Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold196
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: 7488280
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 125249 characters in sequence are not A, C, G, or T
File 23 of 47
Found at i:3505748 original size:51 final size:51
Alignment explanation
Indices: 3505653--3505771 Score: 168
Period size: 52 Copynumber: 2.3 Consensus size: 51
3505643 TTATGGAAAG
* *
3505653 CAAATGTATCCATACATTTTCATTCTATCAATACATTCTAGG-TTTTGATC
1 CAAATGTATCAATACATTTTCATTCTATCAATACATTCTAGGTTTTTGACC
* * * *
3505703 CAAATGTATCGATACATTCTTCATTGTATCGATACATTCTGGGTTTTTGACC
1 CAAATGTATCAATACATT-TTCATTCTATCAATACATTCTAGGTTTTTGACC
3505755 CAAATGTATCAATACAT
1 CAAATGTATCAATACAT
3505772 CCAGTTAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 17 0.28
51 21 0.34
52 23 0.38
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.39
Consensus pattern (51 bp):
CAAATGTATCAATACATTTTCATTCTATCAATACATTCTAGGTTTTTGACC
Found at i:3507629 original size:24 final size:24
Alignment explanation
Indices: 3507590--3507635 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
3507580 CACTAGACGC
** *
3507590 TTTTTCTAAATTTTTTTTGAAAAT
1 TTTTTCTAAAAATTTTATGAAAAT
3507614 TTTTTCTAAAAATTTTATGAAA
1 TTTTTCTAAAAATTTTATGAAA
3507636 TTCCCTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTTTCTAAAAATTTTATGAAAAT
Found at i:3508979 original size:20 final size:21
Alignment explanation
Indices: 3508956--3509002 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
3508946 GCAATGTTTT
*
3508956 GATACAATTCT-TCATGTATC
1 GATACAATTCTGCCATGTATC
*
3508976 GATAC-ATTGTGCCATGTATC
1 GATACAATTCTGCCATGTATC
3508996 GATACAA
1 GATACAA
3509003 ATACTGGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 4 0.17
20 18 0.78
21 1 0.04
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (21 bp):
GATACAATTCTGCCATGTATC
Found at i:3509054 original size:20 final size:19
Alignment explanation
Indices: 3509029--3509103 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
3509019 TACTACCAGT
*
3509029 TTCATGTATCGATACATTTG
1 TTCATGTATCGATACA-ATG
*
3509049 TTCATGTATCAATACAATG
1 TTCATGTATCGATACAATG
** *
3509068 AACATGTATCGATACAAAG
1 TTCATGTATCGATACAATG
* *
3509087 CATAATGTATCGATACA
1 -TTCATGTATCGATACA
3509104 TCTGAAAGTG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
19 17 0.37
20 29 0.63
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.33
Consensus pattern (19 bp):
TTCATGTATCGATACAATG
Found at i:3513486 original size:33 final size:33
Alignment explanation
Indices: 3513444--3513506 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
3513434 TTTGAGGCAA
* *
3513444 TGTATCGATACAATTCT-TCATGTATCGATAGGT
1 TGTATCGATAC-ATTATGCCATGTATCGATAGGT
3513477 TGTATCGATACATTATGCCATGTATCGATA
1 TGTATCGATACATTATGCCATGTATCGATA
3513507 CAAATAGTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 4 0.15
33 23 0.85
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATTATGCCATGTATCGATAGGT
Found at i:3514132 original size:19 final size:18
Alignment explanation
Indices: 3514104--3514161 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
3514094 TTTTATCGAT
* *
3514104 ACATTTTATCGATATATG
1 ACATTGTATCGATACATG
3514122 ATCATTGTATCGATACATG
1 A-CATTGTATCGATACATG
3514141 CACAATTGTATCGATACATG
1 -AC-ATTGTATCGATACATG
3514161 A
1 A
3514162 AACTGGCAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 1 0.03
19 17 0.49
20 17 0.49
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:3514243 original size:20 final size:22
Alignment explanation
Indices: 3514189--3514246 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 22
3514179 CTACCACTGT
3514189 TTGTATCGATACATGGCACAATGTG
1 TTGTATCGATACATGGCACAA---G
*
3514214 TTGTACCGATACATGGCAC-A-
1 TTGTATCGATACATGGCACAAG
3514234 TTGTATCGATACA
1 TTGTATCGATACA
3514247 ATGTATCGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 12 0.39
24 1 0.03
25 18 0.58
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (22 bp):
TTGTATCGATACATGGCACAAG
Found at i:3514253 original size:13 final size:13
Alignment explanation
Indices: 3514235--3514259 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3514225 CATGGCACAT
3514235 TGTATCGATACAA
1 TGTATCGATACAA
3514248 TGTATCGATACA
1 TGTATCGATACA
3514260 TGAAGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3522551 original size:20 final size:19
Alignment explanation
Indices: 3522528--3522599 Score: 92
Period size: 20 Copynumber: 3.7 Consensus size: 19
3522518 CACATCCAGA
* *
3522528 TGTATCGATACATTATGCTT
1 TGTATCGATACATGAT-CAT
3522548 TGTATCGATACATGATCAT
1 TGTATCGATACATGATCAT
3522567 TGTATCGATACATGCA-CAAT
1 TGTATCGATACATG-ATC-AT
3522587 TGTATCGATACAT
1 TGTATCGATACAT
3522600 AAAACTGACA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.35
20 31 0.65
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGATCAT
Found at i:3526672 original size:83 final size:82
Alignment explanation
Indices: 3526570--3526792 Score: 347
Period size: 83 Copynumber: 2.7 Consensus size: 82
3526560 ATTCCAACCA
* **
3526570 CATATTCTTTTTTCCTCAAATACCAGATGGTATCAATGCATCACAAAGCCTGGTTTTCGCGGGGT
1 CATA-TCTTTTTTCCTCAAATACTAGATGGTATCAATGCATCACAAAGCCTGGTTTTCGCAAGGT
3526635 CAACCATATATTCCCAAT
65 CAACCATATATTCCCAAT
*
3526653 CATATCTTTTTTTCTTCAAATACTAGATGGTATCAATGCATCACAAAGCCTGGTTTTCGCAAGGT
1 CATATC-TTTTTTCCTCAAATACTAGATGGTATCAATGCATCACAAAGCCTGGTTTTCGCAAGGT
3526718 CAACCATATATTCCCAAT
65 CAACCATATATTCCCAAT
* ** * *
3526736 CATATCTTTTCTCCTCAACCACTAGATGGTATCGATGCATCACAAAGCTTGGTTTTC
1 CATATCTTTTTTCCTCAAATACTAGATGGTATCAATGCATCACAAAGCCTGGTTTTC
3526793 ACATGACTAG
Statistics
Matches: 129, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
