTCGACTATCGC-A-ACGAAC
1 TTGGACTATCGCAACACGAAC
* *
101510 TTGGAATAAATCGCAACACAAAC
1 TTGGACT--ATCGCAACACGAAC
101533 TTGGACTATCGCAA
1 TTGGACTATCGCAA
101547 TGCGAATATG
Statistics
Matches: 93, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
19 26 0.28
20 2 0.02
21 32 0.34
22 3 0.03
23 30 0.32
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (21 bp):
TTGGACTATCGCAACACGAAC
Found at i:102076 original size:198 final size:198
Alignment explanation
Indices: 101738--102548 Score: 1432
Period size: 198 Copynumber: 4.1 Consensus size: 198
101728 TTATTTTCTC
* *
101738 TATTTAATTTGTGTCAATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGTAAATGTGTC
1 TATTTAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGAAATGTGTC
* * * *
101803 AATACATTTATAAAAAGTATCGATCCCAAAAATATCAAGACCCATAATTACAATGTAATAGGTAA
66 GATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAATAGGTAA
101868 ATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGAC
131 ATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGAC
101933 ACT
196 ACT
101936 TATTTAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGAAATGTGTC
1 TATTTAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGAAATGTGTC
102001 GATACATTTATAAAAAGTATCGATCCC-AAAACAATCGAGACCCATAATTATAATGTAATAGGTA
66 GATACATTTATAAAAAGTATCGATCCCAAAAAC-ATCGAGACCCATAATTATAATGTAATAGGTA
*
102065 AATTATGAATCTAATCGGTCTAAATACACCGGTTTATGAGAAAAC-GGTGTACATAAAGTATCGA
130 AATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGA
102129 CACT
195 CACT
* *
102133 TGTTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGAAATGTGTC
1 TATTTAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGAAATGTGTC
*
102198 GATATATTTA-ATAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAATAGGTA
66 GATACATTTATA-AAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAATAGGTA
* *
102262 AATTATGAATCTAACCGGTCTAAATACACCGATTTATGAGAAAACAGGTGTACATAAAGTATCAA
130 AATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGA
102327 CACT
195 CACT
102331 TATTTAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGAAATGTGTC
1 TATTTAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGAAATGTGTC
* * *
102396 GATACATTTATAACAAGTATTGATCCCAAAAACATCGAGACCCATAATTATAACGTAATAGGTAA
66 GATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAATAGGTAA
102461 ATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGAC
131 ATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGAC
102526 ACT
196 ACT
102529 CT-TTTAATTTGTGTCGATAC
1 -TATTTAATTTGTGTCGATAC
102549 ATTTATAAAA
Statistics
Matches: 586, Mismatches: 21, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
196 1 0.00
197 188 0.32
198 395 0.67
199 2 0.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (198 bp):
TATTTAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGAAATGTGTC
GATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAATAGGTAA
ATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGAC
ACT
Found at i:102473 original size:395 final size:396
Alignment explanation
Indices: 101743--102548 Score: 1431
Period size: 395 Copynumber: 2.0 Consensus size: 396
101733 TTCTCTATTT
* *
101743 AATTTGTGTCAATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGTAAATGTGTCAATAC
1 AATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGAAATGTGTCAATAC
*
101808 ATTTATAAAAAGTATCGATCCCAAAAATATCAAGACCCATAATTACAATGTAATAGGTAAATTAT
66 ATTTATAAAAAGTATCGATCCCAAAAACATCAAGACCCATAATTACAATGTAATAGGTAAATTAT
* *
101873 GAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGACACTTA
131 GAATCTAACCGGTCTAAATACACCGATTTATGAGAAAACAGGTGTACATAAAGTATCAACACTTA
101938 TTTAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGAAATGTGTCGA
196 TTTAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGAAATGTGTCGA
*
102003 TACATTTATAAAAAGTATCGATCCCAAAACAATCGAGACCCATAATTATAATGTAATAGGTAAAT
261 TACATTTATAAAAAGTATCGATCCCAAAACAATCGAGACCCATAATTATAACGTAATAGGTAAAT
*
102068 TATGAATCTAATCGGTCTAAATACACCGGTTTATGAGAAAAC-GGTGTACATAAAGTATCGACAC
326 TATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGACAC
102132 T-TGTTG
391 TCT-TTG
* *
102138 AATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGAAATGTGTCGATAT
1 AATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGAAATGTGTCAATAC
* *
102203 ATTTA-ATAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAATTA
66 ATTTATA-AAAAGTATCGATCCCAAAAACATCAAGACCCATAATTACAATGTAATAGGTAAATTA
102267 TGAATCTAACCGGTCTAAATACACCGATTTATGAGAAAACAGGTGTACATAAAGTATCAACACTT
130 TGAATCTAACCGGTCTAAATACACCGATTTATGAGAAAACAGGTGTACATAAAGTATCAACACTT
102332 ATTTAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGAAATGTGTCG
195 ATTTAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGAAATGTGTCG
* *
102397 ATACATTTATAACAAGTATTGATCCCAAAA-ACATCGAGACCCATAATTATAACGTAATAGGTAA
260 ATACATTTATAAAAAGTATCGATCCCAAAACA-ATCGAGACCCATAATTATAACGTAATAGGTAA
102461 ATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGAC
324 ATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGAC
*
102526 ACTCTTTT
389 ACTCTTTG
102534 AATTTGTGTCGATAC
1 AATTTGTGTCGATAC
102549 ATTTATAAAA
Statistics
Matches: 393, Mismatches: 14, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
394 2 0.01
395 350 0.89
396 40 0.10
397 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (396 bp):
AATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGAAATGTGTCAATAC
ATTTATAAAAAGTATCGATCCCAAAAACATCAAGACCCATAATTACAATGTAATAGGTAAATTAT
GAATCTAACCGGTCTAAATACACCGATTTATGAGAAAACAGGTGTACATAAAGTATCAACACTTA
TTTAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGAAATGTGTCGA
TACATTTATAAAAAGTATCGATCCCAAAACAATCGAGACCCATAATTATAACGTAATAGGTAAAT
TATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTATCGACAC
TCTTTG
Found at i:103001 original size:15 final size:15
Alignment explanation
Indices: 102981--103032 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
102971 AGAATCGGGG
* *
102981 CTCTTCTCAACCCAT
1 CTCTTCTCAAACCAC
*
102996 CTCTTCTCAATCCAC
1 CTCTTCTCAAACCAC
*
103011 CTCTTCTCAAACCAG
1 CTCTTCTCAAACCAC
103026 CTCTTCT
1 CTCTTCT
103033 GAGGAAATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.19, C:0.44, G:0.02, T:0.35
Consensus pattern (15 bp):
CTCTTCTCAAACCAC
Found at i:104141 original size:6 final size:6
Alignment explanation
Indices: 104117--104174 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
104107 CAAGCGGTCA
* * * * * *
104117 ATGAAG ATGACG ATAAAG ATGAAG AAGAAG ATGATG ATGATG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
*
104165 ATGATG ATGA
1 ATGAAG ATGA
104175 TCCAAACAAG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.45, C:0.02, G:0.31, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:104152 original size:3 final size:3
Alignment explanation
Indices: 104146--104175 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
104136 TGAAGAAGAA
104146 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
104176 CCAAACAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:106023 original size:201 final size:200
Alignment explanation
Indices: 105587--106304 Score: 878
Period size: 201 Copynumber: 3.6 Consensus size: 200
105577 ATGATAAGGG
* * *
105587 TCCCAAAAACATCGAGACCCATAATTATAATGTAATAGGTAAAATAACAATGTAACCGGTCTAAA
1 TCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAAA
** * * *
105652 TATACCGGTTTATGAGAAAAGAGGTATACATAAAGTATCGACGCTTTATACATTTGTGTCGATAC
66 TATACCCTTTTATGAGAAAAGAGGTATACATAATGTATCGACACTTTATACATTTGTGTCTATAC
* * * *
105717 TTTTTGTCCATAATGTATTTTCCAACCAAAACAAGTTCAC-AAATAAGTATCGATACATTTATAT
131 ATTTTGTCCATAATGTATTTT----CC-AAACAAGTTCACGAAAAAAGTGTCGATACATTTATAA
105781 CAAGTGTCGA
191 CAAGTGTCGA
* * * * * * *
105791 TCCCAAAAACATCGAAACCCATAACTATAATGTAATAGGTCACTTTATAATGTAACCGGTTTAAA
1 TCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAAA
* * * *
105856 TTTACCACTTTTATGAGAAAATG-GGTCTACA-ATATGTATCGACACTTTATTCATTAGTGTCTA
66 TATACC-CTTTTATGAGAAAA-GAGGTATACATA-ATGTATCGACACTTTATACATTTGTGTCTA
* * * *
105919 TACATGTTGTCCAGAATGTA-TTTCCAAACCAAGTGCACGAAAAAAGTGTTGATACATTTATAAC
128 TACATTTTGTCCATAATGTATTTTCCAAA-CAAGTTCACGAAAAAAGTGTCGATACATTTATAAC
