Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 110 of 333
Found at i:35432622 original size:16 final size:16
Alignment explanation
Indices: 35432601--35432631 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35432591 AGACTTTCAG
35432601 CTTTTCGGCACTTCGA
1 CTTTTCGGCACTTCGA
*
35432617 CTTTTCGGCATTTCG
1 CTTTTCGGCACTTCG
35432632 GGATTTGCCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.29, G:0.19, T:0.42
Consensus pattern (16 bp):
CTTTTCGGCACTTCGA
Found at i:35436239 original size:29 final size:29
Alignment explanation
Indices: 35436173--35436263 Score: 125
Period size: 29 Copynumber: 3.2 Consensus size: 29
35436163 AAGTCTACAT
* **
35436173 ACATGCATATGGCCCGCTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
35436201 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
35436230 ACATTCATATGGCCCATCT-GGCCCAAATC
1 ACATTCATATGGCCCAT-TAGGCCCAAATC
35436259 A-ATTC
1 ACATTC
35436264 CAAGCAATGT
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
28 25 0.43
29 32 0.55
30 1 0.02
ACGTcount: A:0.29, C:0.33, G:0.15, T:0.23
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:35436511 original size:16 final size:16
Alignment explanation
Indices: 35436486--35436516 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35436476 AGACTTTTGG
35436486 CTTTTCAGCATTTCGA
1 CTTTTCAGCATTTCGA
*
35436502 CTTTTTAGCATTTCG
1 CTTTTCAGCATTTCG
35436517 GGATTTGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.23, G:0.13, T:0.48
Consensus pattern (16 bp):
CTTTTCAGCATTTCGA
Found at i:35440103 original size:28 final size:29
Alignment explanation
Indices: 35440071--35440135 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
35440061 ATACATGCAT
*
35440071 ATGGCCCACTAGGCCC-AATCTCATTCAA
1 ATGGCCCACTAGGCCCAAATCACATTCAA
* *
35440099 ATGGCCCATTAGGCCCAAATCACATTCAT
1 ATGGCCCACTAGGCCCAAATCACATTCAA
35440128 ATGGCCCA
1 ATGGCCCA
35440136 TCTGACCCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 15 0.45
29 18 0.55
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.22
Consensus pattern (29 bp):
ATGGCCCACTAGGCCCAAATCACATTCAA
Found at i:35440131 original size:29 final size:28
Alignment explanation
Indices: 35440063--35440136 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
35440053 AAGTCTACAT
* *
35440063 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
* *
35440091 TCATTCAAATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
35440120 ACATTCATATGGCCCAT
1 ACATTCATATGGCCCAT
35440137 CTGACCCGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 20 0.51
29 19 0.49
ACGTcount: A:0.30, C:0.32, G:0.15, T:0.23
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:35441159 original size:5 final size:5
Alignment explanation
Indices: 35441149--35441187 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
35441139 CTATTTGCAA
*
35441149 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC GAAAC AAAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
35441188 GAGTCAAGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.79, C:0.18, G:0.03, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:35442510 original size:90 final size:90
Alignment explanation
Indices: 35442340--35442512 Score: 240
Period size: 90 Copynumber: 1.9 Consensus size: 90
35442330 CATTGTCAGA
* * *
35442340 TGAACCACCAAGTTTGCAGGTTAATACGCTTCCAGATGGTTGTAAATACACAACATAATTGCATA
1 TGAACCACCAAGGTTGCAGGTTAATACGCTTCCAAATGGTTGTAAATACACAACATAATTGCAGA
**
35442405 TAAAAGCTACCAGATAATGGATGGG
66 TAAAAAATACCAGATAATGGATGGG
* * *
35442430 TGAACCACCAAGGTTGCAGGTTAATACG-TTGCCAAATGGTTGTGAATACACAACATATTTGTAG
1 TGAACCACCAAGGTTGCAGGTTAATACGCTT-CCAAATGGTTGTAAATACACAACATAATTGCAG
**
35442494 ATAAAAAATAGTAGATAAT
65 ATAAAAAATACCAGATAAT
35442513 ATGTGGATGG
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
89 2 0.03
90 70 0.97
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (90 bp):
TGAACCACCAAGGTTGCAGGTTAATACGCTTCCAAATGGTTGTAAATACACAACATAATTGCAGA
TAAAAAATACCAGATAATGGATGGG
Found at i:35442930 original size:171 final size:173
Alignment explanation
Indices: 35442644--35442988 Score: 534
Period size: 171 Copynumber: 2.0 Consensus size: 173
35442634 TTTATAAATA
* *
35442644 ATTCTTCCTATAAAGACCAAAACAAAACTTTAAGTTCTCAATTAATTGTCACTGTAAATTAAGTT
1 ATTCTTCCTAAAAAGACCAAAACAAAACTTTAAGTTCTCAAGTAATTGTCACTGTAAATTAAGTT
* *
35442709 TGAGGTTTTCATTAAAAATAATTTCAGCGGGTACATTTATAAGAGAATTTAACTTGATATTTTGA
66 TGAGGTTTTCATTAAAAATAATTTCAACGAGTACATTTATAAGAGAATTTAACTTGATATTTTGA
*
35442774 CATATTTG-AAT-TTTTCTTTTAAAAAGGAGACAATAAAGTTTT
131 CATATTTGAAATGTTTT-TTTTAAAAACGAGACAATAAAGTTTT
** * *
35442816 ATTCTTCCTAAAAAGACCAAAATGAAACTTTAAGTTTTCAAGTAATTGTCACTG-CAATTAAGTT
1 ATTCTTCCTAAAAAGACCAAAACAAAACTTTAAGTTCTCAAGTAATTGTCACTGTAAATTAAGTT
*
35442880 TGAGGTTTTCATTAAAAATAATTTCAACGAGTACGTTTATAAGAGAATTTAACTTGATATTTTGA
66 TGAGGTTTTCATTAAAAATAATTTCAACGAGTACATTTATAAGAGAATTTAACTTGATATTTTGA
* * * *
35442945 CATGTTTGAAATGTTTTTTTTTAAAACGAGATAATGAAGTTTT
131 CATATTTGAAATGTTTTTTTTAAAAACGAGACAATAAAGTTTT
35442988 A
1 A
35442989 ACCTGCTGGA
Statistics
Matches: 157, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
171 78 0.50
172 75 0.48
173 4 0.03
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.39
Consensus pattern (173 bp):
ATTCTTCCTAAAAAGACCAAAACAAAACTTTAAGTTCTCAAGTAATTGTCACTGTAAATTAAGTT
TGAGGTTTTCATTAAAAATAATTTCAACGAGTACATTTATAAGAGAATTTAACTTGATATTTTGA
CATATTTGAAATGTTTTTTTTAAAAACGAGACAATAAAGTTTT
Found at i:35443592 original size:10 final size:10
Alignment explanation
Indices: 35443553--35443589 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
35443543 TGTTATAAAG
35443553 TTAACAACAA
1 TTAACAACAA
35443563 TTAACAACAA
1 TTAACAACAA
35443573 TTAACAA-AA
1 TTAACAACAA
35443582 TTGAACAA
1 TT-AACAA
35443590 AATAAAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 4 0.15
10 22 0.85
ACGTcount: A:0.59, C:0.16, G:0.03, T:0.22
Consensus pattern (10 bp):
TTAACAACAA
Found at i:35445399 original size:21 final size:21
Alignment explanation
Indices: 35445362--35445413 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
35445352 GGTATCTACA
* *
35445362 AATCAAATC-TCTTAGATTAC
1 AATCATATCTTCTAAGATTAC
35445382 AATCATATCTTCTAAGATTAC
1 AATCATATCTTCTAAGATTAC
35445403 ATATCATATCT
1 A-ATCATATCT
35445414 AAGATTGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 8 0.29
21 11 0.39
22 9 0.32
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.38
Consensus pattern (21 bp):
AATCATATCTTCTAAGATTAC
Found at i:35458494 original size:22 final size:23
Alignment explanation
Indices: 35458477--35458521 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
35458467 AAATCAATTC
35458477 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTACAAAATCATATCT
*
35458500 TCTAAGATTAC-ATATCATATCT
1 TCTAAGATTACAAAATCATATCT
35458522 AAGATTGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (23 bp):
TCTAAGATTACAAAATCATATCT
Found at i:35458505 original size:23 final size:22
Alignment explanation
Indices: 35458464--35458521 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
35458454 AAAGGGTATC
35458464 TACAAATCA-AT-TCTCTAAGAT
1 TACAAATCATATCT-TCTAAGAT
35458485 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
35458508 TACATATCATATCT
1 TACAAATCATATCT
35458522 AAGATTGCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
21 3 0.09
22 16 0.48
23 13 0.39
24 1 0.03
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:35458515 original size:17 final size:17
Alignment explanation
Indices: 35458493--35458543 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
35458483 ATTACAAAAT
35458493 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
*
35458510 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTA
*
35458529 CATATCTTCGAAGAT
1 CATATCTTCTAAGAT
35458544 CATGTTTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:35458524 original size:19 final size:20
Alignment explanation
Indices: 35458477--35458534 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
35458467 AAATCAATTC
*
35458477 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-ATATCATA--T
35458500 TCTAAGATTACATATCATA-
1 TCTAAGATTACATATCATAT
*
35458519 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
35458535 TTCGAAGATC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
22 7 0.21
23 11 0.33
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (20 bp):
TCTAAGATTACATATCATAT
Found at i:35472705 original size:94 final size:94
Alignment explanation
Indices: 35472544--35472731 Score: 340
Period size: 94 Copynumber: 2.0 Consensus size: 94
35472534 CTTGTGTTTC
35472544 TTATTCTCAAGGAAAATTGATTATTAGATCATCACCGACTAAAGTTGGCATTGAATCTCCTACAT
1 TTATTCTCAAGGAAAATTGATTATTAGATCATCACCGACTAAAGTTGGCATTGAATCTCCTACAT
35472609 TTCTGAAACGTATTCAAGGTAATATATGT
66 TTCTGAAACGTATTCAAGGTAATATATGT
* *
35472638 TTATTCTCAAGGAAAATTGATTATTAGATCATCATCGACTAAAGTTGGGATTGAATCTCCTACAT
1 TTATTCTCAAGGAAAATTGATTATTAGATCATCACCGACTAAAGTTGGCATTGAATCTCCTACAT
* *
35472703 TTCTGGAACGTATTCAAGGTGATATATGT
66 TTCTGAAACGTATTCAAGGTAATATATGT
35472732 GGGCCCATTC
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 90 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (94 bp):
TTATTCTCAAGGAAAATTGATTATTAGATCATCACCGACTAAAGTTGGCATTGAATCTCCTACAT
TTCTGAAACGTATTCAAGGTAATATATGT
Found at i:35475809 original size:49 final size:49
Alignment explanation
Indices: 35475704--35475887 Score: 203
Period size: 49 Copynumber: 3.8 Consensus size: 49
35475694 GGGTTAAGAT
* * *
35475704 GCCGACGCCATGTCCCAAACATGGTCTTACACTAGCTTTCATATAGCGAG
1 GCCGATGCCATGTCCCAAATA-GGTCTTACACTAGCTCTCATATAGCGAG
* * * *
35475754 GCCGATGCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCG-G
1 GCCGATGCCATGTCCCAAATAGGTCTTACACTAGCTCTCATATAGCGAG
* * *
35475802 TGTCGATGCCATGTCCCAAATAGGTCTTACACTAGCTTGTC-TATCGCGAG
1 -GCCGATGCCATGTCCCAAATAGGTCTTACACTAGC-TCTCATATAGCGAG
* * *
35475852 GCTGATG-CATGTCCCAAACATGTCTTACACTAGCTC
1 GCCGATGCCATGTCCCAAATAGGTCTTACACTAGCTC
35475888 CCGACCCAAT
Statistics
Matches: 112, Mismatches: 19, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
47 1 0.01
48 26 0.23
49 63 0.56
50 22 0.20
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAAATAGGTCTTACACTAGCTCTCATATAGCGAG
Found at i:35475946 original size:94 final size:94
Alignment explanation
Indices: 35475712--35476025 Score: 274
Period size: 94 Copynumber: 3.3 Consensus size: 94
35475702 ATGCCGACGC
* ** * * * * *
35475712 CATGTCCCAAACATGGTCTTACACTAGCTTTCATATAGCGAGGCCGATGCCATGTCCCAGATAGG
1 CATGTCCCAGACAT-GTCTTACACTAGCTTAAATATCGCGAGGCCTATG-CATGTCCCAAACATG