82 47 0.36
83 82 0.64
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (82 bp):
CATATCTTTTTTCCTCAAATACTAGATGGTATCAATGCATCACAAAGCCTGGTTTTCGCAAGGTC
AACCATATATTCCCAAT
Found at i:3527461 original size:46 final size:46
Alignment explanation
Indices: 3527393--3527692 Score: 259
Period size: 46 Copynumber: 6.6 Consensus size: 46
3527383 CTTTACTAAA
* * * * * *
3527393 CAAACCTTTTTCATCCTCGTTTGACTGTATCAGTTACCACCATGGT
1 CAAACCCTTTTCATTCTTGTTTGACTATATCAGTTACCACCTTAGT
* * *
3527439 CAAACCCTTTTCATTTTTGTTTGACTATATCGGTTACCA-CTTTGAT
1 CAAACCCTTTTCATTCTTGTTTGACTATATCAGTTACCACCTTAG-T
* * * * *
3527485 CAAACCTTTTTCGTTC--ATTTGA-TCGTATCGGTTACCACCTTAGT
1 CAAACCCTTTTCATTCTTGTTTGACT-ATATCAGTTACCACCTTAGT
** * * * *
3527529 CAAACCCTTTTTGTTCTTATTTAACTATATCAGTTACCACTTTGGT
1 CAAACCCTTTTCATTCTTGTTTGACTATATCAGTTACCACCTTAGT
* * *
3527575 GAAACCCTTTTCA-TCTGTGTTTGACTATATCAATTACCACCCTAGT
1 CAAACCCTTTTCATTCT-TGTTTGACTATATCAGTTACCACCTTAGT
** ** * *
3527621 CAAACTTTTTTCATTCTCATTTGACTGTATCAGTTACCACCCTAGT
1 CAAACCCTTTTCATTCTTGTTTGACTATATCAGTTACCACCTTAGT
* *
3527667 CAAACTCTTTTAATTCTTGTTTGACT
1 CAAACCCTTTTCATTCTTGTTTGACT
3527693 TTATTGGTTT
Statistics
Matches: 205, Mismatches: 41, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
43 1 0.00
44 32 0.16
45 10 0.05
46 158 0.77
47 4 0.02
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.42
Consensus pattern (46 bp):
CAAACCCTTTTCATTCTTGTTTGACTATATCAGTTACCACCTTAGT
Found at i:3527556 original size:90 final size:91
Alignment explanation
Indices: 3527393--3527660 Score: 279
Period size: 90 Copynumber: 2.9 Consensus size: 91
3527383 CTTTACTAAA
* * * *
3527393 CAAACCTTTTTCATCCTCGTTTGACTGTATCAGTTACCACCATGGTCAAACCCTTTTCATTTTTG
1 CAAACCTTTTTCAT-CTCATTTGACTGTATCAGTTACCACCATAGTCAAACCCTTTTCATTCTTA
* *
3527458 TTTGACTATATCGGTTACCACTTTGAT
65 TTTAACTATATCAGTTACCACTTTGAT
* * * **
3527485 CAAACCTTTTTCGT-TCATTTGA-TCGTATCGGTTACCACCTTAGTCAAACCCTTTTTGTTCTTA
1 CAAACCTTTTTCATCTCATTTGACT-GTATCAGTTACCACCATAGTCAAACCCTTTTCATTCTTA
*
3527548 TTTAACTATATCAGTTACCACTTTGGT
65 TTTAACTATATCAGTTACCACTTTGAT
* * ** * * * ** *
3527575 GAAACCCTTTTCATCTGTGTTTGACTATATCAATTACCACCCTAGTCAAACTTTTTTCATTCTCA
1 CAAACCTTTTTCATCT-CATTTGACTGTATCAGTTACCACCATAGTCAAACCCTTTTCATTCTTA
* *
3527640 TTTGACTGTATCAGTTACCAC
65 TTTAACTATATCAGTTACCAC
3527661 CCTAGTCAAA
Statistics
Matches: 144, Mismatches: 28, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
89 1 0.01
90 74 0.51
91 1 0.01
92 67 0.47
93 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (91 bp):
CAAACCTTTTTCATCTCATTTGACTGTATCAGTTACCACCATAGTCAAACCCTTTTCATTCTTAT
TTAACTATATCAGTTACCACTTTGAT
Found at i:3528003 original size:85 final size:85
Alignment explanation
Indices: 3527854--3528108 Score: 217
Period size: 85 Copynumber: 3.0 Consensus size: 85
3527844 ATTAGTCGAG
* ** * * * **
3527854 TTGTCATTTCAATCTTGGTTAACCTTTTTATCCTTTGTTTACCTGTTAGCTTAGTCCCGGGTAAA
1 TTGTCAGTTCAATCTCAGTCAACCTTTTTATCCCTTGTTTACCTGTCAGCTTAGTCCCAAGTAAA
* *
3527919 TCTTTTTATCTTTTTTTGAC
66 TCTTTTTATCCTTTGTTGAC
* * *
3527939 TTGTCAGTTCAATCTCAGTCAA-CTTTTTCATCCCTTGTTTACTTGTCAGTTTAGTCCTAAGTAA
1 TTGTCAGTTCAATCTCAGTCAACCTTTTT-ATCCCTTGTTTACCTGTCAGCTTAGTCCCAAGTAA
*
3528003 ATCTTTTTATCCTTTGTTGGC
65 ATCTTTTTATCCTTTGTTGAC
* * ** * * * * * * * *
3528024 TTGTCAGTTTAAACTTGGTTAACCTTTGTATCCTTTATCTACCTATC-GAATTAGTCTCAAGTAA
1 TTGTCAGTTCAATCTCAGTCAACCTTTTTATCCCTTGTTTACCTGTCAG-CTTAGTCCCAAGTAA
** *
3528088 CCCTTTTCATCCTTTGTTGAC
65 ATCTTTTTATCCTTTGTTGAC
3528109 CTAACCGCTT
Statistics
Matches: 135, Mismatches: 32, Indels: 6
0.78 0.18 0.03
Matches are distributed among these distances:
84 7 0.05
85 123 0.91
86 5 0.04
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.47
Consensus pattern (85 bp):
TTGTCAGTTCAATCTCAGTCAACCTTTTTATCCCTTGTTTACCTGTCAGCTTAGTCCCAAGTAAA
TCTTTTTATCCTTTGTTGAC
Found at i:3528028 original size:43 final size:43
Alignment explanation
Indices: 3527877--3528034 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
3527867 CTTGGTTAAC
* * * * ***
3527877 CTTTTTATCCTTTGTTTACCTGTTAGCTTAGTCCCGGGTAAAT
1 CTTTTTATCCTTTGTTGACTTGTCAGTTTAGTCCTAAGTAAAT
* * * * * *
3527920 CTTTTTATCTTTTTTTGACTTGTCAGTTCAAT-CTCAGTCAA-
1 CTTTTTATCCTTTGTTGACTTGTCAGTTTAGTCCTAAGTAAAT
* *
3527961 CTTTTTCATCCCTTGTTTACTTGTCAGTTTAGTCCTAAGTAAAT
1 CTTTTT-ATCCTTTGTTGACTTGTCAGTTTAGTCCTAAGTAAAT
*
3528005 CTTTTTATCCTTTGTTGGCTTGTCAGTTTA
1 CTTTTTATCCTTTGTTGACTTGTCAGTTTA
3528035 AACTTGGTTA
Statistics
Matches: 89, Mismatches: 23, Indels: 6
0.75 0.19 0.05
Matches are distributed among these distances:
41 6 0.07
42 25 0.28
43 52 0.58
44 6 0.07
ACGTcount: A:0.17, C:0.20, G:0.13, T:0.50
Consensus pattern (43 bp):
CTTTTTATCCTTTGTTGACTTGTCAGTTTAGTCCTAAGTAAAT
Found at i:3529517 original size:41 final size:41
Alignment explanation
Indices: 3529466--3529611 Score: 152
Period size: 41 Copynumber: 3.6 Consensus size: 41
3529456 CATAAACCAA
* *
3529466 TTAAAAGGGTTGGCCAAGGCAAAATCAATAAAGCCAATAGG
1 TTAAAGGGGTTGGCTAAGGCAAAATCAATAAAGCCAATAGG
* * * * *
3529507 TTAGAGGGGTTGACTAAGGCAAAATCAATAAAGTCAACCA-A
1 TTAAAGGGGTTGGCTAAGGCAAAATCAATAAAGCCAA-TAGG
* * * *
3529548 TTAAAGGGGTTGGTTAAGGCGAAACCGATAAAGCCAATAGG
1 TTAAAGGGGTTGGCTAAGGCAAAATCAATAAAGCCAATAGG
* *
3529589 TTAAAGAGGTTGACT-AGGCAAAA
1 TTAAAGGGGTTGGCTAAGGCAAAA
3529612 CCGATGAAGT
Statistics
Matches: 83, Mismatches: 20, Indels: 5
0.77 0.19 0.05
Matches are distributed among these distances:
40 8 0.10
41 74 0.89
42 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.19
Consensus pattern (41 bp):
TTAAAGGGGTTGGCTAAGGCAAAATCAATAAAGCCAATAGG
Found at i:3529560 original size:82 final size:81