105983 AAGTGTCGA
192 AAGTGTCGA
105992 TCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAAA
1 TCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAAA
* * * * * *
106057 TATA-CCTGTTATTAAAAAAGAAAGGTATACATAATGTATCGATAGTTTATACATTTGTGT-T-G
66 TATACCCTTTTATGAGAAAAG--AGGTATACATAATGTATCGACACTTTATACATTTGTGTCTAT
**
106119 ACACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACG-AAAAAGTGTCGATACATTTATAAC
129 ACA-TTT-TGTCCATAATGTATTTTCCAAACAAGTTCACGAAAAAAGTGTCGATACATTTATAAC
106183 AAGTGTCGA
192 AAGTGTCGA
*
106192 TCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTATAAA
1 TCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAAA
** * * * *
106257 TATA-CCGATTATTAAAAAAAAGGTATACATAATGTATCGATACTTTAT
66 TATACCCTTTTATGAGAAAAGAGGTATACATAATGTATCGACACTTTAT
106305 GTCCATAATA
Statistics
Matches: 449, Mismatches: 53, Indels: 30
0.84 0.10 0.06
Matches are distributed among these distances:
198 28 0.06
199 17 0.04
200 127 0.28
201 140 0.31
202 9 0.02
204 66 0.15
205 61 0.14
206 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (200 bp):
TCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGGTCTAAA
TATACCCTTTTATGAGAAAAGAGGTATACATAATGTATCGACACTTTATACATTTGTGTCTATAC
ATTTTGTCCATAATGTATTTTCCAAACAAGTTCACGAAAAAAGTGTCGATACATTTATAACAAGT
GTCGA
Found at i:106322 original size:177 final size:175
Alignment explanation
Indices: 106121--106479 Score: 637
Period size: 177 Copynumber: 2.0 Consensus size: 175
106111 TTGTGTTGAC
106121 ACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAAG
1 ACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAAG
106186 TGTCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGG
66 TGTCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGG
*
106251 TATAAATATACCGATTATTAAAAAAAAGGTATACATAATGTATCGAT
131 TATAAATATACCGATTATT-AAAAAAA-GTATACATAATGCATCGAT
106298 ACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAAG
1 ACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAAG
* * *
106363 TGTCGATCCCAAAAACATTGAAACCCGTAATTATAATGTAATAGGTAACATAACAATGTAACCGG
66 TGTCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGG
* * *
106428 TCTAAATATATCGGTTATTAAAAAAAGTATACATAATGCATCGAT
131 TATAAATATACCGATTATTAAAAAAAGTATACATAATGCATCGAT
106473 ACTTTAT
1 ACTTTAT
106480 ACATTTGTGT
Statistics
Matches: 175, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
175 25 0.14
176 7 0.04
177 143 0.82
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (175 bp):
ACTTTATGTCCATAATAAATTTTCCAAACAAGTTCACGAAAAAGTGTCGATACATTTATAACAAG
TGTCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAACCGG
TATAAATATACCGATTATTAAAAAAAGTATACATAATGCATCGAT
Found at i:110483 original size:23 final size:23
Alignment explanation
Indices: 110437--110484 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
110427 AAATAGGTTA
*
110437 ATATAAGCGCTACATATTACATT
1 ATATAAGCGCTACATAATACATT
* *
110460 ATATAAGCGCTACCTAATATATT
1 ATATAAGCGCTACATAATACATT
110483 AT
1 AT
110485 TGTACTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTACATAATACATT
Found at i:110571 original size:23 final size:23
Alignment explanation
Indices: 110521--110565 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
110511 TGTCTATTTT
*
110521 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
110544 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
110566 TGTTATTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:110597 original size:87 final size:87
Alignment explanation
Indices: 110437--110598 Score: 270
Period size: 87 Copynumber: 1.9 Consensus size: 87
110427 AAATAGGTTA
110437 ATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATATTATTGTACTTGATAATATTT
1 ATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATATTATTGTACTTGATAATATTT
*
110502 CCGGTTAAATGTCTATTTTATT
66 CCGATTAAATGTCTATTTTATT
* * *
110524 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATATTATTGTACTTGATAATATTT
**
110589 TTGATTAAAT
66 CCGATTAAAT
110599 AATATAGCAT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATATTATTGTACTTGATAATATTT
CCGATTAAATGTCTATTTTATT
Found at i:111420 original size:198 final size:197
Alignment explanation
Indices: 111028--111547 Score: 595
Period size: 198 Copynumber: 2.6 Consensus size: 197
111018 AGATTTTGTT
** *
111028 TCGATACATTTATAACA-AGTATCGATCCC-AAAATCAAAGAGACCGATAATTATAATGTAATAG
1 TCGATACATTTA-AA-ATAGTATCGATCCCGAAAA-CATCGAAACCGATAATTATAATGTAATAG
** *
111091 GTAAATTTCCAATGTAACCGG-TAGAAATATACCGGATTCATGAGAGAATAGGTCAACATAAAGT
63 GTAAATTTATAATGTAACCGGTTA-AAATATACCGG-TTAATGAGAGAATAGGTCAACATAAAGT
* * * * * *
111155 ATCGACACTTTTTTAATTTGGGTCGATACTTTTTTCCAAAATAAATGGCAAACGAGGTGTACGCA
126 ATCGACACTCTTTAAATATAGGTCGATACTTTTTTCCAAAATAAATGACAAACGAGGTGCACGCA
111220 TAAAGTG
191 TAAAGTG
* * * * *
111227 TCGATACATTTGTAAAA-AGTTTCGATCCTCG-AAACATCGAAATCGATAATTATTATGTAACAA
1 TCGATACA-TT-TAAAATAGTATCGATCC-CGAAAACATCGAAACCGATAATTATAATGTAATAG
* * * * *
111290 GTAAATTTATAATGTAACCGGTTAAAATATATCGGTTAATTAGCA-AATAGGTCTACATTATGTA
63 GTAAATTTATAATGTAACCGGTTAAAATATACCGGTTAATGAG-AGAATAGGTCAACATAAAGTA
* * *
111354 TCGATACTCTTTAAATATATGTCGATACTTTTTTCCAAAATAAA-GCACAAACGAGTTGCACGCA
127 TCGACACTCTTTAAATATAGGTCGATACTTTTTTCCAAAATAAATG-ACAAACGAGGTGCACGCA
111418 TAAAGTG
191 TAAAGTG
* * *
111425 TCGATACATTTAAAATTGTATCGATCCCGAAAACATCGAAACCGATATTTATAATGTAATAGGTC
1 TCGATACATTTAAAATAGTATCGATCCCGAAAACATCGAAACCGATAATTATAATGTAATAGGTA
* * * * *
111490 AATTTATAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCAATATAA
66 AATTTATAATGTAACCGGTTAAAATATACCGG-TTAATGAGAGAATAGGTCAACATAA
111548 GAGCTACCTA
Statistics
Matches: 269, Mismatches: 41, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
196 7 0.03
197 71 0.26
198 108 0.40
199 71 0.26
200 10 0.04
201 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (197 bp):
TCGATACATTTAAAATAGTATCGATCCCGAAAACATCGAAACCGATAATTATAATGTAATAGGTA
AATTTATAATGTAACCGGTTAAAATATACCGGTTAATGAGAGAATAGGTCAACATAAAGTATCGA
CACTCTTTAAATATAGGTCGATACTTTTTTCCAAAATAAATGACAAACGAGGTGCACGCATAAAG
TG
Found at i:111641 original size:87 final size:87
Alignment explanation
Indices: 111542--111704 Score: 274
Period size: 87 Copynumber: 1.9 Consensus size: 87
111532 AAATAGGTCA
* *
111542 ATATAAGAGCTACCTATTATATTATATAAGCGCTACCTAATTTGTTATTGTACTTGATAATATTT
1 ATATAAGAGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
111607 CCGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
*
111629 ATATAA-ACGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATATT
1 ATATAAGA-GCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATT
*
111693 TCTGGTTAAATG
65 TCCGGTTAAATG
111705 ATATAACATA
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
86 1 0.01
87 70 0.99
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (87 bp):
ATATAAGAGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:111676 original size:23 final size:23
Alignment explanation
Indices: 111626--111670 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
111616 TGCCTATTTT
*
111626 ATTATATAAACGCTACCTATTAC
1 ATTATATAAACGCTACCTAATAC
*
111649 ATTATATAAGCGCTACCTAATA
1 ATTATATAAACGCTACCTAATA
111671 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (23 bp):
ATTATATAAACGCTACCTAATAC
Found at i:112232 original size:14 final size:14
Alignment explanation
Indices: 112213--112243 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
112203 CGCACAAACA
112213 CACTCCTCTTATAT
1 CACTCCTCTTATAT
*
112227 CACTCCTCTTATGT
1 CACTCCTCTTATAT
112241 CAC
1 CAC
112244 CGGTTGTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.39, G:0.03, T:0.39
Consensus pattern (14 bp):
CACTCCTCTTATAT
Found at i:118204 original size:21 final size:23
Alignment explanation
Indices: 118152--118209 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
118142 ATCAAGCACA
* * *
118152 ATAACATATTAGGTAGTGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
118175 ATAATATAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
118198 ATAATAAAATAG
1 ATAATATAATAG
118210 ACATTTAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:122672 original size:199 final size:200