* * * * **
35475777 TCTTACACTGGCTCTCA-TCTATCGGTGTCGATG
64 TCTTACACTAGCTCCCACCCAAT--G-ACCGATG
* * * ***
35475810 CCATGTCCCAAATAGGTCTTACACTAGCTTGTCTATCGCGAGG-CTGATGCATGTCCCAAACATG
1 -CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCT-ATGCATGTCCCAAACATG
35475874 TCTTACACTAGCTCCCGACCCAAT-ACCGATG
64 TCTTACACTAGCTCCC-ACCCAATGACCGATG
* * *
35475905 CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCCTATGCATGTCCCAAACATGTT
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCTATGCATGTCCCAAACATGTC
* * * * **
35475970 TTACACTAGCTCTCATCTAGTGGTCGATG
66 TTACACTAGCTCCCACCCAATGACCGATG
35475999 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
35476026 ACACAATCAC
Statistics
Matches: 178, Mismatches: 32, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
93 4 0.02
94 97 0.54
95 7 0.04
97 27 0.15
98 28 0.16
99 15 0.08
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCTATGCATGTCCCAAACATGTC
TTACACTAGCTCCCACCCAATGACCGATG
Found at i:35476013 original size:46 final size:46
Alignment explanation
Indices: 35475712--35476025 Score: 238
Period size: 46 Copynumber: 6.6 Consensus size: 46
35475702 ATGCCGACGC
* *
35475712 CATGTCCCAAACATGGTCTTACACTAGCTTTCATATAGCGAGGCCGATG
1 CATGTCCCAAACAT-GTCTTACACTAGCTCTCATCTA--GAGGCCGATG
* * * * *
35475761 CCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCG-GTGTCGATG
1 -CATGTCCCAAACATGTCTTACACTAGCTCTCATCTA--GAG-GCCGATG
* * * ** *
35475810 CCATGTCCCAAATAGGTCTTACACTAGCTTGTCTATCGCGAGGCTGATG
1 -CATGTCCCAAACATGTCTTACACTAGC-TCTC-ATCTAGAGGCCGATG
* * * **
35475859 CATGTCCCAAACATGTCTTACACTAGCTCCCGACCCA-ATACCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTCTC-ATCTAGAGGCCGATG
* * * * *
35475905 CATGTCCCAGACATGTCTTACACTGGCT-TAAATATCTCGAGGCCTATG
1 CATGTCCCAAACATGTCTTACACTAGCTCT---CATCTAGAGGCCGATG
* * *
35475953 CATGTCCCAAACATGTTTTACACTAGCTCTCATCTAGTGGTCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTCTCATCTAGAGGCCGATG
*
35475999 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAAACATGTCTTACACTAGC
35476026 ACACAATCAC
Statistics
Matches: 209, Mismatches: 46, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
46 68 0.33
47 6 0.03
48 57 0.27
49 60 0.29
50 15 0.07
51 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAAACATGTCTTACACTAGCTCTCATCTAGAGGCCGATG
Found at i:35480732 original size:22 final size:24
Alignment explanation
Indices: 35480684--35480729 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
35480674 GCATCACATT
* *
35480684 TCATATACCAAAATCAAACCATAA
1 TCATATACAAAAACCAAACCATAA
*
35480708 TCATA-ACAAAAACCAAGCCATA
1 TCATATACAAAAACCAAACCATA
35480730 TCACATGGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.54, C:0.26, G:0.02, T:0.17
Consensus pattern (24 bp):
TCATATACAAAAACCAAACCATAA
Found at i:35481364 original size:42 final size:41
Alignment explanation
Indices: 35481290--35481420 Score: 138
Period size: 44 Copynumber: 3.0 Consensus size: 41
35481280 TAGATGTAAC
* * *
35481290 CAAATATCGATGCCACTGTCTCAGATAGGGTCTTACACGAAAT
1 CAAATA-CGATGCCAATGTC-CAGACATGGTCTTACACGAAAT
35481333 CAAATACGATGCCAATGTACCAGACATGGTCTTACACGTAAAT
1 CAAATACGATGCCAATGT-CCAGACATGGTCTTACACG-AAAT
* * *
35481376 CATAAGT-CGATGCCAACGTCCAAGACATGGTCGTACATGAAAT
1 CA-AA-TACGATGCCAATGTCC-AGACATGGTCTTACACGAAAT
35481419 CA
1 CA
35481421 CATATCGGAT
Statistics
Matches: 77, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
42 27 0.35
43 21 0.27
44 28 0.36
45 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (41 bp):
CAAATACGATGCCAATGTCCAGACATGGTCTTACACGAAAT
Found at i:35482527 original size:13 final size:13
Alignment explanation
Indices: 35482509--35482535 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35482499 CACAAACGAT
35482509 AAAATTTTCACAC
1 AAAATTTTCACAC
35482522 AAAATTTTCACAC
1 AAAATTTTCACAC
35482535 A
1 A
35482536 TACTAATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:35485463 original size:49 final size:48
Alignment explanation
Indices: 35485408--35485581 Score: 147
Period size: 49 Copynumber: 3.6 Consensus size: 48
35485398 GGTGTGTCAT
*
35485408 TGTAAGACCTATCTGGGACATGGCATCGACACAAATAAGTGAGAGCCAG
1 TGTAAGACCTATCTGGGACATGGCATCGACTCAAAT-AGTGAGAGCCAG
* * * ** *
35485457 TGTAAGATCTATCTGGGACATGTCATCGGCCTCGATGTA-TG-GAAGTCAG
1 TGTAAGACCTATCTGGGACATGGCATC-GACTC-AAATAGTGAG-AGCCAG
* * * * *
35485506 TGTAAGACTTGTCTGGGACATGACATCGACTTAGAT-GTGAGAGCCAG
1 TGTAAGACCTATCTGGGACATGGCATCGACTCAAATAGTGAGAGCCAG
* * *
35485553 TGTAAGACCATGTTTGGAACATGGCATCG
1 TGTAAGACC-TATCTGGGACATGGCATCG
35485582 GCATCGTACC
Statistics
Matches: 99, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
47 17 0.17
48 21 0.21
49 55 0.56
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
TGTAAGACCTATCTGGGACATGGCATCGACTCAAATAGTGAGAGCCAG
Found at i:35488774 original size:49 final size:48
Alignment explanation
Indices: 35488708--35489020 Score: 193
Period size: 49 Copynumber: 6.6 Consensus size: 48
35488698 CATCAAAGTT
* *
35488708 GATGTCATGTCCTAGACAGGTCTTACACTGACTTTCATATATCGAGACC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-CC
* * * * * *
35488757 GATGCCGTGTCCCAGACAGGTCTTACGCTGGCTCTCATCTATCGATGTC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGA-GCC
* * * * * *
35488806 GATGCCATGTCCCAGACAAGTCTTACATTGA--TACACA-A-CAAGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGCC
* * *
35488850 GACGCCATGTCCCAGACAGGTCTTACACT-AGCTTGT-ATATCTCGAGATC
1 GATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATCGAG-CC
* * * * * * *
35488899 GATG-CATGTCCTAGACATGTCTTACACT-AGC--TCTTGTCTCAATGTC
1 GATGCCATGTCCCAGACAGGTCTTACACTGA-CTTTCATATATCGA-GCC
* * * *
35488945 GATG-CATGTCCCAGACATGTCTTACACTGGCTGGT-ATATCTCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACT-TTCATATATCGA-GCC
*
35488993 GATG-CATGTCCCAGACATGTCTTACACT
1 GATGCCATGTCCCAGACAGGTCTTACACT
35489021 AGCACACATA
Statistics
Matches: 208, Mismatches: 42, Indels: 29
0.75 0.15 0.10
Matches are distributed among these distances:
43 1 0.00
44 27 0.13
45 3 0.01
46 40 0.19
47 3 0.01
48 64 0.31
49 69 0.33
50 1 0.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGCC
Found at i:35488915 original size:48 final size:47
Alignment explanation
Indices: 35488855--35489023 Score: 225
Period size: 48 Copynumber: 3.6 Consensus size: 47
35488845 AAGCTGACGC
*
35488855 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGATCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAG-TCGATG
* * * *
35488903 CATGTCCTAGACATGTCTTACACTAGC-TCT-TGTCTCAATGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGA-GTCGATG
* * *
35488949 CATGTCCCAGACATGTCTTACACTGGCTGGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGA-GTCGATG
35488997 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
35489024 ACACATATCA
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
46 37 0.36
47 4 0.04
48 63 0.61
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGTCGATG
Found at i:35495211 original size:20 final size:20
Alignment explanation
Indices: 35495182--35495238 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
35495172 ATAAACTATG
* *
35495182 TACCACTCCATTTACTTTCT
1 TACCATTCCATTTACTTACT
35495202 TACCATTCCATTTACTTACT
1 TACCATTCCATTTACTTACT
* *
35495222 TTCCATTTCATTTACTT
1 TACCATTCCATTTACTT
35495239 CACATAAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.21, C:0.30, G:0.00, T:0.49
Consensus pattern (20 bp):
TACCATTCCATTTACTTACT
Found at i:35496698 original size:26 final size:26
Alignment explanation
Indices: 35496669--35496718 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
35496659 GAAAATGATG
*
35496669 TGAATGAATAAAAACCAATGGGCAGA
1 TGAATGAAGAAAAACCAATGGGCAGA
**
35496695 TGAATGAAGAAACTCCAATGGGCA
1 TGAATGAAGAAAAACCAATGGGCA
35496719 TACAATGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.46, C:0.14, G:0.24, T:0.16
Consensus pattern (26 bp):
TGAATGAAGAAAAACCAATGGGCAGA
Found at i:35498191 original size:26 final size:26
Alignment explanation
Indices: 35498162--35498211 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
35498152 CATTCTTGAT
35498162 TTAAATTAATAATTTCATTAAATTAA
1 TTAAATTAATAATTTCATTAAATTAA
*
35498188 TTAAATTAATAATTTTATTAAATT
1 TTAAATTAATAATTTCATTAAATT
35498212 CCACGATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
TTAAATTAATAATTTCATTAAATTAA
Found at i:35498192 original size:9 final size:9
Alignment explanation
Indices: 35498162--35498211 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 9
35498152 CATTCTTGAT
35498162 TTAAATTAA
1 TTAAATTAA
* *
35498171 -TAATTTCA
1 TTAAATTAA
35498179 TTAAATTAA
1 TTAAATTAA
35498188 TTAAATTAA
1 TTAAATTAA
* *
35498197 -TAATTTTA
1 TTAAATTAA
35498205 TTAAATT
1 TTAAATT
35498212 CCACGATAAC
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
8 12 0.38
9 20 0.62
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (9 bp):
TTAAATTAA
Found at i:35504716 original size:19 final size:19
Alignment explanation
Indices: 35504692--35504728 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
35504682 TTAATGTGCG
*
35504692 AATATATGTATATGTGTGT
1 AATATATATATATGTGTGT
35504711 AATATATATATATGTGTG
1 AATATATATATATGTGTG
35504729 GATCGAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (19 bp):
AATATATATATATGTGTGT
Found at i:35505002 original size:41 final size:41
Alignment explanation
Indices: 35504940--35505115 Score: 280
Period size: 41 Copynumber: 4.3 Consensus size: 41
35504930 GTTTGGAATT
* *
35504940 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
35504981 GGTGATCTAAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
35505022 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
35505063 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
35505104 GGTGATCCGAAT
1 GGTGATCTGAAT
35505116 ATGATGAATT
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 123 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:35505077 original size:82 final size:82
Alignment explanation
Indices: 35504940--35505109 Score: 331
Period size: 82 Copynumber: 2.1 Consensus size: 82
35504930 GTTTGGAATT
35504940 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
35505005 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
*
35505022 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
35505087 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
35505104 GGTGAT
1 GGTGAT
35505110 CCGAATATGA
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 87 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:35512365 original size:19 final size:19
Alignment explanation