Alignment explanation
Indices: 3529460--3529630 Score: 225
Period size: 82 Copynumber: 2.1 Consensus size: 81
3529450 TAATAGCATA
* * *
3529460 AACCAATTAAAAGGGTTGGCCAAGGCAAAATCAATAAAGCCAATAGGTTAGAGGGGTTGACTAAG
1 AACCAATTAAAAGGGTTGGCCAAGGCAAAACCAATAAAGCCAATAGGTTAAAGAGGTTGACT-AG
*
3529525 GCAAAATCAATAAAGTC
65 GCAAAACCAATAAAGTC
* ** * *
3529542 AACCAATTAAAGGGGTTGGTTAAGGCGAAACCGATAAAGCCAATAGGTTAAAGAGGTTGACTAGG
1 AACCAATTAAAAGGGTTGGCCAAGGCAAAACCAATAAAGCCAATAGGTTAAAGAGGTTGACTAGG
* *
3529607 CAAAACCGATGAAGTC
66 CAAAACCAATAAAGTC
*
3529623 AACTAATT
1 AACCAATT
3529631 GGAGAGGTTC
Statistics
Matches: 77, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
81 23 0.30
82 54 0.70
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (81 bp):
AACCAATTAAAAGGGTTGGCCAAGGCAAAACCAATAAAGCCAATAGGTTAAAGAGGTTGACTAGG
CAAAACCAATAAAGTC
Found at i:3529664 original size:81 final size:81
Alignment explanation
Indices: 3529493--3529711 Score: 237
Period size: 81 Copynumber: 2.7 Consensus size: 81
3529483 GGCAAAATCA
* * *
3529493 ATAAAGCCAATAGGTTAGAGGGGTTGACTAAGGCAAAATCAATAAAGTCAACCAATTAAAGGGGT
1 ATAAAGCCAATAGGTTAGA-GGGTTGACTAAGGCAAAACCGATAAAGTCAACCAATTAAAGAGGT
**
3529558 TGGTTAAGGCGAAACCG
65 TCATTAAGGCGAAACCG
* * * **
3529575 ATAAAGCCAATAGGTTAAAGAGGTTGACT-AGGCAAAACCGATGAAGTCAACTAATTGGAGAGGT
1 ATAAAGCCAATAGGTTAGAG-GGTTGACTAAGGCAAAACCGATAAAGTCAACCAATTAAAGAGGT
3529639 TCATT-AGG-GAAACGCTG
65 TCATTAAGGCGAAAC-C-G
** * * * *
3529656 ATAAAGCCAGCATGTTAGAGGGTTGACTAAGGTAAAACCGATAAATTCAATCAATT
1 ATAAAGCCAATAGGTTAGAGGGTTGACTAAGGCAAAACCGATAAAGTCAACCAATT
3529712 TGAGGGGTGA
Statistics
Matches: 114, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
79 5 0.04
80 12 0.11
81 71 0.62
82 26 0.23
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (81 bp):
ATAAAGCCAATAGGTTAGAGGGTTGACTAAGGCAAAACCGATAAAGTCAACCAATTAAAGAGGTT
CATTAAGGCGAAACCG
Found at i:3530944 original size:11 final size:12
Alignment explanation
Indices: 3530898--3530942 Score: 51
Period size: 11 Copynumber: 3.9 Consensus size: 12
3530888 AGGTTTTATC
3530898 TTTTT-TTTTTG
1 TTTTTCTTTTTG
3530909 TTTTT-TTTTTG
1 TTTTTCTTTTTG
3530920 TTTTCTCTTTTT-
1 TTTT-TCTTTTTG
*
3530932 TTTTTGTTTTT
1 TTTTTCTTTTT
3530943 TTAGGCATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 21 0.68
12 5 0.16
13 5 0.16
ACGTcount: A:0.00, C:0.04, G:0.07, T:0.89
Consensus pattern (12 bp):
TTTTTCTTTTTG
Found at i:3532595 original size:130 final size:128
Alignment explanation
Indices: 3532410--3532761 Score: 307
Period size: 130 Copynumber: 2.7 Consensus size: 128
3532400 AGTGGAGTTG
** * * * * *
3532410 GAGTATCCCCAATTATGGAAAATTAGTGTTCTCGAAATAAAA-CTAGGGTTGGAGTATCCCTAAT
1 GAGTATCCCCAATGGT-GAAAATCAGTGTTTTGGAAATAAAACCGA-GGTTGGAGTATCCCCAAT
* * *
3532474 AGTGGAAAATCGATATTTTGAAAATAAAACCGGGGTTAGAGTATCCCCTCAAAAATAACGAGATT
64 -GTGGAAAATCGATGTTTTGAAAATAAAACCGGGATTAGAGTATCCCCTCAAAAATAAAGAGATT
3532539 A
128 A
* * * *
3532540 GAGTATCCCCAATGGTAGAAAATCAGTGTTTTGGAAATAAAACCGAGGTTAGAGTATCTTCGAGT
1 GAGTATCCCCAATGGT-GAAAATCAGTGTTTTGGAAATAAAACCGAGGTTGGAGTATC-CCCAAT
* * * * * * * * * * *
3532605 GTGAAAAATAGATGGTTTGGAGATAAAATCGGGATTGGAGTATTCCTTCAAAAATAAAGAGGTTG
64 GTGGAAAATCGATGTTTTGAAAATAAAACCGGGATTAGAGTATCCCCTCAAAAATAAAGAGATTA
* * * * * *
3532670 GAGTAT-TCTAATGGTGAAAAATC-GATGTTTTGGAGATAAAACTGAAGTTGGAGTATCCCCGAT
1 GAGTATCCCCAATGGTG-AAAATCAG-TGTTTTGGAAATAAAACCGAGGTTGGAGTATCCCCAAT
*
3532733 GGTGGAAAATCGGTGTTTT-AGAAATAAAA
64 -GTGGAAAATCGATGTTTTGA-AAATAAAA
3532762 ACATGAATGA
Statistics
Matches: 175, Mismatches: 41, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
128 4 0.02
129 62 0.35
130 104 0.59
131 5 0.03
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.28
Consensus pattern (128 bp):
GAGTATCCCCAATGGTGAAAATCAGTGTTTTGGAAATAAAACCGAGGTTGGAGTATCCCCAATGT
GGAAAATCGATGTTTTGAAAATAAAACCGGGATTAGAGTATCCCCTCAAAAATAAAGAGATTA
Found at i:3535129 original size:50 final size:50
Alignment explanation
Indices: 3535075--3535201 Score: 175
Period size: 50 Copynumber: 2.5 Consensus size: 50
3535065 TTGAATGTAT
* *
3535075 CGATACATTGAGA-AATGTATCGATACATCTAGGTAAAACCCATAATGAAC
1 CGATACAATGA-ACAATGTATCGATACATCTAGGTAAAACCCAGAATGAAC
* * * *
3535125 CGATACAATGAACAATGTATTGATACATCTGGGTAAAACCCAGAATGTAT
1 CGATACAATGAACAATGTATCGATACATCTAGGTAAAACCCAGAATGAAC
*
3535175 CGATATAATGAACAATGTATCGATACA
1 CGATACAATGAACAATGTATCGATACA
3535202 AATTGTGAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
49 1 0.01
50 67 0.99
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (50 bp):
CGATACAATGAACAATGTATCGATACATCTAGGTAAAACCCAGAATGAAC
Found at i:3539771 original size:21 final size:21
Alignment explanation
Indices: 3539747--3539802 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
3539737 AAAAGCCCAG
3539747 AATGTATCGATACAAACAGTA
1 AATGTATCGATACAAACAGTA
*
3539768 AATGTATCAATACAAACAGTA
1 AATGTATCGATACAAACAGTA
3539789 AATGTATCGATACA
1 AATGTATCGATACA
3539803 TTTCCTTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.25
Consensus pattern (21 bp):
AATGTATCGATACAAACAGTA
Found at i:3540616 original size:61 final size:61
Alignment explanation
Indices: 3540551--3540800 Score: 236
Period size: 61 Copynumber: 4.1 Consensus size: 61
3540541 TTTTAAGGTC
*
3540551 AGCGACATTAGACTTAAAGATGCGAAGAATGATAAAAGTGCCAATATGTTGATTCATA-GCT
1 AGCGACATTAGACTTAAAGATGCGAAGAATGATAAAAGTGCCAATATGTCGATTCA-AGGCT
* ** * * * * * * *
3540612 AGCGATATCGGGCTTGAAGATGAC-ATGAACGATAAAGGTGCCAATATGTTGATTCAAGGCC
1 AGCGACATTAGACTTAAAGATG-CGAAGAATGATAAAAGTGCCAATATGTCGATTCAAGGCT
* * * * * * * *
3540673 AACGACATTAGACTTGAAGATGAGAAGAAGGCTAAAGGTGCCAATATGCCGATTCAAAGCT
1 AGCGACATTAGACTTAAAGATGCGAAGAATGATAAAAGTGCCAATATGTCGATTCAAGGCT