Alignment explanation
Indices: 122317--122885 Score: 700
Period size: 199 Copynumber: 2.8 Consensus size: 200
122307 CGCGTAATTT
* * * * * *
122317 TAAAAAGTATCGACACGAATTTAAAAAGTGTCGACACATTATGTTGACCTATTTTCT-ATTTACA
1 TAAAAAGTATCGACAC-AAATTAAAAAGTGTCGATACATTATGTAGACCTATTTACTCA-TAAAA
* * * *
122381 CCAGTAAATTTCAACCGGTTACATTGTAAATTAACCTATTACATTATAATTTTTGGTCTCGATGT
64 CCGGTAAATTTAAACCGGTTACATTGTAAATTAACCTATTACATTATAATTTTCGGTATCGATGT
* ** *
122446 ATTTGGGGTCGATACTTTT-TATAAATGTATCGAAACTTTATGCGTGGACATCGGTT-GGCATTA
129 ATTTGGGGTCGATACTTTTAT-TAAATGTATCGAAACTTTAAGCGTGGACATAAGTTGGGAATTA
122509 ATTATGGA
193 ATTATGGA
* * * *
122517 -CATAATTATCGACACAAATGTAAAAAGTATCGATACATTATGTAGACCTATTTACTCATAAAAC
1 TAAAAAGTATCGACACAAAT-TAAAAAGTGTCGATACATTATGTAGACCTATTTACTCATAAAAC
* * * *
122581 TGGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTTTCGGTATCTATGTA
65 CGGTAAATTTAAACCGGTTACATTGTAAATTAACCTATTACATTATAATTTTCGGTATCGATGTA
* * * *
122646 TTTGGGGTCGATACTTTTATTAAATGTATCGACACTTTAAGCGTGTACATAATTTGGGAATTCAT
130 TTTGGGGTCGATACTTTTATTAAATGTATCGAAACTTTAAGCGTGGACATAAGTTGGGAATTAAT
122711 TATGGA
195 TATGGA
* * *
122717 TAAAAAGTATCGACACAAATAAATAAAGTGTTGATACATTATTTAGACCTATTTTA-TCATAAAA
1 TAAAAAGTATCGACACAAATTAA-AAAGTGTCGATACATTATGTAGACCTA-TTTACTCATAAAA
* * * *
122781 CCGGTAAATTTAAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGT
64 CCGGTAAATTTAAACCGGTTACATTGTAAATTAACCTATTACATTATAATTTTCGGTATCGATGT
* * *
122846 TTTTGGGATCGACACTTGTTA-TAAATGTATCAGAAACTTT
129 ATTTGGGGTCGATACTT-TTATTAAATGTATC-GAAACTTT
122886 GTTGTGCACT
Statistics
Matches: 316, Mismatches: 44, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
198 3 0.01
199 152 0.48
200 17 0.05
201 130 0.41
202 14 0.04
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (200 bp):
TAAAAAGTATCGACACAAATTAAAAAGTGTCGATACATTATGTAGACCTATTTACTCATAAAACC
GGTAAATTTAAACCGGTTACATTGTAAATTAACCTATTACATTATAATTTTCGGTATCGATGTAT
TTGGGGTCGATACTTTTATTAAATGTATCGAAACTTTAAGCGTGGACATAAGTTGGGAATTAATT
ATGGA
Found at i:123258 original size:199 final size:199
Alignment explanation
Indices: 122768--123465 Score: 1060
Period size: 199 Copynumber: 3.5 Consensus size: 199
122758 TTTAGACCTA
* * * *
122768 TTTTATCATAAAACCGGTAAATTTAAACCGGTTACATTGTAAATTTACCTATTACATTATAATTA
1 TTTTCTCAT-AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTA
*
122833 TGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCAGAAACTTTGTTGTGCACTTG
65 TGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATC-GACACTTTGTTGTGCACTTG
* *
122898 GTTTTTAAAATACACTCTGGACAATAAGTATCGACACTTGTTAGATTTGTGTCGATACTTTATGT
129 GTTTTTAAAATACACTCTGGACAAAAAGTATCGACACTTGTT-TATTTGTGTCGATACTTTATGT
122963 ATA-TTG
193 ATACTTG
* * * *
122969 TTTTCTCATAAACCGGTATATTTATACCAGTTACATTGTTAATTTACATATTACATTATAATGAT
1 TTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTAT
123034 GGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGT
66 GGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGT
*
123099 TTTTAAAATACACTCTGGACAAAAAGTATCGACACTTGTTTCATTTGTGTCGATACTTTATATAT
131 TTTTAAAATACACTCTGGACAAAAAGTATCGACACTTGTTT-ATTTGTGTCGATACTTTATGTAT
*
123164 ACATG
195 ACTTG
* *
123169 TTTTCTCATAAATCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTATATTATAATTAT
1 TTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTAT
* *
123234 GGGTTTCGATGTTTTT-GAATCGACACTTATTATAAATGTATCGACACTTTGTTGTGCACTTGGT
66 GGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGT
** *
123298 TTTTAAAATACAGGCTGGACAAAAAGTATCGACACTTATTGTATTTGTGTCGATACTTTATGTAT
131 TTTTAAAATACACTCTGGACAAAAAGTATCGACACTTGTT-TATTTGTGTCGATACTTTATGTAT
123363 ACTTG
195 ACTTG
* * * * *
123368 TTTTCTCAAAAACCGGTATATTTAGGCCGGTTATATTATTATTTTACCTATTACATTAT-ATCTA
1 TTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAAT-TA
* * * *
123432 TGTGTTTCAATGTTTTTAGTATCGACACTTGTTA
65 TGGGTTTCGATGTTTTTGGGATCGACACTTGTTA
123466 GTGCACTTGG
Statistics
Matches: 456, Mismatches: 36, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
198 2 0.00
199 261 0.57
200 185 0.41
201 8 0.02
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (199 bp):
TTTTCTCATAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTAT
GGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGT
TTTTAAAATACACTCTGGACAAAAAGTATCGACACTTGTTTATTTGTGTCGATACTTTATGTATA
CTTG
Found at i:123519 original size:179 final size:178
Alignment explanation
Indices: 123271--123640 Score: 641
Period size: 179 Copynumber: 2.1 Consensus size: 178
123261 TATTATAAAT
* *
123271 GTATCGACACTTTGTTGTGCACTTGGTTTTTAAAATACAGGCTGGACAAAAAGTATCGACACTTA
1 GTATCGACAC-TTGTTGTGCACTTGGTTTATAAAATACACGCTGGACAAAAAGTATCGACACTTA
* *
123336 TTGTATTTGTGTCGATACTTTATGTATACTTGTTTTCTCAAAAACCGGTATATTTAGGCCGGTTA
65 TTGTATTTGTGTCGATACTTTATGTATACATGTTTTCTCAAAAACCGGTACATTTAGGCCGGTTA
* *
123401 TATTATTATTTTACCTATTACATTATATCTATGTGTTTCAATGTTTTTA
130 CATTATTATTTTACCTATTACATTATATCTATGTATTTCAATGTTTTTA
123450 GTATCGACACTTGTTAGTGCACTTGGTTTATAAAATACACGCTGGACAAAAAGTATCGACACTTA
1 GTATCGACACTTGTT-GTGCACTTGGTTTATAAAATACACGCTGGACAAAAAGTATCGACACTTA
*
123515 TTGTATTTGTGTCGATACTTTATGTATACATGTTTTCTCAAAAATCGGTACATTTAGGCCGGTTA
65 TTGTATTTGTGTCGATACTTTATGTATACATGTTTTCTCAAAAACCGGTACATTTAGGCCGGTTA
* *
123580 CATTGTTATTTTACCTATTACATTATATCTATGTATTTCGATGTTTTTA
130 CATTATTATTTTACCTATTACATTATATCTATGTATTTCAATGTTTTTA
123629 GTATCGACACTT
1 GTATCGACACTT
123641 ATTATAAATG
Statistics
Matches: 181, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
178 5 0.03
179 176 0.97
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (178 bp):
GTATCGACACTTGTTGTGCACTTGGTTTATAAAATACACGCTGGACAAAAAGTATCGACACTTAT
TGTATTTGTGTCGATACTTTATGTATACATGTTTTCTCAAAAACCGGTACATTTAGGCCGGTTAC
ATTATTATTTTACCTATTACATTATATCTATGTATTTCAATGTTTTTA
Found at i:123655 original size:21 final size:21
Alignment explanation
Indices: 123629--123682 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
123619 GATGTTTTTA
123629 GTATCGACACTTATTATAAAT
1 GTATCGACACTTATTATAAAT
*
123650 GTATCGACACTTGTTATAAAT
1 GTATCGACACTTATTATAAAT
123671 GTATCGACACTT
1 GTATCGACACTT
123683 TTTTCGTGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (21 bp):
GTATCGACACTTATTATAAAT
Found at i:123954 original size:24 final size:24
Alignment explanation
Indices: 123917--123963 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
123907 ATTTACATTT
123917 AAATTCAAACTCAAACTCAAATTG
1 AAATTCAAACTCAAACTCAAATTG
* * *
123941 AAATTTAAATTCAAACTCTAATT
1 AAATTCAAACTCAAACTCAAATT
123964 ATAAATGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (24 bp):
AAATTCAAACTCAAACTCAAATTG
Found at i:126560 original size:15 final size:15
Alignment explanation
Indices: 126540--126568 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
126530 AGGAGGTTGT
126540 GGTTGAGAAGAGCTG
1 GGTTGAGAAGAGCTG
126555 GGTTGAGAAGAGCT
1 GGTTGAGAAGAGCT
126569 TTGAGAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.07, G:0.45, T:0.21
Consensus pattern (15 bp):
GGTTGAGAAGAGCTG
Found at i:127365 original size:199 final size:199
Alignment explanation
Indices: 126912--128407 Score: 2264
Period size: 199 Copynumber: 7.5 Consensus size: 199
126902 TTTTCAAATT
* * * *
126912 AAACCAGTATTTTTATACCTGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* * *
126977 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGAAACTTTGTT-GTGCACTTGGTTTTTAAAA
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTT-TTAGTGCACTTGG-TTTTGAAA
* * ** * * **
127041 TACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATAAATGTTT
129 TACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTT
*
127106 TCTCAT
194 TCTCAA
* *
127112 AAACCGATATATTTAGACTGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
127177 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
*
127242 CATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTC
*
127307 TAAA
196 TCAA
* *
127311 AAACCGGTATATTTAGACCAGTTAAATTGTTAATTTACCTATTAC-TTCATAATTATGGGTTTCG
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATT-ATAATTATGGGTTTCG
* * * * * **