Indices: 35512341--35512377 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
35512331 TTAATGTGCG
*
35512341 AATATATGTATATGTGTGT
1 AATATATATATATGTGTGT
35512360 AATATATATATATGTGTG
1 AATATATATATATGTGTG
35512378 GATCGAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (19 bp):
AATATATATATATGTGTGT
Found at i:35512651 original size:41 final size:41
Alignment explanation
Indices: 35512589--35512764 Score: 280
Period size: 41 Copynumber: 4.3 Consensus size: 41
35512579 GTTTGGAATT
* *
35512589 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
35512630 GGTGATCTAAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
* *
35512671 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
35512712 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
*
35512753 GGTGATCCGAAT
1 GGTGATCTGAAT
35512765 ATGATGAATT
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 123 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCC
Found at i:35512726 original size:82 final size:82
Alignment explanation
Indices: 35512589--35512758 Score: 331
Period size: 82 Copynumber: 2.1 Consensus size: 82
35512579 GTTTGGAATT
35512589 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
35512654 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
*
35512671 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
35512736 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
35512753 GGTGAT
1 GGTGAT
35512759 CCGAATATGA
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 87 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:35520425 original size:7 final size:7
Alignment explanation
Indices: 35520413--35520454 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
35520403 GCCGAAGCCT
35520413 TTTCATA
1 TTTCATA
35520420 TTTCATA
1 TTTCATA
35520427 TTTCATA
1 TTTCATA
35520434 TTTCATA
1 TTTCATA
35520441 TTTCATA
1 TTTCATA
35520448 TTTCATA
1 TTTCATA
35520455 ACACTAGGCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTCATA
Found at i:35520504 original size:31 final size:31
Alignment explanation
Indices: 35520441--35520504 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 31
35520431 ATATTTCATA
* *
35520441 TTTCATATTTCATAACACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCAAAACCT
** * *
35520472 TTTCATATTTCATATTACTGGGTCAAAACCT
1 TTTCATATTTCATAACACTAGGCCAAAACCT
35520503 TT
1 TT
35520505 ACTATAAACG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCAAAACCT
Found at i:35520796 original size:51 final size:48
Alignment explanation
Indices: 35520714--35520822 Score: 164
Period size: 51 Copynumber: 2.2 Consensus size: 48
35520704 CTGGAGGCCT
*
35520714 AGCCTCTTTTAATAACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCAAA
1 AGCC-CTTTTAATAACTAGGGCAAAGCCCTTTTCGGTAAACTGGGGC-AA
*
35520764 AGCCCTTTTAATAAACTAGGGCAAAAGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTTAAT-AACTAGGGC-AAAGCCCTTTTCGGTAAACTGGGGCAA
35520814 AGCCCTTTT
1 AGCCCTTTT
35520823 TGCACTTCCT
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
49 8 0.15
50 22 0.40
51 25 0.45
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (48 bp):
AGCCCTTTTAATAACTAGGGCAAAGCCCTTTTCGGTAAACTGGGGCAA
Found at i:35520823 original size:26 final size:26
Alignment explanation
Indices: 35520727--35520822 Score: 135
Period size: 25 Copynumber: 3.8 Consensus size: 26
35520717 CTCTTTTAAT
35520727 AACTGGGGC-AAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
**
35520752 AACTGGGGCAAAAGCCCTTTT-AATA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
*
35520777 AACTAGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
*
35520803 AACTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
35520823 TGCACTTCCT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
25 41 0.66
26 21 0.34
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGGTA
Found at i:35520893 original size:20 final size:20
Alignment explanation
Indices: 35520870--35520916 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
35520860 TTATGAATAC
35520870 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
35520889 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
35520910 ATCATGT
1 ATCATGT
35520917 ATATTAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:35531882 original size:21 final size:22
Alignment explanation
Indices: 35531856--35531904 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
35531846 GGGAGGGGTT
35531856 TTTTTAATATTAATA-T-AATTA
1 TTTTTAAT-TTAATATTAAATTA
35531877 TTTTT-ATTTAATATTAAATTA
1 TTTTTAATTTAATATTAAATTA
35531898 TTTTTAA
1 TTTTTAA
35531905 ACTATATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 6 0.24
20 3 0.12
21 15 0.60
22 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTTAATTTAATATTAAATTA
Found at i:35547040 original size:94 final size:91
Alignment explanation
Indices: 35546798--35547063 Score: 299
Period size: 94 Copynumber: 2.9 Consensus size: 91
35546788 ATATATTGTT
**
35546798 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTGCTGATGCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT--GTGCCAATGCATGTCCCAGA
* *
35546863 CATGTCTTACACTAGCACGACTCTTAGCC
63 CATGTCTTACACTGGCACCACTCTTAGCC
* * * * *
35546892 AATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCTCTGTCAA-G-GCCAATGCATGTCTCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTC-AT-AATGTGCCAATGCATGTCCCAG
*
35546953 ACATGTCTTACTCTGGCACTCATCTCTATA-CC
62 ACATGTCTTACACTGGCAC-CA-CTCT-TAGCC
*
35546985 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGACCAAAGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG-CCAATGCATGTCCCAGACA
35547050 TGTCTTACACTGGC
65 TGTCTTACACTGGC
35547064 GCACAAATCA
Statistics
Matches: 143, Mismatches: 17, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
91 33 0.23
92 17 0.12
93 26 0.18
94 51 0.36
95 15 0.10
96 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (91 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGCCAATGCATGTCCCAGACAT
GTCTTACACTGGCACCACTCTTAGCC
Found at i:35547041 original size:47 final size:46
Alignment explanation
Indices: 35546803--35547063 Score: 189
Period size: 47 Copynumber: 5.6 Consensus size: 46
35546793 TTGTTGATGC
**
35546803 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTG-CTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCATA-AT--GTGACCAATG
* * * *
35546852 CATGTCCCAGACATGTCTTACACTAGCAC-GACT-CT-T-AGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCA-TAATGTGA-CCAATG
* * *
35546896 CGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCAA-G-G-CCAATG
1 CATGTCCCAGACATGTCTTACACTGGC--TCTC-AT-AATGTGACCAATG
* * * * * * *
35546943 CATGTCTCAGACATGTCTTACTCTGGCACTCAT-CTCTATACCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATAATGT-GACCAATG
*
35546989 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGACCAAAG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGTGACCAATG
35547037 CATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
35547064 GCACAAATCA
Statistics
Matches: 163, Mismatches: 31, Indels: 39
0.70 0.13 0.17
Matches are distributed among these distances:
43 1 0.01
44 29 0.18
45 3 0.02
46 20 0.12
47 58 0.36
48 36 0.22
49 16 0.10
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGACCAATG
Found at i:35553981 original size:42 final size:42
Alignment explanation
Indices: 35553922--35554008 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
35553912 GAGAAAGTGA
35553922 TGATGATAATGATGATGGTGAATCAAACAATTCAACTGGTTT
1 TGATGATAATGATGATGGTGAATCAAACAATTCAACTGGTTT
*
35553964 TGATGATAATGATGATGGTGAATCAAACAATTCAAGTGGTTT
1 TGATGATAATGATGATGGTGAATCAAACAATTCAACTGGTTT
35554006 TGA
1 TGA
35554009 AATGGAATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (42 bp):
TGATGATAATGATGATGGTGAATCAAACAATTCAACTGGTTT
Found at i:35556767 original size:20 final size:20
Alignment explanation
Indices: 35556742--35556782 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
35556732 ATTGGACTTT
*
35556742 AATTTTTAAATCAAAACTAA
1 AATTTTGAAATCAAAACTAA
* *
35556762 AATTTTGAAATTAAAAGTAA
1 AATTTTGAAATCAAAACTAA
35556782 A
1 A
35556783 GGGATTGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (20 bp):
AATTTTGAAATCAAAACTAA
Found at i:35557940 original size:30 final size:30
Alignment explanation
Indices: 35557904--35558057 Score: 191
Period size: 30 Copynumber: 4.8 Consensus size: 30
35557894 ACTTTTCTCA
*
35557904 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
35557934 ACTAGCCACACCTTTTCCACTACCAACTCCACCAACTCC
1 ACTAGCCACACC-TTT----T-CC-A--CCACCAACTCC
35557973 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
35558003 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
35558033 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
35558058 CTTGTACCTA
Statistics
Matches: 109, Mismatches: 6, Indels: 18
0.82 0.05 0.14
Matches are distributed among these distances:
30 72 0.66
31 3 0.03
32 1 0.01
33 2 0.02
34 1 0.01
35 1 0.01
36 2 0.02
37 1 0.01
38 3 0.03
39 23 0.21
ACGTcount: A:0.26, C:0.49, G:0.03, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:35557971 original size:39 final size:39
Alignment explanation
Indices: 35557923--35558004 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
35557913 TCCTTTTCCA
*
35557923 CCACCAACTCCACTAGCCACACCTTTTCCACTACCAACT
1 CCACCAACTCCACTAGCCACACCTTTTCCACCACCAACT
35557962 CCACCAACTCCACTAGCCACACCTTTTCCACCACCAACT
1 CCACCAACTCCACTAGCCACACCTTTTCCACCACCAACT
35558001 CCAC
1 CCAC
35558005 TAGCCACTCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.28, C:0.51, G:0.02, T:0.18
Consensus pattern (39 bp):
CCACCAACTCCACTAGCCACACCTTTTCCACCACCAACT
Found at i:35557991 original size:18 final size:18
Alignment explanation
Indices: 35557931--35557992 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
35557921 CACCACCAAC
35557931 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
***
35557949 TCCACTA-CCAACTCCACCAAC
1 TCCACTAGCC-A---CACCTTT
35557970 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
35557988 TCCAC
1 TCCAC
35557993 CACCAACTCC
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
17 2 0.06
18 17 0.52
21 12 0.36
22 2 0.06
ACGTcount: A:0.26, C:0.48, G:0.03, T:0.23
Consensus pattern (18 bp):
TCCACTAGCCACACCTTT
Found at i:35558019 original size:69 final size:69
Alignment explanation
Indices: 35557904--35558034 Score: 226
Period size: 69 Copynumber: 1.9 Consensus size: 69
35557894 ACTTTTCTCA
* *
35557904 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACTACCAACTCCACCAA
1 ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACCAA
35557969 CTCC
66 CTCC
* *