* * * *
3540734 AGCGATATTGGGCTTAAAGATGCAAAGAAATGAT-AAAGTTGCCAATATGTCGATTCAAGGCT
1 AGCGACATTAGACTTAAAGATGCGAAG-AATGATAAAAG-TGCCAATATGTCGATTCAAGGCT
3540796 AGCGA
1 AGCGA
3540801 TATTGGGTTT
Statistics
Matches: 150, Mismatches: 34, Indels: 9
0.78 0.18 0.05
Matches are distributed among these distances:
60 1 0.01
61 118 0.79
62 31 0.21
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (61 bp):
AGCGACATTAGACTTAAAGATGCGAAGAATGATAAAAGTGCCAATATGTCGATTCAAGGCT
Found at i:3540700 original size:122 final size:123
Alignment explanation
Indices: 3540553--3540794 Score: 335
Period size: 122 Copynumber: 2.0 Consensus size: 123
3540543 TTAAGGTCAG
* * ** *
3540553 CGACATTAGACTTAAAGATGCGAAGAATGATAAAAGTGCCAATATGTTGATTCATAGCTAGCGAT
1 CGACATTAGACTTAAAGATGAGAAGAAGGATAAAAGTGCCAATATGCCGATTCAAAGCTAGCGAT
* * *
3540618 ATCGGGCTTGAAGATG-ACATG-AACGATAAAGGTGCCAATATGTTGATTCAAGGCCAA
66 ATCGGGCTTAAAGATGCA-AAGAAACGATAAAGGTGCCAATATGTCGATTCAAGGCCAA
* * *
3540675 CGACATTAGACTTGAAGATGAGAAGAAGGCTAAAGGTGCCAATATGCCGATTCAAAGCTAGCGAT
1 CGACATTAGACTTAAAGATGAGAAGAAGGATAAAAGTGCCAATATGCCGATTCAAAGCTAGCGAT
* * *
3540740 ATTGGGCTTAAAGATGCAAAGAAATGATAAAGTTGCCAATATGTCGATTCAAGGC
66 ATCGGGCTTAAAGATGCAAAGAAACGATAAAGGTGCCAATATGTCGATTCAAGGC
3540795 TAGCGATATT
Statistics
Matches: 104, Mismatches: 14, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
122 73 0.70
123 31 0.30
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (123 bp):
CGACATTAGACTTAAAGATGAGAAGAAGGATAAAAGTGCCAATATGCCGATTCAAAGCTAGCGAT
ATCGGGCTTAAAGATGCAAAGAAACGATAAAGGTGCCAATATGTCGATTCAAGGCCAA
Found at i:3540841 original size:52 final size:52
Alignment explanation
Indices: 3540763--3541453 Score: 542
Period size: 52 Copynumber: 13.1 Consensus size: 52
3540753 ATGCAAAGAA
* * * **
3540763 ATGATAAAGTTGCCAATATG-TCGATTCAAGGCTAGCGATATTGGGTTTAAAG
1 ATGACAAAGGTGCCAATATGCT-GATTCAAGGCCAGCGATATTGGACTTAAAG
* *
3540815 ATGGCAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTT-AAG
1 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * * * * * *
3540866 AAAGAAAAAGGTGCTAATGTGCTGATTCACGGCCAGTGACATTGGACTTAAAGATGAGAGG
1 -ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--A-A-G
* ** *
3540927 AATGATAAAGGTGCCAATATGCTGATTCAAGGCCAATGATATTGGGCTTAAAG
1 -ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * * * * *
3540980 ATGACAAAGGTGCCAATGTGATGATTCAATGCTAGCGACATTAGACTTAAAG
1 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * *
3541032 ATGACAAAGGCGCCAATATGCTAATTCAAGGCCA-CTGATATTGGACTTAGGAG
1 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGC-GATATTGGACTTA-AAG
* * * * * * * *
3541085 A-GAAAAAGGTGCCAATCTGCTAATTCAAAGCCAACGACATTAGACTTAAAA
1 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
** * * *
3541136 ATGACAAAGGCACCAATATGCTGATTCAAGGCCAGTGATATCGAACTTAAAG
1 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* **
3541188 ATGACAAAGGTACCAATATGCTGATTCAAGGCCATTGATATTGGACTT-AAG
1 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * * * *
3541239 AAAGAAAAAGGTGCCAATCTGCTAATTCAAGGCTAGCG-TCATTGGACTTAAAG
1 -ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT-ATTGGACTTAAAG
* * * * * * * *
3541292 ATGA-GAAGACTACCAATATGCTGATTTAAGGCTAGCGACATTGGGCTT-AGG
1 ATGACAAAG-GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * * * *
3541343 AATGATAAGATGTG--AATATGCTAATTCAAGGCCAGTGATATTGGACTTAAAA
1 -ATGACAA-AGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * *
3541395 ATGAC-AAGAGTGCCAATGTGCTGATTCAAGGCCAACGATAATGGACTTATAA-
1 ATGACAAAG-GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAG
3541447 ATGACAA
1 ATGACAA
3541454 GGTTTCCAAC
Statistics
Matches: 505, Mismatches: 105, Indels: 57
0.76 0.16 0.09
Matches are distributed among these distances:
49 1 0.00
50 4 0.01
51 47 0.09
52 391 0.77
53 14 0.03
54 2 0.00
55 1 0.00
57 1 0.00
59 1 0.00
60 1 0.00
61 42 0.08
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (52 bp):
ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
Found at i:3541386 original size:51 final size:51
Alignment explanation
Indices: 3540941--3541774 Score: 315
Period size: 52 Copynumber: 16.4 Consensus size: 51
3540931 ATAAAGGTGC
** * * *
3540941 CAATATGCTGATTCAAGGCCAATGATATTGGGCTTAAAGATGACAA-AGGTG
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAGA-GTG
* * * * * * *
3540992 CCAATGTGATGATTCAATGCTAGCGACATTAGACTTAAAGATGACAA-AGGCG
1 -CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAGA-GTG
* * * * *
3541044 CCAATATGCTAATTCAAGGCCA-CTGATATTGGACTTAGGAGA-GA-AAAAGGTG
1 -CAATATGCTGATTCAAGGCCAGC-GACATTGGACTTA-AAAATGACAAGA-GTG
* * * * *
3541096 CCAATCTGCTAATTCAAAGCCAACGACATTAGACTTAAAAATGACAA-AG-G
1 -CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAGAGTG
* * * * * *
3541146 CACCAATATGCTGATTCAAGGCCAGTGATATCGAACTTAAAGATGACAA-AGGTAC
1 ---CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAGA-GT-G
** * *
3541201 CAATATGCTGATTCAAGGCCATTGATATTGGACTTAAGAAA-GA-AAAAGGTG
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA-AAATGACAAGA-GTG
* * * * * * * *
3541252 CCAATCTGCTAATTCAAGGCTAGCGTCATTGGACTTAAAGATGAGAAGACTAC
1 -CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAGAGT-G
* * * ** *
3541305 CAATATGCTGATTTAAGGCTAGCGACATTGGGCTTAGGAATGATAAGATGTG
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAGA-GTG
* * *
3541357 -AATATGCTAATTCAAGGCCAGTGATATTGGACTTAAAAATGACAAGAGTG
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAGAGTG
* * * * * *
3541407 CCAATGTGCTGATTCAAGGCCAACGATAATGGACTTATAAATGACAAG-GTTTC
1 -CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAGAG--TG
* ** * * *
3541460 CAACATGGC-GA-T-ATTG---G-G--TTTGGA---GAAAAT-A-AAGTTGCT-