127375 ATATTTTTGGGATCGACAATTGTTATAAATGTATCGACACTTTTTCGTGCCCTTGGTTAAGAAAT
65 ATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAAT
*
127440 ACATTCTGGACCAAAAGTATCGACACTTGTTTTAGTTGTGTCGATACTTTTTGTACACCTGTTTT
130 ACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTT
127505 CTCAA
195 CTCAA
* * * *
127510 AAA-TGGTATATTTAGACCGGTTACATTGCTAATTTACCTATTACATTATAATTATAGGTTTCAA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* *
127574 TATTTTTGGGATCGACACTTCTTATAAATGTATCAACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
127639 CATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTT-
127704 CTCAA
195 CTCAA
* * *
127709 AAATCGGTATATTTAGACC-GTTAAATTGTTAATTTACCTATTACATCATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* * * * ** * **
127773 TGTTTCTGGGATCGACACTTGTTATAAGTGTATCGACAATTTTCCGTGCATTTGGTTCAGAAATA
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * * *
127838 CATTCTGGACCAAAAGTATCGACACTTGTTTTAGTTATGTCGATACTTTTTGTACACTTATTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTC
127903 TCAA
196 TCAA
* * *
127907 AAACCGGTATATTTAGACCAGTTATATTGCTAATTTACCTATTACATTATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* *
127972 TGTTTTTGGGATC-ACACTTCCTATAAATGTATCGATACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
** *
128036 CATTCTATACCAAAAGTATCGACACTTGTTTTATTTGTGTTGATACTTTTTGTACACCTGTTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTC
128101 TCAA
196 TCAA
* * * *
128105 AAACCGATATATTTAGACCGGTTAAATTGTTAATTTACCTATTATATCATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
* * *
128170 TGTTTTTGGAATCGACACTTGTTATAAATATATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
* * * *
128235 CATTCTGGACCAAAAGTATCGACACTTGTTTTAGTTGTGTCGATATTTTTTGTACACTTATTTTC
131 CATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTC
*
128300 TTAA
196 TCAA
*
128304 AAATCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
128369 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACAC
66 TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACAC
128408 ATAAGTTTAT
Statistics
Matches: 1173, Mismatches: 116, Indels: 15
0.90 0.09 0.01
Matches are distributed among these distances:
198 372 0.32
199 678 0.58
200 123 0.10
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (199 bp):
AAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGA
TGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATA
CATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTC
TCAA
Found at i:127606 original size:397 final size:396
Alignment explanation
Indices: 126912--128407 Score: 2345
Period size: 397 Copynumber: 3.8 Consensus size: 396
126902 TTTTCAAATT
* * * *
126912 AAACCAGTATTTTTATACCTGTTACATTGTTAATTTACCTATTACATT-ATAATTATGGGTTTCG
1 AAACCGGTATATTTAGACC-GTTAAATTGTTAATTTACCTATTAC-TTCATAATTATGGGTTTCG
*
126976 ATGTTTTTGGGATCGACACTTGTTATAAATGTATCGAAACTTTGTT-GTGCACTTGGTTTTTA-A
64 ATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTT-TTCGTGCACTTGG--TTTAGA
* * ** * * * ** *
127039 AATACACTCTGGACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATAAATGT
126 AATACATTCTGGACCAAAAGTATCGACACTTGTTTTAGTTGTGTCGATACTTTTTGTACACTTAT
* * * *
127104 TTTCTCATAAACCGATATATTTAGACTGGTTACATTGTTAATTTACCTATTACATTATAATTATG
191 TTTCTCA-AAAACGGTATATTTAGACCGGTTACATTGCTAATTTACCTATTACATTATAATTATG
127169 GGTTTCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTT
255 GGTTTCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTT
127234 TTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACAC
320 TTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACAC
* *
127299 ATGTTTTCTAAA
385 CTGTTTTCTCAA
127311 AAACCGGTATATTTAGACCAGTTAAATTGTTAATTTACCTATTACTTCATAATTATGGGTTTCGA
1 AAACCGGTATATTTAGACC-GTTAAATTGTTAATTTACCTATTACTTCATAATTATGGGTTTCGA
* * * *
127376 TATTTTTGGGATCGACAATTGTTATAAATGTATCGACACTTTTTCGTGCCCTTGGTTAAGAAATA
65 TGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGCACTTGGTTTAGAAATA
* *
127441 CATTCTGGACCAAAAGTATCGACACTTGTTTTAGTTGTGTCGATACTTTTTGTACACCTGTTTTC
130 CATTCTGGACCAAAAGTATCGACACTTGTTTTAGTTGTGTCGATACTTTTTGTACACTTATTTTC
* *
127506 TCAAAAATGGTATATTTAGACCGGTTACATTGCTAATTTACCTATTACATTATAATTATAGGTTT
195 TCAAAAACGGTATATTTAGACCGGTTACATTGCTAATTTACCTATTACATTATAATTATGGGTTT
* * *
127571 CAATATTTTTGGGATCGACACTTCTTATAAATGTATCAACACTTTTTAGTGCACTTGGTTTTGAA
260 CGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAA
127636 ATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTT
325 ATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTT
127701 TTCCTCAA
390 TT-CTCAA
* *
127709 AAATCGGTATATTTAGACCGTTAAATTGTTAATTTACCTATTACATCATAATTATGGGTTTCGAT
1 AAACCGGTATATTTAGACCGTTAAATTGTTAATTTACCTATTACTTCATAATTATGGGTTTCGAT
* * * * * *
127774 GTTTCTGGGATCGACACTTGTTATAAGTGTATCGACAATTTTCCGTGCATTTGGTTCAGAAATAC
66 GTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGCACTTGGTTTAGAAATAC
*
127839 ATTCTGGACCAAAAGTATCGACACTTGTTTTAGTTATGTCGATACTTTTTGTACACTTATTTTCT
131 ATTCTGGACCAAAAGTATCGACACTTGTTTTAGTTGTGTCGATACTTTTTGTACACTTATTTTCT
* *
127904 CAAAAACCGGTATATTTAGACCAGTTATATTGCTAATTTACCTATTACATTATAATTATGGGTTT
196 CAAAAA-CGGTATATTTAGACCGGTTACATTGCTAATTTACCTATTACATTATAATTATGGGTTT
* *
127969 CGATGTTTTTGGGATC-ACACTTCCTATAAATGTATCGATACTTTTTAGTGCACTTGGTTTTGAA
260 CGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAA
** *
128033 ATACATTCTATACCAAAAGTATCGACACTTGTTTTATTTGTGTTGATACTTTTTGTACACCTGTT
325 ATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTT
128098 TTCTCAA
390 TTCTCAA
*
128105 AAACCGATATATTTAGACCGGTTAAATTGTTAATTTACCTATTA-TATCATAATTATGGGTTTCG
1 AAACCGGTATATTTAGACC-GTTAAATTGTTAATTTACCTATTACT-TCATAATTATGGGTTTCG
* * * *
128169 ATGTTTTTGGAATCGACACTTGTTATAAATATATCGACACTTTTTAGTGCACTTGGTTTTGAAAT
64 ATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGCACTTGGTTTAGAAAT
*
128234 ACATTCTGGACCAAAAGTATCGACACTTGTTTTAGTTGTGTCGATATTTTTTGTACACTTATTTT
129 ACATTCTGGACCAAAAGTATCGACACTTGTTTTAGTTGTGTCGATACTTTTTGTACACTTATTTT
* *
128299 CTTAAAAATCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGT
194 CTCAAAAA-CGGTATATTTAGACCGGTTACATTGCTAATTTACCTATTACATTATAATTATGGGT
128364 TTCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACAC
258 TTCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACAC
128408 ATAAGTTTAT
Statistics
Matches: 1011, Mismatches: 78, Indels: 17
0.91 0.07 0.02
Matches are distributed among these distances:
396 22 0.02
397 703 0.70
398 181 0.18
399 105 0.10
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (396 bp):
AAACCGGTATATTTAGACCGTTAAATTGTTAATTTACCTATTACTTCATAATTATGGGTTTCGAT
GTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGCACTTGGTTTAGAAATAC
ATTCTGGACCAAAAGTATCGACACTTGTTTTAGTTGTGTCGATACTTTTTGTACACTTATTTTCT
CAAAAACGGTATATTTAGACCGGTTACATTGCTAATTTACCTATTACATTATAATTATGGGTTTC
GATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAA
TACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTT
TCTCAA
Found at i:128118 original size:596 final size:595
Alignment explanation
Indices: 126923--128406 Score: 2292
Period size: 596 Copynumber: 2.5 Consensus size: 595
126913 AACCAGTATT
* *
126923 TTTATACCTGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGA
1 TTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGA
* *
126988 TCGACACTTGTTATAAATGTATCGAA-ACTTTGTT-GTGCACTTGGTTTTTAAAATACACTCTGG
66 TCGACACTTGTTATAAATGTATC-AACACTTT-TTAGTGCACTTGG-TTTTGAAATACATTCTGG
* ** * * * * *
127051 ACAAAAAGTATCGACACTTGTTGGATTTGTGTCGATACTTTATGTATAAATGTTTTCTCATAAAC
128 ACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAAT
* *
127116 CGATATATTTAGACTGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTT
193 CGGTATATTTAGAC-CGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTT
* * **
127181 TTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATT
257 TTTGGGATCGACACTTCTTATAAATGTATCGACAATTTTCAGTGCACTTGGTTCAGAAATACATT
* * *
127246 CTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTCTAAA
322 CTGGACCAAAAGTATCGACACTTGTTTTAGTTATGTCGATACTTTTTGTACACATATTTTCTAAA
*
127311 AAACCGGTATATTTAGACCAGTTAAATTGTTAATTTACCTATTACTTCATAATTATGGGTTTCGA