35557973 ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACTCTTTTTCCACCACCAACTCCAC
1 ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCAC
35558035 TAGCCACACC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.26, C:0.49, G:0.03, T:0.22
Consensus pattern (69 bp):
ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACCAA
CTCC
Found at i:35558562 original size:23 final size:23
Alignment explanation
Indices: 35558535--35558663 Score: 65
Period size: 23 Copynumber: 5.5 Consensus size: 23
35558525 CCTTTTTTGT
35558535 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATATTA
* *
35558558 TATTA-TATATATTCTT-TTAATA
1 TATTATTATAT-TTCTTAATATTA
* *
35558580 TATTAGGTATATTT-TAAAT-TCTA
1 TATTA-TTATATTTCTTAATAT-TA
*
35558603 TATTACATATATATATT-TT-ATACTA
1 TATT--AT-TATAT-TTCTTAATATTA
* *
35558628 TTTTATGTATATATCTTTAATATTA
1 TATTAT-TATATTTC-TTAATATTA
35558653 TATTATT-TATT
1 TATTATTATATT
35558664 ATATATATAT
Statistics
Matches: 79, Mismatches: 14, Indels: 26
0.66 0.12 0.22
Matches are distributed among these distances:
22 16 0.20
23 29 0.37
24 8 0.10
25 23 0.29
26 3 0.04
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTATTATATTTCTTAATATTA
Found at i:35558651 original size:59 final size:58
Alignment explanation
Indices: 35558593--35558703 Score: 143
Period size: 57 Copynumber: 1.9 Consensus size: 58
35558583 TAGGTATATT
* *
35558593 TTAAATTCTATATTACATATATATATTTT-ATACTATTTTATGTATATATCTTTAATA
1 TTAAATTATATATTACATATATATATTTTAATACTATCTTATGTATATATCTTTAATA
* * * **
35558650 TTATATTATTTATTATATATATATATTTTACATGTTATCTTATGTATATATCTT
1 TTAAATTATATATTACATATATATATTTTA-ATACTATCTTATGTATATATCTT
35558704 AACTATATTA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
57 25 0.56
59 20 0.44
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (58 bp):
TTAAATTATATATTACATATATATATTTTAATACTATCTTATGTATATATCTTTAATA
Found at i:35558658 original size:25 final size:25
Alignment explanation
Indices: 35558549--35558669 Score: 72
Period size: 25 Copynumber: 5.0 Consensus size: 25
35558539 ATTATATTTC
* *
35558549 TTAATATTATATTATATATAT-TCT
1 TTAATACTATATTATATATATATAT
* **
35558573 TT--TAATATATTAGGTATAT-T-T
1 TTAATACTATATTATATATATATAT
* * *
35558594 TAAATTCTATATTACATATATATAT
1 TTAATACTATATTATATATATATAT
* * * *
35558619 TTTATACTATTTTATGTATATATCT
1 TTAATACTATATTATATATATATAT
* *
35558644 TTAATATTATATTATTTATTATATAT
1 TTAATACTATATTATATA-TATATAT
35558670 ATATATTTTA
Statistics
Matches: 72, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
21 2 0.03
22 15 0.21
23 13 0.18
24 3 0.04
25 33 0.46
26 6 0.08
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATACTATATTATATATATATAT
Found at i:35558675 original size:25 final size:27
Alignment explanation
Indices: 35558609--35558718 Score: 75
Period size: 27 Copynumber: 4.1 Consensus size: 27
35558599 TCTATATTAC
*
35558609 ATATATATATTTTATACTATTTTATGT
1 ATATATATATATTATACTATTTTATGT
* *
35558636 ATATATCTTTAATATTATATTA-TTTAT-T
1 ATATA--TAT-ATATTATACTATTTTATGT
* * *
35558664 ATATATATATATTTTAC-ATGTTATCTT
1 ATATATATATATTATACTATTTTAT-GT
* * *
35558691 ATGTATATATCTTA-ACTATATTATGT
1 ATATATATATATTATACTATTTTATGT
35558717 AT
1 AT
35558719 GTATTTTTAA
Statistics
Matches: 64, Mismatches: 12, Indels: 15
0.70 0.13 0.16
Matches are distributed among these distances:
24 1 0.02
25 11 0.17
26 7 0.11
27 23 0.36
28 6 0.09
29 7 0.11
30 9 0.14
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (27 bp):
ATATATATATATTATACTATTTTATGT
Found at i:35558717 original size:22 final size:24
Alignment explanation
Indices: 35558689--35558747 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
35558679 ACATGTTATC
35558689 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
35558711 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
35558736 TTATGTACATAT
1 TTATGTATATAT
35558748 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:35558737 original size:25 final size:25
Alignment explanation
Indices: 35558705--35558753 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
35558695 ATATATCTTA
**
35558705 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
35558730 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
35558754 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:35558922 original size:8 final size:7
Alignment explanation
Indices: 35558903--35558942 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
35558893 TATTAATTAT
*
35558903 TATTCTA
1 TATTTTA
35558910 TATTTTGA
1 TATTTT-A
35558918 TATTTTAA
1 TATTTT-A
35558926 TATTTTA
1 TATTTTA
35558933 TATTTTA
1 TATTTTA
35558940 TAT
1 TAT
35558943 ATTTTATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 16 0.53
8 14 0.47
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (7 bp):
TATTTTA
Found at i:35558930 original size:16 final size:16
Alignment explanation
Indices: 35558908--35558954 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
35558898 ATTATTATTC
35558908 TATATTTTGATATTTTA
1 TATATTTT-ATATTTTA
35558925 -ATATTTTATATTTTA
1 TATATTTTATATTTTA
35558940 TATATTTTATTATTT
1 TATATTTTA-TATTT
35558955 ACATCATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.29
16 15 0.54
17 5 0.18
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (16 bp):
TATATTTTATATTTTA
Found at i:35571385 original size:73 final size:73
Alignment explanation
Indices: 35571204--35571730 Score: 429
Period size: 73 Copynumber: 6.9 Consensus size: 73
35571194 CTTTTCAAGG
* * * * * * * * *
35571204 AAAATCAAGTCATATTGCGAGCGATGAGTTGAGCCTCAAGACACGTTGAGATACTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
35571269 GTTTTTC-
66 GTTTGTCA
* * *
35571276 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
35571341 GTTTGTCA
66 GTTTGTCA
* *
35571349 AAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
35571414 GTTTTTCA
66 GTTTGTCA
* * **
35571422 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
*
35571486 TCTGTTTTTCAATTTCTGTTCGT
63 TCTG---------TT-TG-TC-A
** * * * * * *
35571509 AAAAAAAAATCA-ACT-C-ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
1 AAAATCAACTCATATTGCGAGA--G-GTGAGTTGAG-----CCTCAGGACACGCTGAGGTA-ATT
* *
35571571 TAAATTTCTGTTTTTCA
57 TCAATTTCTGTTTGTCA
35571588 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTACACGCTGAGGTAATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAATTTC
35571652 TGTTTGTCA
65 TGTTTGTCA
* * * **
35571661 AAAATTAACTCATATTGCGAGAGGTAAGTTGAGCCTC-GGCTTACATGCTGAGGTCTTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
35571725 TCTGTT
63 TCTGTT
35571731 CTTCAATTTC
Statistics
Matches: 372, Mismatches: 51, Indels: 61
0.77 0.11 0.13
Matches are distributed among these distances:
72 64 0.17
73 158 0.42
74 17 0.05
75 49 0.13
79 17 0.05
80 5 0.01
81 2 0.01
82 4 0.01
84 4 0.01
85 1 0.00
86 5 0.01
87 17 0.05
90 11 0.03
91 12 0.03
92 4 0.01
93 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (73 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTGTCA
Found at i:35571496 original size:14 final size:14
Alignment explanation
Indices: 35571477--35571505 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
35571467 TGCTGAGGTC
35571477 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
35571491 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
35571505 T
1 T
35571506 CGTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:35571694 original size:239 final size:239
Alignment explanation
Indices: 35571276--35572216 Score: 1537
Period size: 239 Copynumber: 4.0 Consensus size: 239
35571266 TTTGTTTTTC
* * * * *
35571276 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTA-ATTTCAATTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
* * *
35571340 TGTTTGTC-AAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAAT
66 TGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTC-GGACACGCTGAGGTAAT
* * *
35571404 TTCAATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGCTCACATG
130 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
*
35571469 CTGAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAA
195 CTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
35571514 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
*
35571579 TGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTACACGCTGAGGTAAT
66 TGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG-ACACGCTGAGGTAAT
* *
35571643 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGCTTACATG
130 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
35571708 CTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGT--AAA
195 CTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
* *
35571751 AAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACACGTTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
* *
35571816 TGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGATATGCTGAGGTAAT
66 TGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTC-GGACACGCTGAGGTAAT
35571881 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCTGGCTCACAT
130 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACAT
* *
35571946 GCTGAGGTTTTTTCAATTTCTGTTCTTC-ATTTCTATTCGTAAAAA
194 GCTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
35571991 AAAA-CAACTCATA-TGCGAGAGG-GAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
*
35572053 T-ATTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGACACGCTGAGGTAATT
66 TGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGACACGCTGAGGTAATT
*
35572117 TCAATTTCTGTTTGTCAAAAATTAAC-CATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGC
131 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
*
35572181 TGAGGTCTTTTTAATTTCTGCTT-TTCAATTTCTGTT
196 TGAGGTCTTTTCAATTTCTG-TTCTTCAATTTCTGTT
35572217 TTTTTCAATT
Statistics
Matches: 662, Mismatches: 32, Indels: 22
0.92 0.04 0.03
Matches are distributed among these distances:
233 32 0.05
234 36 0.05
235 42 0.06
236 44 0.07
237 113 0.17
238 176 0.27
239 212 0.32
240 7 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (239 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
TGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGACACGCTGAGGTAATT
TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
TGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
Found at i:35571737 original size:14 final size:14
Alignment explanation
Indices: 35571718--35571745 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35571708 CTGAGGTCTT
35571718 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
35571732 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