1 CAATAT-GCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAG-AG-TG
* * *
3541499 -AATATGCTAG-TTCAAGGCCAACGATATTGGACTTAAAAA--A-AA-TGTG
1 CAATATGCT-GATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAGAGTG
* * * ** *
3541545 CCAATGTGCTGATCCAAGGCCAGTGACATTGGACTTAAAGTTAACAA-AGGTG
1 -CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAGA-GTG
* * * *
3541597 CCAATATGCTGATTCAAGGCTAGCGATATTAGACTTAAGAAA-GA-AAAATGTG
1 -CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA-AAATGACAAGA-GTG
* * * * *
3541649 CCAATGTGCTAATTGAAGGCTAGCAACATTGGACTTAAAAATGACAAAGACGTG
1 -CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGAC-AAGA-GTG
* * *
3541703 -AATATGCTGATTCAAGGCTAGCGATATTGGACTTAAGAAA-GA-AAAAGGTG
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA-AAATGACAAGA-GTG
* *
3541753 CCAATGTGCTAATTCAAGGCCA
1 -CAATATGCTGATTCAAGGCCA
3541775 ATAACATTAG
Statistics
Matches: 597, Mismatches: 131, Indels: 108
0.71 0.16 0.13
Matches are distributed among these distances:
37 2 0.00
38 4 0.01
39 5 0.01
40 4 0.01
41 5 0.01
44 5 0.01
45 1 0.00
46 8 0.01
47 1 0.00
48 33 0.06
49 4 0.01
50 13 0.02
51 57 0.10
52 429 0.72
53 20 0.03
54 6 0.01
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (51 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAGAGTG
Found at i:3541781 original size:104 final size:103
Alignment explanation
Indices: 3541490--3541782 Score: 364
Period size: 104 Copynumber: 2.9 Consensus size: 103
3541480 TGGAGAAAAT
* * *
3541490 AAAGTTGCTAATATGCT-AGTTCAAGGCCAACGATATTGGACTT---AAA-AAAAATGTGCCAAT
1 AAAGGTGC-AATATGCTGA-TTCAAGGCTAGCGATATTGGACTTAAGAAAGAAAAATGTGCCAAT
* * * **
3541550 GTGCTGATCCAAGGCCAGTGACATTGGACTTAAAGTTAAC
64 GTGCTAATTCAAGGCCAGTAACATTGGACTTAAAAATAAC
*
3541590 AAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTAGACTTAAGAAAGAAAAATGTGCCAATG
1 AAAGGTG-CAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAGAAAGAAAAATGTGCCAATG
* * * *
3541655 TGCTAATTGAAGGCTAGCAACATTGGACTTAAAAATGAC
65 TGCTAATTCAAGGCCAGTAACATTGGACTTAAAAATAAC
*
3541694 AAAGACGTG-AATATGCTGATTCAAGGCTAGCGATATTGGACTTAAGAAAGAAAAAGGTGCCAAT
1 AAAG--GTGCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAGAAAGAAAAATGTGCCAAT
*
3541758 GTGCTAATTCAAGGCCAATAACATT
64 GTGCTAATTCAAGGCCAGTAACATT
3541783 AGGCTTAGAA
Statistics
Matches: 166, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
100 35 0.21
101 2 0.01
103 3 0.02
104 123 0.74
106 3 0.02
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (103 bp):
AAAGGTGCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAGAAAGAAAAATGTGCCAATGT
GCTAATTCAAGGCCAGTAACATTGGACTTAAAAATAAC
Found at i:3541987 original size:97 final size:95
Alignment explanation
Indices: 3541793--3542699 Score: 747
Period size: 97 Copynumber: 9.4 Consensus size: 95
3541783 AGGCTTAGAA
* * **
3541793 GGGTTGCCACCGACTTATGTGGGCTTTAGAGAAGGGTTACCTTC-ATCTTGTGTGGGCTTTAAGA
1 GGGTTGCCACCGACTTGTGTGGGCTTT-GAGAAGGGTTGCCACCGA-CTTGTGTGGGCTTT-AG-
**
3541857 AAATGTTGCCACCGACTTGTGTGGGCTTT-AAAAG
62 AAGGGTTGCCA-CGACTTGTGTGGGCTTTGAAAAG
* * * * *
3541891 GGGTTGCCACCAAATTCTATGGGCTTTGAGAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAAGG
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGG
* * **
3541956 GTTTCTATCGACTTGTGTAAGCTTTAGAAAA-
66 GTTGCCA-CGACTTGTGTGGGCTTT-GAAAAG
* * ** * *
3541987 -GGTTACCACCGACTTGTGTAGGCTTT-AGAAGGGGTTGCCACTAACTTGTGTGGACTTTAGAAA
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAGAA-GGGTTGCCACCGACTTGTGTGGGCTTTAGAAG
* *
3542050 TGTTGCCACCGACTTAG-GTGGG-TTTGAGAA-
65 GGTTGCCA-CGACTT-GTGTGGGCTTTGAAAAG
* ** * *
3542080 GGGTTGCTACTAACTTGTGTGGGCTTT-AGAAGAGGTTGGCACTGACTTGTGTGGGCTTTAGAAG
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAGAAG-GGTTGCCACCGACTTGTGTGGGCTTTAG-A-
* * **
3542144 AGGGTTGCTACCGACTTATGTGGGCTTTG-AGGG
63 AGGGTTGCCA-CGACTTGTGTGGGCTTTGAAAAG
* * * * **
3542177 GGGTTGCTACCGACTTGTGTAGGCTTTGAGAAGGGTTGCCGCTGACTTACGTGGGCTTTCTAGAA
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGC-TT-TAGAA
* * * *
3542242 GGGTTGCCATAGAGTTGTGTGAGCTTT-AGAAG
64 GGGTTGCCA-CGACTTGTGTGGGCTTTGAAAAG
* * * *
3542274 AGGTTACCACCGATTTGTGTGGGCTTTGAGAAAGGTTGCCACCGACTTGTGTGGGCTTTTTA-AA
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGC--TTTAGAA
* *
3542338 GGGTTGCCACTAACTTGGGTGGGCTTTG---AG
64 GGGTTGCCAC-GACTTGTGTGGGCTTTGAAAAG
* * * * *
3542368 AGGTTGCCACTGACTTATGTGGGCTTT-AGAAGGGTTGCCACTGACTTGTGTGGGCTTTTTAGAG
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGC--TTTAGAA
* * *
3542432 GGGCTGCCACTAACTTGTGTGGGCTTT-AAAGAA
64 GGGTTGCCAC-GACTTGTGTGGGCTTTGAAA-AG
* * * *
3542465 GGGTTGCCACCAACTTGTGTGGGCTTT-AAAAAGGTTGCCATCGACTTGTGTGGGCTTTAGAGAA
1 GGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTT--AGAA
* * **
3542529 GTGTTGCCATCAACTTGTGTGGGCTTTGGGAA-
64 GGGTTGCCA-CGACTTGTGTGGGCTTTGAAAAG
* * *
3542561 GGGTTGCCACCGACTTGTATAGGCTTTAGAGAA-GGTTGCCACCGACTTATGTGGGCTTTAGAAG
1 GGGTTGCCACCGACTTGTGTGGGCTTT-GAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAG
* * *
3542625 GGTTGCCACCAGCTTATGTGGGCTTTGAGAAG
65 GGTTGCCACGA-CTTGTGTGGGCTTTGAAAAG
* * *
3542657 AGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGGTTACCAC
1 GGGTTGCCACCGACTTGTGTGGGCTTT-GAGAAGGGTTGCCAC
3542700 TAACCTTTTT
Statistics
Matches: 662, Mismatches: 114, Indels: 67
0.79 0.14 0.08
Matches are distributed among these distances:
93 37 0.06
94 110 0.17
95 118 0.18
96 98 0.15
97 256 0.39
98 40 0.06
99 3 0.00
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.31
Consensus pattern (95 bp):
GGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGG
GTTGCCACGACTTGTGTGGGCTTTGAAAAG
Found at i:3542000 original size:32 final size:32