387 AAACCGGTATATTTAGACCAGTTAAATTGCTAATTTACCTATTACTTCATAATTATGGGTTTCGA
** * *
127376 TATTTTTGGGATCGACAATTGTTATAAATGTATCGACACTTTTTCGTGCCCTTGGTTAAGAAATA
452 TATTTTTGGGATCGACAATTCCTATAAATGTATCGACACTTTTTAGTGCACTTGGTTAAGAAATA
*
127441 CATTCTGGACCAAAAGTATCGACACTTGTTTTAGTTGTGTCGATACTTTTTGTACACCTGTTTTC
517 CATTCTAGACCAAAAGTATCGACACTTGTTTTAGTTGTGTCGATACTTTTTGTACACCTGTTTTC
* *
127506 TCAAAAATGGTATA
582 TCAAAAACGATATA
* * * *
127520 TTTAGACCGGTTACATTGCTAATTTACCTATTACATTATAATTATAGGTTTCAATATTTTTGGGA
1 TTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGA
*
127585 TCGACACTTCTTATAAATGTATCAACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACC
66 TCGACACTTGTTATAAATGTATCAACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACC
*
127650 AAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCCTCAAAAATCG
131 AAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTT-CTCAAAAATCG
* * *
127715 GTATATTTAGACCGTTAAATTGTTAATTTACCTATTACATCATAATTATGGGTTTCGATGTTTCT
195 GTATATTTAGACCGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTT
* * * *
127780 GGGATCGACACTTGTTATAAGTGTATCGACAATTTTCCGTGCATTTGGTTCAGAAATACATTCTG
260 GGGATCGACACTTCTTATAAATGTATCGACAATTTTCAGTGCACTTGGTTCAGAAATACATTCTG
* *
127845 GACCAAAAGTATCGACACTTGTTTTAGTTATGTCGATACTTTTTGTACACTTATTTTCTCAAAAA
325 GACCAAAAGTATCGACACTTGTTTTAGTTATGTCGATACTTTTTGTACACATATTTTCTAAAAAA
* *
127910 CCGGTATATTTAGACCAGTTATATTGCTAATTTACCTATTACATT-ATAATTATGGGTTTCGATG
390 CCGGTATATTTAGACCAGTTAAATTGCTAATTTACCTATTAC-TTCATAATTATGGGTTTCGATA
* * **
127974 TTTTTGGGATC-ACACTTCCTATAAATGTATCGATACTTTTTAGTGCACTTGGTTTTGAAATACA
454 TTTTTGGGATCGACAATTCCTATAAATGTATCGACACTTTTTAGTGCACTTGGTTAAGAAATACA
* * *
128038 TTCTATACCAAAAGTATCGACACTTGTTTTATTTGTGTTGATACTTTTTGTACACCTGTTTTCTC
519 TTCTAGACCAAAAGTATCGACACTTGTTTTAGTTGTGTCGATACTTTTTGTACACCTGTTTTCTC
128103 AAAAACCGATATA
584 AAAAA-CGATATA
* * * *
128116 TTTAGACCGGTTAAATTGTTAATTTACCTATTATATCATAATTATGGGTTTCGATGTTTTTGGAA
1 TTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGA
* *
128181 TCGACACTTGTTATAAATATATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACC
66 TCGACACTTGTTATAAATGTATCAACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACC
* * * * *
128246 AAAAGTATCGACACTTGTTTTAGTTGTGTCGATATTTTTTGTACACTTATTTTCTTAAAAATCGG
131 AAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAATCGG
128311 TATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTT
196 TATATTTAGACC-GTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTT
128376 GGGATCGACACTTCTTATAAATGTATCGACA
260 GGGATCGACACTTCTTATAAATGTATCGACA
128407 CATAAGTTTA
Statistics
Matches: 807, Mismatches: 74, Indels: 13
0.90 0.08 0.01
Matches are distributed among these distances:
595 134 0.17
596 555 0.69
597 118 0.15
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (595 bp):
TTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGA
TCGACACTTGTTATAAATGTATCAACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACC
AAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAATCGG
TATATTTAGACCGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTG
GGATCGACACTTCTTATAAATGTATCGACAATTTTCAGTGCACTTGGTTCAGAAATACATTCTGG
ACCAAAAGTATCGACACTTGTTTTAGTTATGTCGATACTTTTTGTACACATATTTTCTAAAAAAC
CGGTATATTTAGACCAGTTAAATTGCTAATTTACCTATTACTTCATAATTATGGGTTTCGATATT
TTTGGGATCGACAATTCCTATAAATGTATCGACACTTTTTAGTGCACTTGGTTAAGAAATACATT
CTAGACCAAAAGTATCGACACTTGTTTTAGTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAA
AAACGATATA
Found at i:128804 original size:19 final size:19
Alignment explanation
Indices: 128780--128829 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
128770 TTACATTCAC
*
128780 ATACAAAATTATAAATCGT
1 ATACAAAATTAAAAATCGT
*
128799 ATACAAAATTAAAAATCTT
1 ATACAAAATTAAAAATCGT
128818 ATACAAAATTAA
1 ATACAAAATTAA
128830 CCCTACATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (19 bp):
ATACAAAATTAAAAATCGT
Found at i:130967 original size:18 final size:18
Alignment explanation
Indices: 130920--130958 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
130910 TCCGTTTCTT
130920 TCATAAGCCGACAAACTA
1 TCATAAGCCGACAAACTA
130938 TCATAAGCCGACAAACTA
1 TCATAAGCCGACAAACTA
130956 TCA
1 TCA
130959 CAGCCCGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.28, G:0.10, T:0.18
Consensus pattern (18 bp):
TCATAAGCCGACAAACTA
Found at i:131021 original size:22 final size:21
Alignment explanation
Indices: 130995--131049 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 21
130985 AACCTGTACT
*
130995 TATAATAAAAGTTATCATTTTA
1 TATAATAAAA-CTATCATTTTA
131017 TATAATAACTATACTATCATTTTA
1 TATAATAA--A-ACTATCATTTTA
131041 TATAA-AAAA
1 TATAATAAAA
131050 TAAAATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
20 1 0.03
21 1 0.03
22 8 0.28
23 2 0.07
24 16 0.55
25 1 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (21 bp):
TATAATAAAACTATCATTTTA
Found at i:132331 original size:19 final size:19
Alignment explanation
Indices: 132303--132370 Score: 109
Period size: 19 Copynumber: 3.6 Consensus size: 19
132293 TATTTATACA
* *
132303 ACCTAAAATATCATTTTCT
1 ACCTATAATATCATTTTTT
132322 ACCTATAATATCATTTTTT
1 ACCTATAATATCATTTTTT
132341 ACCTATAATATCATTTTTT
1 ACCTATAATATCATTTTTT
*
132360 ACATATAATAT
1 ACCTATAATAT
132371 TAAATAAAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (19 bp):
ACCTATAATATCATTTTTT
Found at i:133570 original size:181 final size:182
Alignment explanation
Indices: 132756--133953 Score: 1678
Period size: 181 Copynumber: 6.6 Consensus size: 182
132746 TACACATACT
*
132756 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGTTTTACCAG-TTTTGTCATTTTGAGACC
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCTTTTTACC-GTTTTTGTCATTTTGAGACC
* * * ** *
132820 AGTTTTTATCATA-TTTTACCTGTTATATTGTTATAGATCGATACATTTTTTTAAAGTATCGACA
65 -GGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACA
* *
132884 CTATATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAATGTCGATACTTA
129 CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
132938 TATTAAAGTATCGACACTTTCAACATATCCGGTAG-TTATTTA-C-TTTTTGTCATTTTGAGACC
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCTT-TTTACCGTTTTTGTCATTTTGAGACC
* * *
133000 GATTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACAT
65 GGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACAC
*
133065 TTTTTAGGCGC-ATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
130 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * * * * *
133117 TATTAAATTATCGACACTTTCAACATATCCGATATCTTTTTACCGGTTTTGTCATTTTTAGACCT
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCTTTTTACCGTTTTTGTCATTTTGAGACCG
* * * * * *
133182 TTTTTGTCATATTTTTACATGTTATATTGTTATAGATCGATACATTTT-TTAAAAGTATTGACAC
66 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCAT-AAAGTGTCGACAC
* *
133246 TTTATAGGCGTTATAACTTCTTCTCTTTTAAATTCCAAAAGTGAT-GATAATTA
130 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTG-TCGATACTTA
* * * *
133299 TATTAAAATATCGACACTTTCAACATATCTGATAG-TTATTTATC-TGTTTTGTCATTTTGAGAC
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCTT-TTTACCGT-TTTTGTCATTTTGAGAC
* *
133362 CGATTTTGTCATATTTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACA
64 CGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACA
* * *
133427 CTTTTTAGGCGCTATAACTTCTTTTCTTTTAAATT-CAGAAAGGGTCGATACTTA
129 CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTA
* *
133481 TA-TAAATTATCGACACTTTCAACATATCCGGTAGCGTTTTACCGTTTTTGTCATTTTGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCTTTTTACCGTTTTTGTCATTTTGAGACCG
* * *
133545 GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTT-TTAAAGTAG-CGTCAC
66 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGT-GTCGACAC
*
133608 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATT-CAAAAGTGTCGATAATTA
130 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* *
133660 TATTAAAGTATCGACACTTTCAACATATCCAGTAG-TTATTTACC-TGTTTTGTCATTTTGAGAG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCTT-TTTACCGT-TTTTGTCATTTTGAGAC
* * *
133723 CGGTTTTGTCATAATTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTTTCGACA
64 CGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACA
*
133788 CTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTTA
129 CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTA
* * *
133842 TATTAAATTATCGACACTTTCAACATAT-CGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCTTTTTACCGTTTTTGTCATTTTGAGACCG
* *
133906 GTTTTATCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTT
66 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTT
133954 TCATTTGTAT
Statistics
Matches: 908, Mismatches: 83, Indels: 51
0.87 0.08 0.05
Matches are distributed among these distances:
179 104 0.11
180 221 0.24
181 305 0.34
182 276 0.30
183 2 0.00
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.44
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAACATATCCGGTAGCTTTTTACCGTTTTTGTCATTTTGAGACCG
GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACT
TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
Found at i:133789 original size:361 final size:362
Alignment explanation
Indices: 132756--133954 Score: 1993
Period size: 361 Copynumber: 3.3 Consensus size: 362
132746 TACACATACT
* *
132756 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGTTTTACCAGTTTTGTCATTTTGAGACCA
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACC-
*
132821 GTTTTTATCATA-TTTTACCTGTTATATTGTTATAGATCGATACATTTTTTTAAAGTATCGACAC
65 GGTTTTATCATATTTTTACCTGTTATATTGTTATAGATCGATACA-TTTTTTAAAGTATCGACAC
* * *
132885 TATATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAATGTCGATACTTATATTAAAGTATC
129 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAATTATATTAAAGTATC
*
132950 GACACTTTCAACATATCCGGTAGTTATTTACT-TTTTGTCATTTTGAGACCGATTTTGTCATATT
194 GACACTTTCAACATATCCAGTAGTTATTTACTGTTTTGTCATTTTGAGACCGATTTTGTCATATT
*
133014 TTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACATTTTTTAGGCGC-AT
259 TTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTAT
133078 AACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTA
324 AACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTTA
* * * * *
133117 TATTAAATTATCGACACTTTCAACATATCCGATATCTTTTTACCGGTTTTGTCATTTTTAGACCT
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACCG
* * * *
133182 TTTTTGTCATATTTTTACATGTTATATTGTTATAGATCGATACATTTTTTAAAAGTATTGACACT
66 GTTTTATCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTTT-AAAGTATCGACACT
* *
133247 TTATAGGCGTTATAACTTCTTCTCTTTTAAATTCCAAAAGTGAT-GATAATTATATTAAAATATC
130 TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTG-TCGATAATTATATTAAAGTATC
*
133311 GACACTTTCAACATAT-CTGATAGTTATTTATCTGTTTTGTCATTTTGAGACCGATTTTGTCATA
194 GACACTTTCAACATATCCAG-TAGTTATTTA-CTGTTTTGTCATTTTGAGACCGATTTTGTCATA
133375 TTTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCT
257 TTTTTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCT
* *
133440 ATAACTTCTTTTCTTTTAAATTCAGAAAGGGTCGATACTTA
322 ATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
*
133481 TA-TAAATTATCGACACTTTCAACATATCCGGTAGCGTTTTACCGTTTTTGTCATTTTGAGACCG
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACCG
* * *
133545 GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAGTAGCGTCACTT
66 GTTTTATCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTTTAAAGTATCGACACTT
133610 TATAGGCGCTATAACTTCTTCTCTTTTAAATT-CAAAAGTGTCGATAATTATATTAAAGTATCGA
131 TATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAATTATATTAAAGTATCGA
* * *
133674 CACTTTCAACATATCCAGTAGTTATTTACCTGTTTTGTCATTTTGAGAGCGGTTTTGTCATAATT
196 CACTTTCAACATATCCAGTAGTTATTTA-CTGTTTTGTCATTTTGAGACCGATTTTGTCATATTT
*
133739 TTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTTTCGACACTTTTTAGGCGCTATA
260 TTAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATA
133804 ACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
325 ACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
133842 TATTAAATTATCGACACTTTCAACATAT-CGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACCG
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACCG
133906 GTTTTATCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTT
66 GTTTTATCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTT
133955 CATTTGTATC
Statistics
Matches: 783, Mismatches: 44, Indels: 22
0.92 0.05 0.03
Matches are distributed among these distances:
360 19 0.02
361 456 0.58
362 73 0.09
363 197 0.25
364 38 0.05
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.44
Consensus pattern (362 bp):
TATTAAATTATCGACACTTTCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACCG
GTTTTATCATATTTTTACCTGTTATATTGTTATAGATCGATACATTTTTTAAAGTATCGACACTT
TATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATAATTATATTAAAGTATCGA
CACTTTCAACATATCCAGTAGTTATTTACTGTTTTGTCATTTTGAGACCGATTTTGTCATATTTT
TAGCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAA
CTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
Found at i:143641 original size:21 final size:20
Alignment explanation
Indices: 143604--143643 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
143594 CCTGCTGTCA
* *
143604 AATAAAACACTTTAAACACT
1 AATAAAAAACTTAAAACACT
143624 AATAAAAAAGCTTAAAACAC
1 AATAAAAAA-CTTAAAACAC
143644 ACTATTTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.60, C:0.17, G:0.03, T:0.20
Consensus pattern (20 bp):
AATAAAAAACTTAAAACACT
Found at i:144067 original size:16 final size:15
Alignment explanation
Indices: 144046--144075 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
144036 CTTACTTTAT
144046 TTATAATATTTAATTA
1 TTATAATA-TTAATTA
144062 TTATAATATTAATT
1 TTATAATATTAATT
144076 TTTTAAATAT
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATAATATTAATTA
Found at i:144319 original size:98 final size:94
Alignment explanation
Indices: 144201--144395 Score: 300
Period size: 98 Copynumber: 2.0 Consensus size: 94
144191 AAAGTAAATT
* * * *
144201 AAATTAGTATGCTTGTTTATCTAATTTCAATGTATTTTTATTTATCTTGCAATTTAATCTACTTG
1 AAATTAGTATGCTTATTTATCTAATTTCAATGTATTTTTATCTATATTACAATTTAATCTACTTG
*
144266 AATTTAAATAAAAAATCAAAAAAATTACAAAGA
66 AATTT--A-AAAAAATC-AAAAAATTACAAAAA
*
144299 AAATTAGTATGTTTATTTATCTAATTTCAATGTATTTTTATCTATATTACAATTTAATCTACTTG
1 AAATTAGTATGCTTATTTATCTAATTTCAATGTATTTTTATCTATATTACAATTTAATCTACTTG
144364 AATTTAAAAAAATCAAAAAATTACAAAAA
66 AATTTAAAAAAATCAAAAAATTACAAAAA
144393 AAA
1 AAA
144396 AATACTATCT
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
94 17 0.19
95 8 0.09
96 1 0.01
98 65 0.71
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.42
Consensus pattern (94 bp):
AAATTAGTATGCTTATTTATCTAATTTCAATGTATTTTTATCTATATTACAATTTAATCTACTTG
AATTTAAAAAAATCAAAAAATTACAAAAA
Found at i:144428 original size:20 final size:20
Alignment explanation
Indices: 144403--144440 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
144393 AAAAATACTA
144403 TCTCCACAA-TGAAGAGATAT
1 TCTCCA-AAGTGAAGAGATAT
144423 TCTCCAAAGTGAAGAGAT
1 TCTCCAAAGTGAAGAGAT
144441 GCCCTGAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (20 bp):
TCTCCAAAGTGAAGAGATAT
Found at i:144974 original size:19 final size:19
Alignment explanation
Indices: 144946--145000 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
144936 AAACGAAAAT
144946 AATA-GTCAAACAA-CTAAA
1 AATATGTCAAA-AAGCTAAA
*
144964 AATATGTCAAAAAGTTAAA
1 AATATGTCAAAAAGCTAAA
*
144983 AATATGCCAAAAAG-TAAA
1 AATATGTCAAAAAGCTAAA
145001 GAGAAATATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 10 0.30
19 23 0.70
ACGTcount: A:0.60, C:0.11, G:0.09, T:0.20
Consensus pattern (19 bp):
AATATGTCAAAAAGCTAAA
Found at i:145000 original size:18 final size:19
Alignment explanation
Indices: 144960--144997 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
144950 GTCAAACAAC
*
144960 TAAAAATATGTCAAAAAGT
1 TAAAAATATGCCAAAAAGT
144979 TAAAAATATGCCAAAAAGT
1 TAAAAATATGCCAAAAAGT
144998 AAAGAGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.58, C:0.08, G:0.11, T:0.24
Consensus pattern (19 bp):
TAAAAATATGCCAAAAAGT
Found at i:145024 original size:15 final size:15
Alignment explanation
Indices: 145004--145033 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