35571746 GTAAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:35571772 original size:163 final size:154
Alignment explanation
Indices: 35571513--35572194 Score: 553
Period size: 163 Copynumber: 4.4 Consensus size: 154
35571503 GTTCGTAAAA
* * *
35571513 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAA--AT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACATGCTGAGGTCTTTTTAACTTT
35571576 TTC--TGTT-T-TTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTACACG
65 TTCAAT-TTCTGTTCGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACG
35571633 CTGAGGTAATTTCAATTTCTGTTTGTC
128 CTGAGGTAATTTCAATTTCTGTTTGTC
* * *
35571660 AAAAATTAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGCTTACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACATGCTGAGGTCTTTTTAA--
*
35571725 TCTGTTCTTCAATTTCTGTTCGTAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAG
61 -CT-TT-TTCAATTTCTGTTCGT-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* * * *
35571790 GACACGTTGAGGTATTTTTAAATTTCTGTTTTTC
122 GACACGCTGAGGTA-ATTTCAATTTCTGTTTGTC
* *
35571824 AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGATATGCTGAGG------TAA---
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACATGCTGAGGTCTTTTTAACTT
* * * *
35571880 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCTGGCTCACA
64 TTTCAATTTCTGTTCGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACA
* ** *
35571945 TGCTGAGGTTTTTTCAATTTCTGTTCTTCATTTCTATTCGTAAA
126 CGCTGAGGTAATTTCAATTTCTG-----------T-TT-GT--C
* * * *
35571989 AAAAAACAACTCATA-TGCGAGAGG-GAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAA--AT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACATGCTGAGGTCTTTTTAACTTT
* *
35572050 TTC--TAT-T-TTC--AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTC-GGACACGCT
65 TTCAATTTCTGTTCGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
35572108 GAGGTAATTTCAATTTCTGTTTGTC
130 GAGGTAATTTCAATTTCTGTTTGTC
* *
35572133 AAAAATTAAC-CATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACATGCTGAGGTCTTTTTAA
35572195 TTTCTGCTTT
Statistics
Matches: 437, Mismatches: 46, Indels: 104
0.74 0.08 0.18
Matches are distributed among these distances:
143 4 0.01
144 19 0.04
145 11 0.03
146 4 0.01
147 56 0.13
148 39 0.09
149 32 0.07
150 13 0.03
151 10 0.02
155 1 0.00
156 3 0.01
157 4 0.01
158 2 0.00
159 26 0.06
161 1 0.00
162 27 0.06
163 104 0.24
164 32 0.07
165 37 0.08
166 3 0.01
167 2 0.00
168 3 0.01
169 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (154 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACATGCTGAGGTCTTTTTAACTTTT
TCAATTTCTGTTCGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
AGGTAATTTCAATTTCTGTTTGTC
Found at i:35571825 original size:89 final size:87
Alignment explanation
Indices: 35571642--35571825 Score: 244
Period size: 90 Copynumber: 2.1 Consensus size: 87
35571632 GCTGAGGTAA
* * * *
35571642 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGCTTACAT
1 TTTCAATTTCTGTTCGTAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGG--TACAC
*
35571707 GCTGAGGTCTTTTCAATTTCTGTT
64 GCTGAGGTCTTTTAAATTTCTGTT
*
35571731 CTTCAATTTCTGTTCGTAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGG-ACAC
1 TTTCAATTTCTGTTCGT-AAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTC-GGTACAC
* *
35571795 GTTGAGGTATTTTTAAATTTCTGTT
64 GCTGAGGT-CTTTTAAATTTCTGTT
35571820 TTTCAA
1 TTTCAA
35571826 AAAATCAACT
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
88 10 0.12
89 34 0.41
90 37 0.45
91 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (87 bp):
TTTCAATTTCTGTTCGTAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGTACACGC
TGAGGTCTTTTAAATTTCTGTT
Found at i:35571858 original size:75 final size:74
Alignment explanation
Indices: 35571732--35572208 Score: 398
Period size: 75 Copynumber: 6.3 Consensus size: 74
35571722 ATTTCTGTTC
** * * *
35571732 TTCAATTTCTGTTCGTAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACACGT
1 TTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGC
35571797 TGAGGTATTT
65 TGAGGTATTT
* * * *
35571807 TTAAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGATATGC
1 TTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGC
*
35571872 TGAGGTA-AT
65 TGAGGTATTT
* *
35571881 TTCAATTTCTGTTTGTC-AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCTGGCTCACA
1 TTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG---ACA
*
35571945 TGCTGAGGT-TTT
62 CGCTGAGGTATTT
** * ** * *
35571957 TTCAATTTCTGTTCTTCATTTCTATTCGTAAAAAAAAAC-AACTCA-TATGCGAGAGGGAGTTGA
1 TTCAATTTCTG---TT--TTTC-A-----AAAAATCAACTCA-T-ATTGCGAGAG-GTGAGTTGA
35572020 GCCTCAGGACACGCTGAGGTATTT
52 GCCTC-GGACACGCTGAGGTATTT
* * *
35572044 TTAAATTTCT-ATTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGACACGCT
1 TTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCT
*
35572108 GAGGTA-AT
66 GAGGTATTT
* * * *
35572116 TTCAATTTCTGTTTGTC-AAAAATTAAC-CATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACAT
1 TTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACAC
*
35572179 GCTGAGGTCTTT
63 GCTGAGGTATTT
*
35572191 TT-AATTTCTGCTTTTCAA
1 TTCAATTTCTGTTTTTCAA
35572209 TTTCTGTTTT
Statistics
Matches: 324, Mismatches: 50, Indels: 56
0.75 0.12 0.13
Matches are distributed among these distances:
71 27 0.08
72 19 0.06
73 57 0.18
74 53 0.16
75 79 0.24
76 24 0.07
79 2 0.01
80 1 0.00
81 7 0.02
83 1 0.00
86 11 0.03
87 13 0.04
88 14 0.04
89 16 0.05
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (74 bp):
TTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCT
GAGGTATTT
Found at i:35572112 original size:73 final size:72
Alignment explanation
Indices: 35571988--35572208 Score: 261
Period size: 74 Copynumber: 3.0 Consensus size: 72
35571978 CTATTCGTAA
*
35571988 AAAAAAACAACTCATA-TGCGAGAGG-GAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTT-AATT
35572051 TCTATTTTC
64 TCTATTTTC
* * *
35572060 AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGACACGCTGAGGTAATTTCAATTTC
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTTAATTTC
*
35572125 TGTTTGTC
66 TATTT-TC
* * * *
35572133 -AAAAATTAAC-CATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTTAAT
*
35572196 TTCTGCTTTTC
63 TTCT-ATTTTC
35572207 AA
1 AA
35572209 TTTCTGTTTT
Statistics
Matches: 128, Mismatches: 13, Indels: 13
0.83 0.08 0.08
Matches are distributed among these distances:
71 27 0.21
72 34 0.27
73 28 0.22
74 35 0.27
75 4 0.03
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (72 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTTAATTTC
TATTTTC
Found at i:35572165 original size:71 final size:73
Alignment explanation
Indices: 35571988--35572171 Score: 252
Period size: 72 Copynumber: 2.6 Consensus size: 73
35571978 CTATTCGTAA
* *
35571988 AAAAAAACAACTCATA-TGCGAGAGG-GAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATATTTAAATT
35572051 TCTATTTTC
65 TCTATTTTC
* *
35572060 AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGACACGCTGAGGTA-ATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATATTTAAATTT
*
35572124 CTGTTTGTC
66 CTATTT-TC
* *
35572133 -AAAAATTAAC-CATATTGCGAGAGGTGAGTTGAGTCTCGG
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
35572172 CTCACATGCT
Statistics
Matches: 101, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
71 27 0.27
72 37 0.37
73 25 0.25
74 12 0.12
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATATTTAAATTT
CTATTTTC
Found at i:35572219 original size:14 final size:14
Alignment explanation
Indices: 35572188--35572238 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
35572178 TGCTGAGGTC
35572188 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
*
35572201 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
* *
35572215 TTTTTTTCAATTTATA
1 --TTTTTCAATTTCTG
35572231 TTTTTCAA
1 TTTTTCAA
35572239 AAATCAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
16 11 0.35
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.65
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:35572234 original size:16 final size:16
Alignment explanation
Indices: 35572202--35572235 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35572192 TAATTTCTGC
* *
35572202 TTTTCAATTTCTGTTT
1 TTTTCAATTTATATTT
35572218 TTTTCAATTTATATTT
1 TTTTCAATTTATATTT
35572234 TT
1 TT
35572236 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTCAATTTATATTT
Found at i:35572301 original size:104 final size:104
Alignment explanation
Indices: 35572115--35572322 Score: 267
Period size: 104 Copynumber: 2.0 Consensus size: 104
35572105 GCTGAGGTAA
* * * *
35572115 TTTCAATTTCTGTTTGTCAAAAATTAACCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATG
1 TTTCAATTTATATTTGTCAAAAATCAACCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
* * * *
35572180 CTGAGGTCTTTTTAATTTCTGCTTTTCAATTTCT-GTTTT
66 CTGAGCTATTTTCAATTTCTG-TTTTCAATGTCTAGTTTT
* * * *
35572219 TTTCAATTTATATTTTTCAAAAATCAACTC-TTTTGCGAGAGGTGAGTTGAGCCTTGGCTCACGT
1 TTTCAATTTATATTTGTCAAAAATCAAC-CATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
*
35572283 GCTGAGCTATTTTCAATTTCTGTTTTTAATGTCTAGTTTT
65 GCTGAGCTATTTTCAATTTCTGTTTTCAATGTCTAGTTTT
35572323 ACAGAGTCAA
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
103 10 0.11
104 78 0.88
105 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.45
Consensus pattern (104 bp):
TTTCAATTTATATTTGTCAAAAATCAACCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
CTGAGCTATTTTCAATTTCTGTTTTCAATGTCTAGTTTT
Found at i:35572962 original size:30 final size:30
Alignment explanation
Indices: 35572926--35573097 Score: 292
Period size: 30 Copynumber: 5.8 Consensus size: 30
35572916 ACTTTTCTCA
*
35572926 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
35572956 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
35572986 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
35573016 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
35573046 ACTAGCCAC-TCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
35573075 ACTAGCCACACCTTCTCCACCAC
1 ACTAGCCACACCTTTTCCACCAC
35573098 ACTTGTACCT
Statistics
Matches: 133, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
29 28 0.21
30 105 0.79
ACGTcount: A:0.25, C:0.49, G:0.03, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:35573623 original size:23 final size:23
Alignment explanation
Indices: 35573586--35573666 Score: 62
Period size: 23 Copynumber: 3.6 Consensus size: 23
35573576 CCTTTTTTGT
35573586 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
35573609 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