Alignment explanation
Indices: 3541787--3542699 Score: 785
Period size: 32 Copynumber: 28.5 Consensus size: 32
3541777 AACATTAGGC
*
3541787 TTAG-AAGGGTTGCCACCGACTTATGTGGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
* **
3541818 TTAGAGAAGGGTTACCTTC-ATCTTGTGTGGGCT
1 TTAGA-AAGGGTTGCCACCGA-CTTGTGTGGGCT
**
3541851 TTAAGAAAATGTTGCCACCGACTTGTGTGGGCT
1 TT-AGAAAGGGTTGCCACCGACTTGTGTGGGCT
* * * *
3541884 TTA-AAAGGGGTTGCCACCAAATTCTATGGGCT
1 TTAGAAA-GGGTTGCCACCGACTTGTGTGGGCT
*
3541916 TT-GAGAAGGGTTGCCACCAACTTGTGTGGGCT
1 TTAGA-AAGGGTTGCCACCGACTTGTGTGGGCT
* * * **
3541948 TTAG-AAGGGTTTCTATCGACTTGTGTAAGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
* * *
3541979 TTAGAAAAGGTTACCACCGACTTGTGTAGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
* ** *
3542011 TTAGAAGGGGTTGCCACTAACTTGTGTGGACT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
*
3542043 TTAGAAA-TGTTGCCACCGACTTAG-GTGGG-T
1 TTAGAAAGGGTTGCCACCGACTT-GTGTGGGCT
* **
3542073 TT-GAGAAGGGTTGCTACTAACTTGTGTGGGCT
1 TTAGA-AAGGGTTGCCACCGACTTGTGTGGGCT
* *
3542105 TTAG-AAGAGGTTGGCACTGACTTGTGTGGGCT
1 TTAGAAAG-GGTTGCCACCGACTTGTGTGGGCT
* *
3542137 TTAGAAGAGGGTTGCTACCGACTTATGTGGGCT
1 TTAGAA-AGGGTTGCCACCGACTTGTGTGGGCT
** * *
3542170 TT-GAGGGGGGTTGCTACCGACTTGTGTAGGCT
1 TTAGA-AAGGGTTGCCACCGACTTGTGTGGGCT
* * **
3542202 TT-GAGAAGGGTTGCCGCTGACTTACGTGGGCTT
1 TTAGA-AAGGGTTGCCACCGACTTGTGTGGGC-T
** * *
3542235 TCTAG-AAGGGTTGCCATAGAGTTGTGTGAGCT
1 T-TAGAAAGGGTTGCCACCGACTTGTGTGGGCT
* *
3542267 TTAG-AAGAGGTTACCACCGATTTGTGTGGGCT
1 TTAGAAAG-GGTTGCCACCGACTTGTGTGGGCT
3542299 TTGAGAAA-GGTTGCCACCGACTTGTGTGGGCT
1 TT-AGAAAGGGTTGCCACCGACTTGTGTGGGCT
** ** *
3542331 TTTTAAAGGGTTGCCACTAACTTGGGTGGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
* * *
3542363 TT-GAGA-GGTTGCCACTGACTTATGTGGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
*
3542393 TTAG-AAGGGTTGCCACTGACTTGTGTGGGCTTT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGC--T
* * **
3542426 TTAG-AGGGGCTGCCACTAACTTGTGTGGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
* *
3542457 TTAAAGAAGGGTTGCCACCAACTTGTGTGGGCT
1 TTAGA-AAGGGTTGCCACCGACTTGTGTGGGCT
* *
3542490 TTA-AAAAGGTTGCCATCGACTTGTGTGGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
* * *
3542521 TTAGAGAAGTGTTGCCATCAACTTGTGTGGGCT
1 TTAGA-AAGGGTTGCCACCGACTTGTGTGGGCT
* * * *
3542554 TTGGGAAGGGTTGCCACCGACTTGTATAGGCT
1 TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
*
3542586 TTAGAGAA-GGTTGCCACCGACTTATGTGGGCT
1 TTAGA-AAGGGTTGCCACCGACTTGTGTGGGCT
*
3542618 TTAG-AAGGGTTGCCACC-AGCTTATGTGGGCT
1 TTAGAAAGGGTTGCCACCGA-CTTGTGTGGGCT
*
3542649 TT-GAGAAGAGGTTGCCACCAACTTGTGTGGGCT
1 TTAGA-AAG-GGTTGCCACCGACTTGTGTGGGCT
*
3542682 TTAGAGAAGGGTTACCAC
1 TTAGA-AAGGGTTGCCAC
3542700 TAACCTTTTT
Statistics
Matches: 722, Mismatches: 117, Indels: 84
0.78 0.13 0.09
Matches are distributed among these distances:
29 2 0.00
30 34 0.05
31 156 0.22
32 303 0.42
33 210 0.29
34 16 0.02
35 1 0.00
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.31
Consensus pattern (32 bp):
TTAGAAAGGGTTGCCACCGACTTGTGTGGGCT
Found at i:3542798 original size:33 final size:33
Alignment explanation
Indices: 3542757--3542825 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
3542747 CTTGTGCAAG
** *
3542757 CTTTGAAGAAAACGGATGCCACTAGGTCATGGA
1 CTTTGAAGAAAAAAGATGCCACTAAGTCATGGA
3542790 CTTTGAAGAAAAAAGATGCCACTAAGTCATGGA
1 CTTTGAAGAAAAAAGATGCCACTAAGTCATGGA
3542823 CTT
1 CTT
3542826 GGAAAAAGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (33 bp):
CTTTGAAGAAAAAAGATGCCACTAAGTCATGGA
Found at i:3545386 original size:33 final size:33
Alignment explanation
Indices: 3545344--3545406 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
3545334 TATTATTCAT
3545344 AATGTATCGATACAAAGCAATTTGTATCGATAC
1 AATGTATCGATACAAAGCAATTTGTATCGATAC
**
3545377 AATGTATCGATACTTAGCAATTTGTATCGA
1 AATGTATCGATACAAAGCAATTTGTATCGA
3545407 AACATCTGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (33 bp):
AATGTATCGATACAAAGCAATTTGTATCGATAC
Found at i:3545534 original size:22 final size:22
Alignment explanation
Indices: 3545509--3545551 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3545499 TACATCATGT
*
3545509 ATTTTTTACTTGAAAAACATTG
1 ATTTATTACTTGAAAAACATTG
* *
3545531 ATTTATTGCTTGAAATACATT
1 ATTTATTACTTGAAAAACATT
3545552 TAGACTTGTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (22 bp):
ATTTATTACTTGAAAAACATTG
Found at i:3547003 original size:20 final size:20
Alignment explanation
Indices: 3546978--3547068 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 20
3546968 AAAAGTCACA
3546978 TTTTCAATGTATCGATACAT
1 TTTTCAATGTATCGATACAT
* *
3546998 TTTTCAATGCATCAATACATTCTGT
1 TTTTCAATGTATCGATACA-----T
3547023 CTTTTACCCAGATGTATCGATACAT
1 -TTTT---CA-ATGTATCGATACAT
3547048 TTTTCAATGTATCGATACAT
1 TTTTCAATGTATCGATACAT
3547068 T
1 T
3547069 CTATCTTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
20 32 0.56
21 2 0.04
24 4 0.07
25 2 0.04
26 4 0.07
29 2 0.04
30 11 0.19
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (20 bp):
TTTTCAATGTATCGATACAT
Found at i:3547042 original size:50 final size:51
Alignment explanation
Indices: 3546984--3547099 Score: 189
Period size: 50 Copynumber: 2.3 Consensus size: 51
3546974 CACATTTTCA
*
3546984 ATGTATCGATACATTTTTCAATGCATCAATACATTCTGTC-TTTTACCCAG
1 ATGTATCGATACATTTTTCAATGCATCAATACATTCTATCTTTTTACCCAG
* *
3547034 ATGTATCGATACATTTTTCAATGTATCGATACATTCTATCTTTTTACCCAG
1 ATGTATCGATACATTTTTCAATGCATCAATACATTCTATCTTTTTACCCAG
*
3547085 ACGTATCGATACATT
1 ATGTATCGATACATT
3547100 GAAAAATGTA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 37 0.61
51 24 0.39