144994 AAGTAAAGAG
*
145004 AAATATGTTATAAAA
1 AAATATGTCATAAAA
145019 AAATATGTCATAAAA
1 AAATATGTCATAAAA
145034 GTAGATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (15 bp):
AAATATGTCATAAAA
Found at i:150585 original size:21 final size:21
Alignment explanation
Indices: 150555--150693 Score: 101
Period size: 21 Copynumber: 6.6 Consensus size: 21
150545 GATTTACATA
* *
150555 TTCGCATTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
150576 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
* *
150599 TT--CGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
150620 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
150639 TTCGCGTTGCAATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
150662 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
150681 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
150694 TTATTCCAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 16
0.79 0.09 0.13
Matches are distributed among these distances:
19 18 0.18
21 63 0.64
23 18 0.18
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:150626 original size:42 final size:41
Alignment explanation
Indices: 150593--150715 Score: 176
Period size: 42 Copynumber: 3.0 Consensus size: 41
150583 TGCGATTTAT
150593 TCCAAATT-CGTTGCGATTTATTCCAAATTCGTTGCGATAG
1 TCCAAATTCCGTTGCGATTTATTCCAAATTCGTTGCGATAG
* * *
150633 TCCAAGTTCGCGTTGCAATTTATTCCAAGTTCGTTGCGATAG
1 TCCAAATTC-CGTTGCGATTTATTCCAAATTCGTTGCGATAG
* *
150675 TCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATA
1 TCCAAATTC-CGTTGCGATTTATTCCAAATTCGTTGCGATA
150716 CGATTTATTC
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
40 7 0.09
42 68 0.91
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (41 bp):
TCCAAATTCCGTTGCGATTTATTCCAAATTCGTTGCGATAG
Found at i:150689 original size:63 final size:63
Alignment explanation
Indices: 150554--150753 Score: 215
Period size: 63 Copynumber: 3.1 Consensus size: 63
150544 CGATTTACAT
* * *
150554 ATTCGCATTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAA
1 ATTCGCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGA--TAGTCCAA
* * *
150619 ATT--CGTTGCGATAGTCCAAGTTCGCGTTGCAATTTATTCCAAGTTCGTTGCGATAGTCGAA
1 ATTCGCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAA
* * * * *
150680 GTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATACGATTTATTCCAAATTCGTTGCGATAGTC
1 ATTCGCGTTGCGA--TAGTCCAAGTTC---GCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
150745 CAA
61 CAA
*
150748 AATCGC
1 ATTCGC
150754 AACGACGGTA
Statistics
Matches: 112, Mismatches: 16, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
61 8 0.07
63 54 0.48
65 13 0.12
68 37 0.33
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.35
Consensus pattern (63 bp):
ATTCGCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAA
Found at i:150709 original size:21 final size:21
Alignment explanation
Indices: 150580--150740 Score: 150
Period size: 21 Copynumber: 7.4 Consensus size: 21
150570 TCGAAGTTCG
150580 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
150601 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
* *
150622 CGTTGCGA--TAGTCCAAGTT
1 CGTTGCGATTTATTCCAAATT
* *
150641 CGCGTTGCAATTTATTCCAAGTT
1 --CGTTGCGATTTATTCCAAATT
* * *
150664 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATT
150683 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
150706 CGTTGCGATACGATTTATTCCAAATT
1 CGTT--G---CGATTTATTCCAAATT
150732 CGTTGCGAT
1 CGTTGCGAT
150741 AGTCCAAAAT
Statistics
Matches: 117, Mismatches: 10, Indels: 26
0.76 0.07 0.17
Matches are distributed among these distances:
19 18 0.15
21 59 0.50
23 19 0.16
24 1 0.01
26 20 0.17
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:150719 original size:26 final size:26
Alignment explanation
Indices: 150690--150741 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
150680 GTTCGCGTTG
150690 CGATTTATTCCAAATTCGTTGCGATA
1 CGATTTATTCCAAATTCGTTGCGATA
150716 CGATTTATTCCAAATTCGTTGCGATA
1 CGATTTATTCCAAATTCGTTGCGATA
150742 GTCCAAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (26 bp):
CGATTTATTCCAAATTCGTTGCGATA
Found at i:151524 original size:21 final size:21
Alignment explanation
Indices: 151428--151529 Score: 109
Period size: 21 Copynumber: 5.0 Consensus size: 21
151418 CGTTGCGATT
* *
151428 TTGGACTATCGCAACACGAAT
1 TTGGACTATCGCAACGCGAAC
* *
151449 TTCGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
* **
151468 TTGAAAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
*
151489 TTGGACTATCGCAATGCGAAC
1 TTGGACTATCGCAACGCGAAC
*
151510 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAACGCGAA
151530 TATGTAAATC
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
19 15 0.22
21 54 0.78
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.23
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:151580 original size:21 final size:21
Alignment explanation
Indices: 151556--151598 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
151546 CGATAGTCGG
*
151556 AGTTCGCATTGCGAATTTGGA
1 AGTTCGCATTGCGAATCTGGA
* *
151577 AGTTTGCGTTGCGAATCTGGA
1 AGTTCGCATTGCGAATCTGGA
151598 A
1 A
151599 ACTGATTTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.33
Consensus pattern (21 bp):
AGTTCGCATTGCGAATCTGGA
Found at i:152785 original size:17 final size:17
Alignment explanation
Indices: 152746--152789 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
152736 GATAATTTTG
*
152746 AAATT-TATTTTTAAAA
1 AAATTATATTTATAAAA
152762 AATATTATATTTATAAAA
1 AA-ATTATATTTATAAAA
152780 AAATTA-ATTT
1 AAATTATATTT
152790 CTTTTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 6 0.24
17 7 0.28
18 12 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AAATTATATTTATAAAA
Found at i:154718 original size:3 final size:3
Alignment explanation
Indices: 154712--154773 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
154702 CGTTTATTAT
154712 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
154760 ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT
154774 TTGGTATCAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:164259 original size:2 final size:2
Alignment explanation
Indices: 164252--164311 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
164242 ATTTATACAA
164252 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
164294 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
164312 TTTAAATTGT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:167960 original size:13 final size:13
Alignment explanation
Indices: 167942--167967 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
167932 ACCTTCTCAG
167942 GAAAAAAAAAAGA
1 GAAAAAAAAAAGA
167955 GAAAAAAAAAAGA
1 GAAAAAAAAAAGA
167968 CGCAGCTACC
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:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
GAAAAAAAAAAGA
Found at i:181804 original size:3 final size:3
Alignment explanation
Indices: 181798--181912 Score: 167
Period size: 3 Copynumber: 38.0 Consensus size: 3
181788 TTTATCCATT
* * * *
181798 TTA TTA TCA TTA TTA TTAA ATA TTA TTA TTA TCA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
181844 TTA TTA GTA TTA TTA TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
181892 TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
181913 AATATATTAA
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
3 97 0.98
4 2 0.02
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:181804 original size:12 final size:11
Alignment explanation
Indices: 181784--181910 Score: 62
Period size: 12 Copynumber: 10.8 Consensus size: 11
181774 AAGATACTAT
*
181784 TTTTTTTATCCA
1 TTTTATTAT-CA
181796 TTTTATTATCA
1 TTTTATTATCA
181807 TTATTATTAAAT-A
1 TT-TTATT--ATCA
181820 TTATTATTATCA
1 TT-TTATTATCA
* *
181832 TTATTAATATTA
1 TT-TTATTATCA
* *
181844 TTATTAGTATTA
1 TT-TTATTATCA
181856 TTATTATTAT--
1 TT-TTATTATCA
*
181866 TTTTATTATTA
1 TTTTATTATCA
*
181877 TTATTATTATTA
1 TT-TTATTATCA
*
181889 TTATTATTATTA
1 TT-TTATTATCA
181901 TTATTATTAT
1 TT-TTATTAT
181911 TAAATATATT
Statistics