35573631 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
*
35573654 TATTACATATATT
1 TATTATATATATT
35573667 ACATATATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.07
22 15 0.33
23 24 0.52
24 4 0.09
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:35573793 original size:25 final size:25
Alignment explanation
Indices: 35573759--35573807 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
35573749 ATATATCTTA
* **
35573759 ACTATGTTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
35573784 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
35573808 TATTATCACG
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:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:35573983 original size:16 final size:15
Alignment explanation
Indices: 35573959--35574006 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
35573949 TAATTATTAT
*
35573959 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
35573975 TATTTTAATATTTTA
1 TATTTTAATATTTTA
35573990 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
35574006 T
1 T
35574007 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:35573994 original size:7 final size:8
Alignment explanation
Indices: 35573959--35574010 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
35573949 TAATTATTAT
*
35573959 TATTCTAA
1 TATTTTAA
*
35573967 TATTTTGA
1 TATTTTAA
35573975 TATTTTAA
1 TATTTTAA
35573983 TATTTT-A
1 TATTTTAA
35573990 TATTTTATA
1 TATTTTA-A
*
35573999 TATTTTAT
1 TATTTTAA
35574007 TATT
1 TATT
35574011 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:35574693 original size:18 final size:19
Alignment explanation
Indices: 35574670--35574725 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
35574660 TGATTAAACA
35574670 ATTCAATAATATAAATAGT
1 ATTCAATAATATAAATAGT
* *
35574689 A-TC-A-AATATGAAATTGA
1 ATTCAATAATAT-AAATAGT
*
35574706 ATTCAATAACATAAATAGT
1 ATTCAATAATATAAATAGT
35574725 A
1 A
35574726 GACATAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
16 5 0.18
17 7 0.25
18 4 0.14
19 8 0.29
20 4 0.14
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (19 bp):
ATTCAATAATATAAATAGT
Found at i:35574829 original size:55 final size:55
Alignment explanation
Indices: 35574737--35574850 Score: 160
Period size: 55 Copynumber: 2.1 Consensus size: 55
35574727 ACATAAATTC
35574737 GAAAAAAAAAGTTTTGGGGGTTTAGGAAGAAGTAAAAGTTTTGGGGAAAGCAAAA
1 GAAAAAAAAAGTTTTGGGGGTTTAGGAAGAAGTAAAAGTTTTGGGGAAAGCAAAA
* * * *
35574792 GAAAAGAAAAAGTTTTGGGAGGTTT-GG-GGTAGTAAAAGTTTTGGGGAAGGTAAAA
1 GAAAA-AAAAAGTTTTGGG-GGTTTAGGAAGAAGTAAAAGTTTTGGGGAAAGCAAAA
35574847 GAAA
1 GAAA
35574851 TTTCTTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
55 33 0.62
56 15 0.28
57 5 0.09
ACGTcount: A:0.43, C:0.01, G:0.33, T:0.23
Consensus pattern (55 bp):
GAAAAAAAAAGTTTTGGGGGTTTAGGAAGAAGTAAAAGTTTTGGGGAAAGCAAAA
Found at i:35574836 original size:17 final size:18
Alignment explanation
Indices: 35574814--35574847 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
35574804 TTTTGGGAGG
*
35574814 TTTGGGGTA-GTAAAAGT
1 TTTGGGGAAGGTAAAAGT
35574831 TTTGGGGAAGGTAAAAG
1 TTTGGGGAAGGTAAAAG
35574848 AAATTTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.32, C:0.00, G:0.38, T:0.29
Consensus pattern (18 bp):
TTTGGGGAAGGTAAAAGT
Found at i:35575717 original size:20 final size:21
Alignment explanation
Indices: 35575692--35575736 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
35575682 GATAAATAAC
35575692 AAAAACCAATAAATGTT-ATA
1 AAAAACCAATAAATGTTAATA
* * *
35575712 AAAAACTATTAAATTTTAATA
1 AAAAACCAATAAATGTTAATA
35575733 AAAA
1 AAAA
35575737 CTATAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAACCAATAAATGTTAATA
Found at i:35575742 original size:30 final size:29
Alignment explanation
Indices: 35575708--35575764 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 29
35575698 CAATAAATGT
35575708 TATAAAAAACTATT-AAATTTTAATAAAAAC
1 TATAAAAAA-TATTAAAATTTTAA-AAAAAC
35575738 TATAAAAAATATTAAAATTTTAAAAAA
1 TATAAAAAATATTAAAATTTTAAAAAA
35575765 TTTTAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (29 bp):
TATAAAAAATATTAAAATTTTAAAAAAAC
Found at i:35575774 original size:20 final size:18
Alignment explanation
Indices: 35575740--35575805 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 18
35575730 ATAAAAACTA
35575740 TAAAAAATAT-TAAAATTT
1 TAAAAAAT-TGTAAAATTT
*
35575758 TAAAAAATTTTAAAAAATTT
1 TAAAAAATTGT--AAAATTT
*
35575778 ATAAAAAGTTGTAAAATTT
1 -TAAAAAATTGTAAAATTT
35575797 TATAAAAAT
1 TA-AAAAAT
35575806 CATAAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
17 1 0.03
18 11 0.28
19 12 0.30
20 7 0.17
21 9 0.22
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
TAAAAAATTGTAAAATTT
Found at i:35575813 original size:20 final size:20
Alignment explanation
Indices: 35575738--35575823 Score: 77
Period size: 20 Copynumber: 4.3 Consensus size: 20
35575728 TAATAAAAAC
* * *
35575738 TATAAAAAATATTAAAATTT
1 TATAAAAATTATAAAAAATT
*
35575758 TA-AAAAATTTTAAAAAATT
1 TATAAAAATTATAAAAAATT
* *
35575777 TATAAAAAGTTGT-AAAATTT
1 TATAAAAA-TTATAAAAAATT
* *
35575797 TATAAAAATCATAAAAAAAT
1 TATAAAAATTATAAAAAATT
35575817 TATAAAA
1 TATAAAA
35575824 TATATAGAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
19 17 0.32
20 33 0.62
21 3 0.06
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (20 bp):
TATAAAAATTATAAAAAATT
Found at i:35575823 original size:10 final size:10
Alignment explanation
Indices: 35575732--35575823 Score: 64
Period size: 10 Copynumber: 9.3 Consensus size: 10
35575722 AAATTTTAAT
*
35575732 AAAAACTATA
1 AAAAATTATA
35575742 AAAAA-TAT-
1 AAAAATTATA
* *
35575750 TAAAATTTTA
1 AAAAATTATA
*
35575760 AAAAATTTTA
1 AAAAATTATA
35575770 AAAAATTTATA
1 AAAAA-TTATA
* *
35575781 AAAAGTTGTA
1 AAAAATTATA
**
35575791 AAATTTTAT-
1 AAAAATTATA
*
35575800 AAAAATCATAA
1 AAAAATTAT-A
35575811 AAAAATTATA
1 AAAAATTATA
35575821 AAA
1 AAA
35575824 TATATAGAAA
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
8 4 0.06
9 11 0.17
10 33 0.52
11 16 0.25
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAAATTATA
Found at i:35575885 original size:19 final size:20
Alignment explanation
Indices: 35575851--35575910 Score: 77
Period size: 19 Copynumber: 3.0 Consensus size: 20
35575841 TTTTCTAAAG
*
35575851 TCATAAGAAAATTATAAAAT
1 TCATAAAAAAATTATAAAAT
** *
35575871 TTGTAAATAAA-TATAAAAT
1 TCATAAAAAAATTATAAAAT
35575890 TCATAAAAAAATTATAAAAT
1 TCATAAAAAAATTATAAAAT
35575910 T
1 T
35575911 ATTATATTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
TCATAAAAAAATTATAAAAT
Found at i:35575907 original size:20 final size:20
Alignment explanation
Indices: 35575796--35575910 Score: 81
Period size: 20 Copynumber: 5.5 Consensus size: 20
35575786 TTGTAAAATT
*
35575796 TTATAAAAATCATAAAAAAA
1 TTATAAAATTCATAAAAAAA
35575816 TTATAAAATAT-ATAGAAATGTAAAA
1 TTATAAAAT-TCAT--AAA---AAAA
* * * *
35575841 TTTTCTAAAGTCATAAGAAAA
1 TTAT-AAAATTCATAAAAAAA
** *
35575862 TTATAAAATTTGTAAATAAA
1 TTATAAAATTCATAAAAAAA
35575882 -TATAAAATTCATAAAAAAA
1 TTATAAAATTCATAAAAAAA
35575901 TTATAAAATT
1 TTATAAAATT
35575911 ATTATATTAA
Statistics
Matches: 71, Mismatches: 15, Indels: 18
0.68 0.14 0.17
Matches are distributed among these distances:
19 16 0.23
20 29 0.41
21 8 0.11
22 3 0.04
24 2 0.03
25 8 0.11
26 5 0.07
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.33
Consensus pattern (20 bp):
TTATAAAATTCATAAAAAAA
Found at i:35576103 original size:9 final size:9
Alignment explanation
Indices: 35576091--35576222 Score: 87
Period size: 9 Copynumber: 14.4 Consensus size: 9
35576081 TTTTTTTTCA
35576091 TTTTATAATT
1 TTTTATAA-T
*
35576101 TTTTATGAT
1 TTTTATAAT
*
35576110 TTTTATAAAA
1 TTTTAT-AAT
*
35576120 TTTTACAAT
1 TTTTATAAT
*
35576129 TTTGT-TATT
1 TTT-TATAAT
35576138 TTTTATAAT
1 TTTTATAAT
35576147 TTTTAATATAT
1 TTTT-ATA-AT
35576158 TTTTAT-AT
1 TTTTATAAT
*
35576166 TTTTATTAAA
1 TTTTA-TAAT
35576176 TTTTA-ATAT
1 TTTTATA-AT
*
35576185 TTTTATAAC
1 TTTTATAAT
*
35576194 TTTTATTGAT
1 TTTTA-TAAT
35576204 TTTTAT--T
1 TTTTATAAT
35576211 TTTT-TAAT
1 TTTTATAAT
35576219 TTTT
1 TTTT
35576223 TTTGTTATGA
Statistics
Matches: 97, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
6 1 0.01
7 5 0.05
8 14 0.14
9 38 0.39
10 33 0.34
11 6 0.06
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTATAAT
Found at i:35576104 original size:10 final size:10
Alignment explanation
Indices: 35576091--35576179 Score: 62
Period size: 10 Copynumber: 9.2 Consensus size: 10
35576081 TTTTTTTTCA
35576091 TTTTATAATT
1 TTTTATAATT
*
35576101 TTTTATGA-T
1 TTTTATAATT
**
35576110 TTTTATAAAA
1 TTTTATAATT
*
35576120 TTTTACAATT
1 TTTTATAATT
*
35576130 TTGT-T-ATT
1 TTTTATAATT
35576138 TTTTATAATT
1 TTTTATAATT
*
35576148 TTTAAT-ATAT
1 TTTTATAAT-T
*
35576158 TTTTATATTT
1 TTTTATAATT
35576168 TTATTA-AATT
1 TT-TTATAATT
35576178 TT
1 TT
35576180 AATATTTTTA
Statistics
Matches: 60, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
8 6 0.10
9 11 0.18
10 39 0.65
11 4 0.07
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:35576113 original size:19 final size:18
Alignment explanation
Indices: 35576091--35576222 Score: 85
Period size: 19 Copynumber: 7.2 Consensus size: 18
35576081 TTTTTTTTCA
35576091 TTTTATAATTTTTTATGAT
1 TTTTATAATTTTTTAT-AT
** * *
35576110 TTTTATAAAATTTTACAA
1 TTTTATAATTTTTTATAT
* *
35576128 TTTTGTTATTTTTTATAAT
1 TTTTATAATTTTTTAT-AT
35576147 TTTTA-ATATATTTTTATAT
1 TTTTATA-AT-TTTTTATAT
* *
35576166 TTTTATTAAATTTTAATAT
1 TTTTA-TAATTTTTTATAT
*
35576185 TTTTATAACTTTTATT-GAT
1 TTTTATAA-TTTT-TTATAT
35576204 TTTTAT--TTTTTTA-AT
1 TTTTATAATTTTTTATAT
35576219 TTTT
1 TTTT
35576223 TTTGTTATGA
Statistics
Matches: 88, Mismatches: 17, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
15 8 0.09
16 4 0.05
18 15 0.17
19 51 0.58
20 9 0.10
21 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATAATTTTTTATAT
Found at i:35576122 original size:29 final size:27
Alignment explanation
Indices: 35576090--35576222 Score: 107
Period size: 27 Copynumber: 4.9 Consensus size: 27
35576080 CTTTTTTTTC
35576090 ATTTT-ATAATTTTTTATGATTTTTATAAA
1 ATTTTAAT-ATTTTTTAT-ATTTTTAT-AA
35576119 ATTTTACA-ATTTTGTTAT-TTTTTATAA
1 ATTTTA-ATATTTT-TTATATTTTTATAA
*
35576146 TTTTTAATATATTTTTATATTTTTATTAA
1 ATTTTAATAT-TTTTTATATTTTTA-TAA
* **
35576175 ATTTTAATA-TTTTTATAACTTTTATTG
1 ATTTTAATATTTTTTAT-ATTTTTATAA
*
35576202 ATTTTTAT-TTTTTTA-ATTTTT
1 ATTTTAATATTTTTTATATTTTT
35576223 TTTGTTATGA
Statistics
Matches: 88, Mismatches: 7, Indels: 22
0.75 0.06 0.19
Matches are distributed among these distances:
25 5 0.06
26 1 0.01
27 34 0.39
28 22 0.25
29 21 0.24
30 4 0.05
31 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (27 bp):
ATTTTAATATTTTTTATATTTTTATAA
Found at i:35576180 original size:10 final size:10
Alignment explanation
Indices: 35576091--35576210 Score: 60
Period size: 10 Copynumber: 12.7 Consensus size: 10
35576081 TTTTTTTTCA
35576091 TTTTA-TAAT
1 TTTTATTAAT
*
35576100 TTTT-TATGAT
1 TTTTAT-TAAT
* *
35576110 TTTTATAAAA
1 TTTTATTAAT
*
35576120 TTTTA-CAA-
1 TTTTATTAAT
* *
35576128 TTTTGTTATT
1 TTTTATTAAT
35576138 TTTTA-TAAT
1 TTTTATTAAT
*
35576147 TTTTAATATAT
1 TTTTATTA-AT
35576158 TTTTA-T-AT
1 TTTTATTAAT
*
35576166 TTTTATTAAA
1 TTTTATTAAT
*
35576176 TTTTAAT-AT
1 TTTTATTAAT
*
35576185 TTTTA-TAAC
1 TTTTATTAAT
*
35576194 TTTTATTGAT
1 TTTTATTAAT
35576204 TTTTATT
1 TTTTATT
35576211 TTTTTAATTT
Statistics
Matches: 84, Mismatches: 16, Indels: 21
0.69 0.13 0.17
Matches are distributed among these distances:
8 12 0.14
9 28 0.33
10 36 0.43
11 8 0.10
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (10 bp):
TTTTATTAAT
Found at i:35577067 original size:31 final size:31
Alignment explanation
Indices: 35577024--35577086 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
35577014 CAAAAGATGA
35577024 AGATAGTTGTCATCTTCCTCATTCTCTAGCC
1 AGATAGTTGTCATCTTCCTCATTCTCTAGCC
* *
35577055 AGATGGTTGTCATCTTCCTCATTCTTTAGCC
1 AGATAGTTGTCATCTTCCTCATTCTCTAGCC
35577086 A
1 A
35577087 ACTGATTCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.19, C:0.27, G:0.14, T:0.40
Consensus pattern (31 bp):
AGATAGTTGTCATCTTCCTCATTCTCTAGCC
Found at i:35579547 original size:20 final size:21
Alignment explanation
Indices: 35579505--35579547 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
35579495 ATTGCATAAT
*
35579505 TGTTTATATTTTGATGTTGAA
1 TGTTTATATTTTGATGGTGAA
35579526 TGTTT-TATTTTGTATGGT-AA
1 TGTTTATATTTTG-ATGGTGAA
35579546 TG
1 TG
35579548 CTCTGTAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (21 bp):
TGTTTATATTTTGATGGTGAA
Found at i:35583899 original size:46 final size:44
Alignment explanation
Indices: 35583849--35583942 Score: 118
Period size: 46 Copynumber: 2.1 Consensus size: 44
35583839 AGCTAGTGTT
**
35583849 AGACATGTTTGGGATATGCATCAGCCT-CGAGATGTAAGCCAATGTA
1 AGACATGTCCGGGATATGCATC-GCCTACGAGATGT--GCCAATGTA
* *
35583895 AGACATGTCCGGGATATGCATCGGCTACGAGATGTGTCAATGTA
1 AGACATGTCCGGGATATGCATCGCCTACGAGATGTGCCAATGTA
35583939 AGAC
1 AGAC
35583943 CATGGCTGGG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
44 12 0.28
45 3 0.07
46 28 0.65
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (44 bp):
AGACATGTCCGGGATATGCATCGCCTACGAGATGTGCCAATGTA
Found at i:35585233 original size:20 final size:21
Alignment explanation
Indices: 35585194--35585233 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
35585184 GTCTTAATAG
35585194 CCACACAGGGGTGTTGCCCTT
1 CCACACAGGGGTGTTGCCCTT
35585215 CCACAC-GGGCGTG-TGCCCT
1 CCACACAGGG-GTGTTGCCCT
35585234 ACTTCAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.12, C:0.38, G:0.30, T:0.20
Consensus pattern (21 bp):
CCACACAGGGGTGTTGCCCTT
Found at i:35593197 original size:51 final size:51
Alignment explanation
Indices: 35593139--35593258 Score: 186
Period size: 51 Copynumber: 2.4 Consensus size: 51
35593129 GAGTGTGGCC
* * * * *
35593139 GTGTGGGCCACACGGGCATGATACAAGGGCGTGTGGTCTTTGGGCCAGGCT
1 GTGTGGGCCACATGGGCATGACACAAGGGCGTGTAGACATTGGGCCAGGCT
*
35593190 GTGTGGGCCACATGGGCATGACACACGGGCGTGTAGACATTGGGCCAGGCT
1 GTGTGGGCCACATGGGCATGACACAAGGGCGTGTAGACATTGGGCCAGGCT
35593241 GTGTGGGCCACATGGGCA
1 GTGTGGGCCACATGGGCA
35593259 AAGGTCAATC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.17, C:0.23, G:0.41, T:0.19
Consensus pattern (51 bp):
GTGTGGGCCACATGGGCATGACACAAGGGCGTGTAGACATTGGGCCAGGCT
Found at i:35594758 original size:3 final size:3
Alignment explanation
Indices: 35594750--35594784 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
35594740 CTCTCTAAAT
*
35594750 TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
35594785 TCTAAAATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:35595159 original size:19 final size:19
Alignment explanation
Indices: 35595112--35595161 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
35595102 AAAGTTTTAA
*
35595112 AAAATTTTAAAAATTATTTT
1 AAAATTTT-AAAATTATATT
35595132 AAAA-TTTAAAATT-TATT
1 AAAATTTTAAAATTATATT
35595149 AAAATTGTTAAAA
1 AAAATT-TTAAAA
35595162 ATGTATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 9 0.33
20 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
AAAATTTTAAAATTATATT
Found at i:35595209 original size:7 final size:8
Alignment explanation
Indices: 35595194--35595223 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
35595184 TTTTATTAAT
35595194 ATTTAAAA
1 ATTTAAAA
35595202 ATTTAAAA
1 ATTTAAAA
35595210 ATTTAAAA
1 ATTTAAAA
*
35595218 AATTAA
1 ATTTAA
35595224 TTAAATACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
ATTTAAAA
Found at i:35602236 original size:34 final size:34
Alignment explanation
Indices: 35602187--35602253 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
35602177 GGATAAGTGC
* *
35602187 TGGGAGTTGCGCATTACTTCATCAGGAAGTATTT
1 TGGGAATTGCACATTACTTCATCAGGAAGTATTT
*
35602221 TGGGAATTGCACATTACTTCTTCAGGAAGTATT
1 TGGGAATTGCACATTACTTCATCAGGAAGTATT
35602254 CTCTGCCTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (34 bp):
TGGGAATTGCACATTACTTCATCAGGAAGTATTT
Found at i:35603216 original size:30 final size:30
Alignment explanation
Indices: 35603182--35603261 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 30
35603172 ATTTATCGAA
* * *
35603182 ATGTGAAAACCTTTATGGCTATTATTAGAT
1 ATGTGAAAGCCTTTGTGGCTATAATTAGAT
** *
35603212 ATGTGAAAGTATTTGTGGCTGTAATTAGAT
1 ATGTGAAAGCCTTTGTGGCTATAATTAGAT
35603242 ATGTGAAAGCCTTTGTGGCT
1 ATGTGAAAGCCTTTGTGGCT
35603262 CTATTAAACG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.39
Consensus pattern (30 bp):
ATGTGAAAGCCTTTGTGGCTATAATTAGAT
Found at i:35606184 original size:57 final size:57
Alignment explanation
Indices: 35606038--35606193 Score: 158
Period size: 57 Copynumber: 2.7 Consensus size: 57
35606028 ATTGACCTCA
* * *
35606038 TTATATAAAGGATTTAGCCCGGACTGGTAATCATGATATAATACCTCTCGAGTATACG
1 TTATATAAAGGATTTAGCCTGGACTGGTAATCCTGATAT-ATACCTCTCGAGCATACG
* * * *
35606096 TTATGAT-TAGGGTTTAGCCTGGACTGATAATCCT-A-AT-TGACCTCTTCTGAGCATACT
1 TTAT-ATAAAGGATTTAGCCTGGACTGGTAATCCTGATATAT-ACCTC-TC-GAGCATACG
* *
35606153 TTATATAAAGGATTTAACCTGGACTGGTAATCCTGTTATAT
1 TTATATAAAGGATTTAGCCTGGACTGGTAATCCTGATATAT
35606194 GATACGCGGC
Statistics
Matches: 78, Mismatches: 12, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
54 1 0.01
55 5 0.06
56 6 0.08
57 35 0.45
58 26 0.33
59 4 0.05
60 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (57 bp):
TTATATAAAGGATTTAGCCTGGACTGGTAATCCTGATATATACCTCTCGAGCATACG
Found at i:35608116 original size:12 final size:12
Alignment explanation
Indices: 35608099--35608125 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
35608089 GAAAACTCAT
35608099 GTTTTTGGTTTA
1 GTTTTTGGTTTA
35608111 GTTTTTGGTTTA
1 GTTTTTGGTTTA
35608123 GTT
1 GTT
35608126 CCTTTGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.26, T:0.67
Consensus pattern (12 bp):
GTTTTTGGTTTA
Found at i:35609539 original size:20 final size:21
Alignment explanation
Indices: 35609499--35609545 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
35609489 TCTATTATTG
* *
35609499 ATTATTTTTTATAATAATTAAT
1 ATTATTTTTTAGAAT-ATTAAA
35609521 ATTATTTTTTAGAAT-TTAAA
1 ATTATTTTTTAGAATATTAAA
35609541 ATTAT
1 ATTAT
35609546 GTAATTGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 9 0.39
22 14 0.61
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTATTTTTTAGAATATTAAA
Found at i:35609929 original size:40 final size:39
Alignment explanation
Indices: 35609891--35610106 Score: 148
Period size: 40 Copynumber: 5.4 Consensus size: 39
35609881 TAGTGGTGCA
*
35609891 TTTTTAAAAACGCCGCTATAGATCGAGTATTAGCGGTGC
1 TTTTTAAAAACGCCGCTATAGATCGAGTATTAGCGGCGC
* * * * * *
35609930 TTATTGAAGAACGACACTAAAGATCGAGCATTAGCGGCGC
1 TT-TTTAAAAACGCCGCTATAGATCGAGTATTAGCGGCGC
* * * * * **
35609970 ATTTTTAAAAATGCCACTAGAGGTCCACCATTAGCGGCGC
1 -TTTTTAAAAACGCCGCTATAGATCGAGTATTAGCGGCGC
* * * * * *
35610010 TTTTATAAAAATGCTGCTATATATTGA-TCATTACCGACGC
1 TTTT-TAAAAACGCCGCTATAGATCGAGT-ATTAGCGGCGC
* *
35610050 TTTTTTGAAAAACCCCGCTATATATCGAGTATTAGCGGCG-
1 -TTTTT-AAAAACGCCGCTATAGATCGAGTATTAGCGGCGC
35610090 TTTTTCAAAAAGCGCCG
1 TTTTT-AAAAA-CGCCG
35610107 TAAAAAAGTA
Statistics
Matches: 136, Mismatches: 33, Indels: 15
0.74 0.18 0.08
Matches are distributed among these distances:
39 16 0.12
40 88 0.65
41 31 0.23
42 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (39 bp):
TTTTTAAAAACGCCGCTATAGATCGAGTATTAGCGGCGC
Found at i:35610379 original size:14 final size:14
Alignment explanation
Indices: 35610357--35610401 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
35610347 TTAATTATCA
*
35610357 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
35610371 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* **
35610385 ATATGACTTAGGGT
1 TTATGGTTTAGGGT
35610399 TTA
1 TTA
35610402 AGATTTAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:35610409 original size:14 final size:14
Alignment explanation
Indices: 35610363--35610410 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
35610353 ATCATTATAG
*
35610363 TTTAGGGTTTATGG
1 TTTAGGGTTTATGA
*
35610377 TTTAGGGTATATGA
1 TTTAGGGTTTATGA
* *
35610391 CTTAGGGTTTAAGA
1 TTTAGGGTTTATGA
35610405 TTTAGG
1 TTTAGG
35610411 AGTTACTATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.23, C:0.02, G:0.31, T:0.44
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:35610522 original size:43 final size:43
Alignment explanation
Indices: 35610474--35610572 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
35610464 TAACAGTTGG
* *
35610474 GGTTTAAGGTTTAGGGGT-TAGGGGTTAAGGGTTAAGGGTT-AGA
1 GGTTTAAGGTTTA-GAGTCTAAGGGTTAAGGGTTAAGGGTTCA-A
* *
35610517 GGTTTATGGTTTAGAGTCTAAGGGTTAGGGGTTAAGGGTTCAA
1 GGTTTAAGGTTTAGAGTCTAAGGGTTAAGGGTTAAGGGTTCAA
*
35610560 GGTTTAGGGTTTA
1 GGTTTAAGGTTTA
35610573 TAGTTTAGTG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 3 0.06
43 45 0.92
44 1 0.02
ACGTcount: A:0.22, C:0.02, G:0.40, T:0.35
Consensus pattern (43 bp):
GGTTTAAGGTTTAGAGTCTAAGGGTTAAGGGTTAAGGGTTCAA
Found at i:35610596 original size:50 final size:50
Alignment explanation
Indices: 35610482--35610597 Score: 153
Period size: 50 Copynumber: 2.3 Consensus size: 50