Matches: 103, Mismatches: 5, Indels: 14
0.84 0.04 0.11
Matches are distributed among these distances:
9 7 0.07
10 2 0.02
11 8 0.08
12 75 0.73
13 9 0.09
14 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (11 bp):
TTTTATTATCA
Found at i:183219 original size:7 final size:7
Alignment explanation
Indices: 183207--183235 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
183197 TAAATTCAAT
183207 TAATTAG
1 TAATTAG
183214 TAATTAG
1 TAATTAG
183221 TAATTAG
1 TAATTAG
183228 TAATTAG
1 TAATTAG
183235 T
1 T
183236 TTTATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (7 bp):
TAATTAG
Found at i:184097 original size:18 final size:18
Alignment explanation
Indices: 184055--184098 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
184045 TTTTCAAATT
*
184055 TTTTATTTATTTATTTTA
1 TTTTATTTATATATTTTA
** *
184073 TAATATTTATATGTTTTA
1 TTTTATTTATATATTTTA
184091 TTTTATTT
1 TTTTATTT
184099 GCAAGTATTT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTATTTATATATTTTA
Found at i:184120 original size:13 final size:15
Alignment explanation
Indices: 184089--184125 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
184079 TTATATGTTT
184089 TATTTTATTTGCAAG
1 TATTTTATTTGCAAG
184104 TATTTTATTT-C-AG
1 TATTTTATTTGCAAG
184117 TA-TTTATTT
1 TATTTTATTT
184126 TTATGTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 4 0.18
14 1 0.05
15 10 0.45
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.62
Consensus pattern (15 bp):
TATTTTATTTGCAAG
Found at i:195052 original size:18 final size:18
Alignment explanation
Indices: 195016--195063 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
195006 CTATTTCAAG
*
195016 TTCAATTTA--TTTGAGA
1 TTCAATTTATTTTTGAAA
195032 TTCAATTTATTTTTGAAA
1 TTCAATTTATTTTTGAAA
195050 TTCAATTTATTTTT
1 TTCAATTTATTTTT
195064 TATTAACATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 9 0.31
18 20 0.69
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.58
Consensus pattern (18 bp):
TTCAATTTATTTTTGAAA
Found at i:195721 original size:51 final size:52
Alignment explanation
Indices: 195593--196197 Score: 1057
Period size: 51 Copynumber: 11.8 Consensus size: 52
195583 TATGTGCTCA
195593 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
* *
195645 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGG-TAGA-AGAAAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG-AAC
* * *
195696 ATAGCATCTTCTGGAAGTTTTCTTTGAATTATCTGATCTGGTTGGACAGAA-
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
*
195747 ATAGCATCTTCTGGAAGTGTTCTTTGAGTT-TTTGATCTGGTTAGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
195798 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
195850 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTA-CTGATCTGGTTAGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
195901 ATAGCATCTTCTGGAAGTG-TCTTTGAGTTATCTGATCTGGTTAGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
195952 ATAGCATCTTCTGGAAGTGTTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
1 ATAGCATCTTCTGGAAGTG-TTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
196005 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
*
196056 ATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
196108 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GA-AGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
*
196158 ATAGCATCTTCTGGAAGTTTTCTTTGAGTTATCTGATCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
196198 ATTGGGATAA
Statistics
Matches: 530, Mismatches: 14, Indels: 20
0.94 0.02 0.04
Matches are distributed among these distances:
50 75 0.14
51 232 0.44
52 170 0.32
53 53 0.10
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
Found at i:195899 original size:103 final size:104
Alignment explanation
Indices: 195593--196197 Score: 1057
Period size: 103 Copynumber: 5.9 Consensus size: 104
195583 TATGTGCTCA
195593 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
* *
195658 GAAGTGTTCTTTGAGTTATCTGATATGG-TAGA-AGAAAA
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG-AAC
* * *
195696 ATAGCATCTTCTGGAAGTTTTCTTTGAATTATCTGATCTGGTTGGACAGAA-ATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
*
195760 GAAGTGTTCTTTGAGTT-TTTGATCTGGTTAGACAGAAC
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
195798 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
195863 GAAGTGTTCTTTGAGTTA-CTGATCTGGTTAGACAGAAC
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
195901 ATAGCATCTTCTGGAAGTG-TCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
195965 GAAGTGTTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
66 GAAGTG-TTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
*
196005 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAACATAACATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
196069 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
196108 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GA-AGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
*
196171 GAAGTTTTCTTTGAGTTATCTGATCTG
66 GAAGTGTTCTTTGAGTTATCTGATCTG
196198 ATTGGGATAA
Statistics
Matches: 482, Mismatches: 13, Indels: 15
0.95 0.03 0.03
Matches are distributed among these distances:
101 8 0.02
102 180 0.37
103 206 0.43
104 62 0.13
105 26 0.05
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (104 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTG
GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
Found at i:197253 original size:117 final size:113
Alignment explanation
Indices: 196851--197355 Score: 668
Period size: 112 Copynumber: 4.4 Consensus size: 113
196841 AGATAAGTTC
196851 ATGAGAAGAACTCATCTGAA-AA--AAGAAGAAAGTTCATAATGAGAAGAACTTGTTCAACTTTT
1 ATGAGAAGAACTCATCTGAAGAAGGAAGAAG-AAGTTCATAATGAGAAGAACTTGTTCAAC-TTT
* *
196913 TGTTTAAATTCATCATTTGATGGATCAACAGTTCCAGAGAAG-GTTCATA
64 TGCTTAAATTCATCATTTGATGGATCAACATTTCCAGAGAAGAGTTCATA
*
196962 ATGAGAAGAACTCATCTG-AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
1 ATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTT
* * * * * *
197026 ACTTGAATCCGTCATTTGATGGATCAGCTTTTCCAGAGAA-AGTTCATA
65 GCTTAAATTCATCATTTGATGGATCAACATTTCCAGAGAAGAGTTCATA
197074 ATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTT
1 ATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-TTTT
*
197138 GTTTAAATTCATCATTTGATGGATCAACATTTCCAGAGGAAGAGTTCATA
65 GCTTAAATTCATCATTTGATGGATCAACATTTCCAGA-GAAGAGTTCATA
* *
197188 ATGAGAAGAACTCGTCATCTGAAG-AGGAAGACGAAGTTCATAATGAG-AGAACGTGTTCAACCT
1 ATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CT
* * * *
197251 TTTGCTTGAATTCATCACTTGATGGATCATTCTTTTCCAGAGGAAGAGTTCATA
62 TTTGCTTAAATTCATCATTTGATGGATCA-ACATTTCCAGA-GAAGAGTTCATA
*
197305 ATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAG
1 ATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
197356 CTCATCAAAA
Statistics
Matches: 351, Mismatches: 26, Indels: 26
0.87 0.06 0.06
Matches are distributed among these distances:
110 1 0.00
111 21 0.06
112 156 0.44
113 14 0.04
114 18 0.05
116 41 0.12
117 77 0.22
118 21 0.06
119 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (113 bp):
ATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTG
CTTAAATTCATCATTTGATGGATCAACATTTCCAGAGAAGAGTTCATA
Found at i:197617 original size:3 final size:3
Alignment explanation
Indices: 197603--197688 Score: 104
Period size: 3 Copynumber: 29.0 Consensus size: 3
197593 TTTATCCATT
* * *
197603 TTA TTCA TTA TTA TTA ATA -TA TTA TTA TCA TTA TTA ATA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
197648 TTA GTA TTA TTA TTT TTA TTA TTA TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
197689 AATATATTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
2 4 0.06
3 64 0.90
4 3 0.04
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:198253 original size:1 final size:1
Alignment explanation
Indices: 198247--198274 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
198237 GAACCAGAAG
198247 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
198275 GAAAGAGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Done.