35610472 GGGGTTTAAG
* *
35610482 GTTTAGGGGTTAGGGGTTAAGGGTTAAGGGTTAGAGGTTTATGGTTTAGA
1 GTTTAAGGGTTAGGGGTTAAGGGTTAAGGGTTAGAGGTTTATAGTTTAGA
* * *
35610532 GTCTAAGGGTTAGGGGTTAAGGGTTCAAGGTTTAG-GGTTTATAGTTTAGT
1 GTTTAAGGGTTAGGGGTTAAGGGTT-AAGGGTTAGAGGTTTATAGTTTAGA
* *
35610582 GTTTATGGGATAGGGG
1 GTTTAAGGGTTAGGGG
35610598 CTAGAGGTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 49 0.86
51 8 0.14
ACGTcount: A:0.22, C:0.02, G:0.41, T:0.36
Consensus pattern (50 bp):
GTTTAAGGGTTAGGGGTTAAGGGTTAAGGGTTAGAGGTTTATAGTTTAGA
Found at i:35610615 original size:7 final size:7
Alignment explanation
Indices: 35610473--35610616 Score: 69
Period size: 7 Copynumber: 20.1 Consensus size: 7
35610463 TTAACAGTTG
35610473 GGGTTTA
1 GGGTTTA
*
35610480 AGGTTTA
1 GGGTTTA
*
35610487 GGGGTTA
1 GGGTTTA
*
35610494 GGGGTTAA
1 -GGGTTTA
*
35610502 GGGTTAA
1 GGGTTTA
35610509 GGG-TTA
1 GGGTTTA
35610515 GAGGTTTA
1 G-GGTTTA
*
35610523 TGGTTTA
1 GGGTTTA
* *
35610530 GAGTCTAA
1 GGGT-TTA
35610538 GGG-TTA
1 GGGTTTA
*
35610544 GGGGTTAA
1 -GGGTTTA
*
35610552 GGGTTCA
1 GGGTTTA
*
35610559 AGGTTTA
1 GGGTTTA
35610566 GGGTTTA
1 GGGTTTA
**
35610573 TAGTTTA
1 GGGTTTA
*
35610580 GTGTTTA
1 GGGTTTA
*
35610587 TGGG-ATA
1 -GGGTTTA
**
35610594 GGGGCTA
1 GGGTTTA
35610601 GAGGTTTA
1 G-GGTTTA
35610609 GGGTTTA
1 GGGTTTA
35610616 G
1 G
35610617 ATTAATTAGT
Statistics
Matches: 102, Mismatches: 26, Indels: 18
0.70 0.18 0.12
Matches are distributed among these distances:
6 8 0.08
7 73 0.72
8 21 0.21
ACGTcount: A:0.22, C:0.02, G:0.40, T:0.36
Consensus pattern (7 bp):
GGGTTTA
Found at i:35611033 original size:19 final size:18
Alignment explanation
Indices: 35611000--35611035 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
35610990 AAATTATAAC
35611000 TTATCATCATATTAATAT
1 TTATCATCATATTAATAT
*
35611018 TTATCATTAGTATTAATA
1 TTATCATCA-TATTAATA
35611036 ATTAAAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (18 bp):
TTATCATCATATTAATAT
Found at i:35611427 original size:78 final size:79
Alignment explanation
Indices: 35611294--35611525 Score: 278
Period size: 83 Copynumber: 2.9 Consensus size: 79
35611284 TATATTTTTA
*
35611294 TAAAAAACGCTGC-AAAAACATAATAGTTTAAC-AAAA-GCAGCATCGTTTTAATTGGAGATTTA
1 TAAAAAACGCCGCAAAAAACATAATAGTTTAACGAAAATG--GCATCGTTTTAATTGGAGATTTA
35611356 GAGGATTAGCGGCG-T
64 GAGGATTAGCGGCGTT
* * * * *
35611371 T-AAAAATGCCTCAAAAAAACCTAGTAGTTTAACGAAAATGGCATCGTTTTAGTTGGAGATTTA-
1 TAAAAAACGCCGC-AAAAAACATAATAGTTTAACGAAAATGGCATCGTTTTAATTGGAGATTTAG
35611434 AGGGATTAGCGGCGTTTCT
65 A-GGATTAGCGGCG--T-T
*
35611453 TGAAAAAACGCCGCAAAAAACATAATAGTTTAATGAAAATGGCATCGTTTTAATTGGAGATTTAG
1 T-AAAAAACGCCGCAAAAAACATAATAGTTTAACGAAAATGGCATCGTTTTAATTGGAGATTTAG
*
35611518 GGGATTAG
65 AGGATTAG
35611526 GCGTTTTTAA
Statistics
Matches: 130, Mismatches: 13, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
76 8 0.06
77 2 0.02
78 51 0.39
79 4 0.03
80 1 0.01
82 2 0.02
83 53 0.41
84 9 0.07
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (79 bp):
TAAAAAACGCCGCAAAAAACATAATAGTTTAACGAAAATGGCATCGTTTTAATTGGAGATTTAGA
GGATTAGCGGCGTT
Found at i:35611432 original size:169 final size:160
Alignment explanation
Indices: 35611204--35611525 Score: 416
Period size: 169 Copynumber: 2.0 Consensus size: 160
35611194 GCGTTTCTTG
* *
35611204 AAAAATGCCGCAAAAAACATAATAGTTTAACGAAAATGGCGTCGTTTTAATTGGAGATTTAGGGG
1 AAAAATGCCGCAAAAAACATAATAGTTTAACGAAAATGGCATCGTTTTAATTGGAGATTTAAGGG
* * *
35611269 ATTAGCGGCGTTTTTTATATTTTTATAAAAAACGCTGC-AAAAACATAATAGTTTAA-CAAAA-G
66 ATTAGCGGCG-------T-TTCTT-GAAAAAACGCCGCAAAAAACATAATAGTTTAATCAAAATG
35611331 CAGCATCGTTTTAATTGGAGATTTAGAGGATTAGCGGCGTT
122 --GCATCGTTTTAATTGGAGATTTAGAGGATTAGCGGCGTT
* * * *
35611372 AAAAATGCCTCAAAAAAACCTAGTAGTTTAACGAAAATGGCATCGTTTTAGTTGGAGATTTAAGG
1 AAAAATGCCGC-AAAAAACATAATAGTTTAACGAAAATGGCATCGTTTTAATTGGAGATTTAAGG
*
35611437 GATTAGCGGCGTTTCTTGAAAAAACGCCGCAAAAAACATAATAGTTTAATGAAAATGGCATCGTT
65 GATTAGCGGCGTTTCTTGAAAAAACGCCGCAAAAAACATAATAGTTTAATCAAAATGGCATCGTT
*
35611502 TTAATTGGAGATTTAGGGGATTAG
130 TTAATTGGAGATTTAGAGGATTAG
35611526 GCGTTTTTAA
Statistics
Matches: 139, Mismatches: 11, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
160 11 0.08
161 53 0.38
162 5 0.04
163 1 0.01
168 10 0.07
169 59 0.42
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.30
Consensus pattern (160 bp):
AAAAATGCCGCAAAAAACATAATAGTTTAACGAAAATGGCATCGTTTTAATTGGAGATTTAAGGG
ATTAGCGGCGTTTCTTGAAAAAACGCCGCAAAAAACATAATAGTTTAATCAAAATGGCATCGTTT
TAATTGGAGATTTAGAGGATTAGCGGCGTT
Found at i:35614890 original size:13 final size:14
Alignment explanation
Indices: 35614874--35614902 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35614864 TTTTAAATAT
35614874 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
35614887 TTATAATGGTTTAA
1 TTATAATGGTTTAA
35614901 TT
1 TT
35614903 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:35615580 original size:47 final size:47
Alignment explanation
Indices: 35615511--35615603 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
35615501 CATTGAATTT
*
35615511 TTGAATTATCATTTAGATTTGCTGTTATTGGTTGGATTTGATGTTGC
1 TTGAAGTATCATTTAGATTTGCTGTTATTGGTTGGATTTGATGTTGC
35615558 TTGAAGTATCATTTAGATTTGCTGTTATTGGTTGGATTTGATGTTG
1 TTGAAGTATCATTTAGATTTGCTGTTATTGGTTGGATTTGATGTTG
35615604 TAGGAAGGAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.19, C:0.05, G:0.25, T:0.51
Consensus pattern (47 bp):
TTGAAGTATCATTTAGATTTGCTGTTATTGGTTGGATTTGATGTTGC
Found at i:35615729 original size:44 final size:44
Alignment explanation
Indices: 35615653--35615761 Score: 166
Period size: 44 Copynumber: 2.5 Consensus size: 44
35615643 TATGCTAAAA
* *
35615653 TTAGTGGCGTTT-TCACAAAAAATTCCGCAAAAGAACATATATTT
1 TTAGCGGCGTTTGT-ACAAAAAATACCGCAAAAGAACATATATTT
*
35615697 TTAGCGGCGTTTGTACAAAAAATACCGTAAAAGAACATATATTT
1 TTAGCGGCGTTTGTACAAAAAATACCGCAAAAGAACATATATTT
*
35615741 TTAGCGGCGTTTGTCCAAAAA
1 TTAGCGGCGTTTGTACAAAAA
35615762 GCGCCGCTAA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
44 59 0.98
45 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.30
Consensus pattern (44 bp):
TTAGCGGCGTTTGTACAAAAAATACCGCAAAAGAACATATATTT
Found at i:35615813 original size:42 final size:43
Alignment explanation
Indices: 35615740--35615837 Score: 144
Period size: 42 Copynumber: 2.3 Consensus size: 43
35615730 AACATATATT
*
35615740 TTTAGCGGCGTTTGTCCAAAAAGCGCCGCTAAAGGTCACGTTC
1 TTTAGCGGCGTTTGTCCAAAAAGCGCCGCTAAAAGTCACGTTC
*** *
35615783 TTTAGCGGCGTTT-TCTTGAAAGCGCCGCTAAAAGTCATGTTC
1 TTTAGCGGCGTTTGTCCAAAAAGCGCCGCTAAAAGTCACGTTC
35615825 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
35615838 ATGTACAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 37 0.74
43 13 0.26
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTCCAAAAAGCGCCGCTAAAAGTCACGTTC
Found at i:35618113 original size:9 final size:9
Alignment explanation
Indices: 35618101--35618126 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
35618091 TCATATATTT
35618101 TTTTGTTTG
1 TTTTGTTTG
35618110 TTTTGTTTG
1 TTTTGTTTG
35618119 TTTTGTTT
1 TTTTGTTT
35618127 CCATTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (9 bp):
TTTTGTTTG
Found at i:35629546 original size:38 final size:38
Alignment explanation
Indices: 35629499--35629599 Score: 107
Period size: 38 Copynumber: 2.7 Consensus size: 38
35629489 CGTTCGGCGT
* * *
35629499 GAAATGAAGAAGAAGCGCCTTCGATTT-TTAGCATAAAA
1 GAAAAGAAGAAGAAGCGCCTTAG-TTTCTCAGCATAAAA
* *
35629537 GAAAAGAAGAAGAAGCGTCTTAGTTTCTCAGCATGAAA
1 GAAAAGAAGAAGAAGCGCCTTAGTTTCTCAGCATAAAA
* * *
35629575 -AAAAGGAGAAGAAACGTCTTAGTTT
1 GAAAAGAAGAAGAAGCGCCTTAGTTT
35629600 TCAAACTGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
37 26 0.47
38 29 0.53
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.23
Consensus pattern (38 bp):
GAAAAGAAGAAGAAGCGCCTTAGTTTCTCAGCATAAAA
Found at i:35629593 original size:37 final size:38
Alignment explanation
Indices: 35629528--35629599 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 38
35629518 TTCGATTTTT
*
35629528 AGCATAAAAGAAAAGAAGAAGAAGCGTCTTAGTTTCTC
1 AGCATAAAAGAAAAGAAGAAGAAACGTCTTAGTTTCTC
* *
35629566 AGCATGAAA-AAAAGGAGAAGAAACGTCTTAGTTT
1 AGCATAAAAGAAAAGAAGAAGAAACGTCTTAGTTT
35629600 TCAAACTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 23 0.74
38 8 0.26
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.21
Consensus pattern (38 bp):
AGCATAAAAGAAAAGAAGAAGAAACGTCTTAGTTTCTC
Found at i:35633297 original size:20 final size:19
Alignment explanation
Indices: 35633271--35633371 Score: 96
Period size: 20 Copynumber: 5.1 Consensus size: 19
35633261 ATAGTTGCAT
35633271 AACAGAGGCACCAAAGTGC
1 AACAGAGGCACCAAAGTGC
35633290 AGACAGAGGCA-CAAATGTGC
1 A-ACAGAGGCACCAAA-GTGC
**
35633310 AATCAGAGGCACCGTAGTGC
1 AA-CAGAGGCACCAAAGTGC
* *
35633330 AAACAGAGACACCAAAGTGT
1 -AACAGAGGCACCAAAGTGC
* *
35633350 ATACAGAGGCATCGAAGTGC
1 A-ACAGAGGCACCAAAGTGC
35633370 AA
1 AA
35633372 TCCCGTACAA
Statistics
Matches: 66, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
19 8 0.12
20 54 0.82
21 4 0.06
ACGTcount: A:0.41, C:0.22, G:0.27, T:0.11
Consensus pattern (19 bp):
AACAGAGGCACCAAAGTGC
Found at i:35633346 original size:60 final size:62
Alignment explanation
Indices: 35633251--35633373 Score: 162
Period size: 60 Copynumber: 2.0 Consensus size: 62
35633241 TACACCACAC
* *
35633251 CAGAGGCATCATAGTTGCATAACAGAGGCACCAAAGTGCAGACAGAGGCA-CAAATGTGCAAT
1 CAGAGGCACCATAGTTGCATAACAGAGACACCAAAGTGCAGACAGAGGCATCAAA-GTGCAAT
* * * *
35633313 CAGAGGCACCGTAG-TGCA-AACAGAGACACCAAAGTGTATACAGAGGCATCGAAGTGCAAT
1 CAGAGGCACCATAGTTGCATAACAGAGACACCAAAGTGCAGACAGAGGCATCAAAGTGCAAT
35633373 C
1 C
35633374 CCGTACAAGC
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
60 35 0.65
61 7 0.13
62 12 0.22
ACGTcount: A:0.38, C:0.22, G:0.26, T:0.14
Consensus pattern (62 bp):
CAGAGGCACCATAGTTGCATAACAGAGACACCAAAGTGCAGACAGAGGCATCAAAGTGCAAT
Found at i:35633357 original size:40 final size:39
Alignment explanation
Indices: 35633271--35633371 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 39
35633261 ATAGTTGCAT
* * *
35633271 AACAGAGGCACCAAAGTGCAGACAGAGGCACAAATGTGC
1 AACAGAGGCACCGAAGTGCAAACAGAGACACAAATGTGC
* *
35633310 AATCAGAGGCACCGTAGTGCAAACAGAGACACCAAA-GTGT
1 AA-CAGAGGCACCGAAGTGCAAACAGAGACA-CAAATGTGC
*
35633350 ATACAGAGGCATCGAAGTGCAA
1 A-ACAGAGGCACCGAAGTGCAA
35633372 TCCCGTACAA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
39 2 0.04
40 45 0.87
41 5 0.10
ACGTcount: A:0.41, C:0.22, G:0.27, T:0.11
Consensus pattern (39 bp):
AACAGAGGCACCGAAGTGCAAACAGAGACACAAATGTGC
Done.