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (51 bp):
ATGTATCGATACATTTTTCAATGCATCAATACATTCTATCTTTTTACCCAG
Found at i:3547108 original size:51 final size:50
Alignment explanation
Indices: 3547003--3547115 Score: 145
Period size: 51 Copynumber: 2.2 Consensus size: 50
3546993 TACATTTTTC
* * * * ****
3547003 AATGCATCAATACATTCTGTCTTTTACCCAGATGTATCGATACATTTTTC
1 AATGTATCGATACATTCTATCTTTTACCCAGACGTATCGATACATTGAAA
3547053 AATGTATCGATACATTCTATCTTTTTACCCAGACGTATCGATACATTGAAA
1 AATGTATCGATACATTCTATC-TTTTACCCAGACGTATCGATACATTGAAA
3547104 AATGTATCGATA
1 AATGTATCGATA
3547116 TATCTAGTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
50 18 0.33
51 36 0.67
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (50 bp):
AATGTATCGATACATTCTATCTTTTACCCAGACGTATCGATACATTGAAA
Found at i:3550504 original size:13 final size:13
Alignment explanation
Indices: 3550486--3550510 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3550476 CATAAAGTGT
3550486 TGTATCGATACAA
1 TGTATCGATACAA
3550499 TGTATCGATACA
1 TGTATCGATACA
3550511 TGTTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3550591 original size:13 final size:13
Alignment explanation
Indices: 3550573--3550597 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3550563 ATCACTTAAA
3550573 TGTATCGATACAT
1 TGTATCGATACAT
3550586 TGTATCGATACA
1 TGTATCGATACA
3550598 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3550650 original size:52 final size:52
Alignment explanation
Indices: 3550606--3550786 Score: 344
Period size: 52 Copynumber: 3.5 Consensus size: 52
3550596 CACTGATCTT
3550606 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3550658 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
3550710 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3550762 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3550787 TCATATTTCG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 127 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3554933 original size:10 final size:10
Alignment explanation
Indices: 3554918--3554944 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
3554908 TGCTAACTAA
3554918 GTTTTTGTTT
1 GTTTTTGTTT
3554928 GTTTTTGTTT
1 GTTTTTGTTT
3554938 GTTTTTG
1 GTTTTTG
3554945 CTTGATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (10 bp):
GTTTTTGTTT
Found at i:3564651 original size:1 final size:1
Alignment explanation
Indices: 3564640--3564752 Score: 100
Period size: 1 Copynumber: 113.0 Consensus size: 1
3564630 GGCGTCCTCC
* ** * ** * **
3564640 AAAACAAAAAAAAAATGAAAAAAAGAAAAACCAAAAAAAAAAAAAAAAAAACAAAAAAAAAGCAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
3564705 AAAAAAAAAAAAAAAACAAAAAACAATAAAAAAACAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3564753 GGGGGTCCGG
Statistics
Matches: 88, Mismatches: 24, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 88 1.00
ACGTcount: A:0.88, C:0.08, G:0.03, T:0.02
Consensus pattern (1 bp):
A
Found at i:3564674 original size:32 final size:31
Alignment explanation
Indices: 3564638--3564752 Score: 128
Period size: 30 Copynumber: 3.7 Consensus size: 31
3564628 ACGGCGTCCT
* *
3564638 CCAAAACAAAAAAAAAATGAAAA-AAAGAAAAA
1 CCAAAA-AAAAAAAAAA-AAAAACAAAAAAAAA
3564670 CCAAAAAAAAAAAAAAAAAAACAAAAAAAAA
1 CCAAAAAAAAAAAAAAAAAAACAAAAAAAAA
* *
3564701 GC-AAAAAAAAAAAAAAAAAACAAAAAACAA
1 CCAAAAAAAAAAAAAAAAAAACAAAAAAAAA
*
3564731 -TAAAAAAACAAACAAAAAAAAA
1 CCAAAAAAA-AAA-AAAAAAAAA
3564753 GGGGGTCCGG
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
30 37 0.50
31 22 0.30
32 15 0.20
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.02
Consensus pattern (31 bp):
CCAAAAAAAAAAAAAAAAAAACAAAAAAAAA
Found at i:3564681 original size:30 final size:26
Alignment explanation
Indices: 3564640--3564752 Score: 120
Period size: 28 Copynumber: 4.1 Consensus size: 26
3564630 GGCGTCCTCC
3564640 AAAACAAAAAAAAAATGAAAAAAAGAAAA
1 AAAACAAAAAAAAAA--AAAAAAA-AAAA
3564669 ACCAAA-AAAAAAAAAAAAAAAACAAAAA
1 A--AAACAAAAAAAAAAAAAAAA-AAAAA
*
3564697 AAAAGCAAAAAAAAAAAAAAAAAACAA
1 AAAA-CAAAAAAAAAAAAAAAAAAAAA
* * *
3564724 AAAACAATAAAAAAACAAACAAAAAA
1 AAAACAAAAAAAAAAAAAAAAAAAAA
3564750 AAA
1 AAA
3564753 GGGGGTCCGG
Statistics
Matches: 74, Mismatches: 5, Indels: 13
0.80 0.05 0.14
Matches are distributed among these distances:
26 24 0.32
27 8 0.11
28 27 0.36
29 2 0.03
30 10 0.14
31 3 0.04
ACGTcount: A:0.88, C:0.08, G:0.03, T:0.02
Consensus pattern (26 bp):
AAAACAAAAAAAAAAAAAAAAAAAAA
Found at i:3564698 original size:37 final size:36
Alignment explanation
Indices: 3564640--3564752 Score: 133
Period size: 36 Copynumber: 3.1 Consensus size: 36
3564630 GGCGTCCTCC
* **
3564640 AAAACAAAAAAAAAA-TGAAAAAAAGAAAAACCAAAA
1 AAAAAAAAAAAAAAACAAAAAAAAAGAAAAA-CAAAA
3564676 AAAAAAAAAAAAAAACAAAAAAAAAGCAAAAA-AAAA
1 AAAAAAAAAAAAAAACAAAAAAAAAG-AAAAACAAAA
* *
3564712 AAAAAAAAACAAAAAACAATAAAAAA-ACAAACAAAA
1 AAAAAAAAA-AAAAAACAAAAAAAAAGAAAAACAAAA
3564748 AAAAA
1 AAAAA
3564753 GGGGGTCCGG
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
35 4 0.06
36 36 0.53
37 23 0.34
38 5 0.07
ACGTcount: A:0.88, C:0.08, G:0.03, T:0.02
Consensus pattern (36 bp):
AAAAAAAAAAAAAAACAAAAAAAAAGAAAAACAAAA
Found at i:3566233 original size:29 final size:29
Alignment explanation
Indices: 3566194--3566544 Score: 250
Period size: 30 Copynumber: 11.9 Consensus size: 29
3566184 TCACCCTTCA
* *
3566194 AAAGTCCACAAGTCAGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
3566223 AAAGCCCACAAGTCAGTGGCATTTTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* *
3566253 GAAAGCCCACAAGTCAGTGGCAAC--CTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
3566281 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * *
3566311 GAAGCCCACAAGTCGGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
3566340 AAAGTCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * * *
3566370 TTTTGTAAGCTCACAACTCTA-TAGCA-CTCTTTTC
1 -----AAAGCCCACAAGTC-AGTGGCATCT-TTTTC
*
3566404 --AGCCCACAAGTCAGTGGCATATTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * **
3566431 AAAAGCCCACAAGTCAGTGGCAACCTTTAA
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
3566461 AAAGCCCACAAGTCAGTGGCAAC--CTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
3566488 AAAGCCCACAAATCAGTGGCACCCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * * *
3566518 GAAGCCCACAAATCGGTGGCACCTTTT
1 AAAGCCCACAAGTCAGTGGCATCTTTT
3566545 CCATCTTTAA
Statistics
Matches: 262, Mismatches: 39, Indels: 42
0.76 0.11 0.12
Matches are distributed among these distances:
26 1 0.00
27 60 0.23
28 6 0.02
29 73 0.28
30 79 0.30
31 21 0.08
33 2 0.01
34 5 0.02
35 15 0.06
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTTC
Found at i:3566296 original size:27 final size:27
Alignment explanation
Indices: 3566254--3566306 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
3566244 TTTTTTTTCG
*
3566254 AAAGCCCACAAGTCAGTGGCAACCTTC
1 AAAGCCCACAAATCAGTGGCAACCTTC
*
3566281 AAAGCCCACAAATCAGTGGCACCCTT
1 AAAGCCCACAAATCAGTGGCAACCTT
3566307 TTCCGAAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.34, C:0.34, G:0.17, T:0.15
Consensus pattern (27 bp):
AAAGCCCACAAATCAGTGGCAACCTTC
Found at i:3566480 original size:121 final size:117
Alignment explanation
Indices: 3566190--3566481 Score: 291
Period size: 121 Copynumber: 2.5 Consensus size: 117
3566180 TTCATCACCC
* * *
3566190 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCAGTGGCATTTTTTTTCGA
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTACAAAGCCCACAAGTCAGTGGCATTTTTTTTCGA
* * *
3566255 AAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTT
66 AAGCCCACAACTCAGTAGCAACCTTCAAAGCCCACAAATCAGTGGCACACTT
** * * * * *
3566307 TTCCGAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTTTTCTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTACAAAGCCCACAAGTCAGTGGCA---TTTTT-TT
* * * *** * * *
3566372 TTGTAAGCTCACAACTCTA-TAGC-ACTCTTTTCAGCCCACAAGTCAGTGGCATATTT
62 TCGAAAGCCCACAACTC-AGTAGCAAC-CTTCAAAGCCCACAAATCAGTGGCACACTT
* * *
3566428 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAAGCCCACAAGTCAGTGGCA
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTACAAAGCCCACAAGTCAGTGGCA
3566482 ACCTTCAAAG
Statistics
Matches: 138, Mismatches: 31, Indels: 8
0.78 0.18 0.05
Matches are distributed among these distances:
117 45 0.33
120 7 0.05
121 85 0.62
122 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (117 bp):
TTCAAAAGCCCACAAGTCAGTGGCATCTTTTACAAAGCCCACAAGTCAGTGGCATTTTTTTTCGA
AAGCCCACAACTCAGTAGCAACCTTCAAAGCCCACAAATCAGTGGCACACTT
Found at i:3566507 original size:56 final size:59
Alignment explanation
Indices: 3566404--3566514 Score: 165
Period size: 56 Copynumber: 1.9 Consensus size: 59
3566394 CACTCTTTTC
** *
3566404 AGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAA
1 AGCCCACAAGTCAGTGGCATATCCTTCAAAAGCCCACAAATCAGTGGCAACCTTTAAAA
*
3566463 AGCCCACAAGTCAGTGGCA-A-CCTTC-AAAGCCCACAAATCAGTGGCACCCTTT
1 AGCCCACAAGTCAGTGGCATATCCTTCAAAAGCCCACAAATCAGTGGCAACCTTT
3566515 TTCGAAGCCC
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
56 25 0.52
57 3 0.06
58 1 0.02
59 19 0.40
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (59 bp):
AGCCCACAAGTCAGTGGCATATCCTTCAAAAGCCCACAAATCAGTGGCAACCTTTAAAA
Found at i:3566542 original size:56 final size:56
Alignment explanation
Indices: 3566404--3566542 Score: 145
Period size: 56 Copynumber: 2.4 Consensus size: 56
3566394 CACTCTTTTC
* ** *
3566404 AGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAA
1 AGCCCACAAATCAGTGGCA-A-CCTTC-AAAGCCCACAAATCAGTGGCAACCTTTAAAA
* * ***
3566463 AGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTTCGA
1 AGCCCACAAATCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCAACC-TTTAAAA
*
3566520 AGCCCACAAATCGGTGGC-ACCTT
1 AGCCCACAAATCAGTGGCAACCTT
3566543 TTCCATCTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
56 27 0.39
57 23 0.33
58 1 0.01
59 19 0.27
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (56 bp):
AGCCCACAAATCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCAACCTTTAAAA
Found at i:3566591 original size:52 final size:52
Alignment explanation
Indices: 3566534--3566692 Score: 192
Period size: 52 Copynumber: 3.2 Consensus size: 52
3566524 CACAAATCGG
* *
3566534 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCCGACCTTGAATCAGCACAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* *
3566586 TGGCA-------C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
*
3566629 TGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
*
3566681 TGACATCCTTTT
1 TGGCA-CCTTTT
3566693 TCTCAGCTTT
Statistics
Matches: 89, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
43 38 0.43
45 1 0.01
50 1 0.01
52 43 0.48
53 6 0.07
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (52 bp):
TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
Found at i:3566617 original size:43 final size:43
Alignment explanation
Indices: 3566549--3566638 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
3566539 CCTTTTCCAT
*
3566549 CTTTAAGTCCAATGTAGCCGACCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
* * *
3566592 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
3566635 CTTT
1 CTTT
3566639 TCCATCTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
Found at i:3567595 original size:13 final size:13
Alignment explanation
Indices: 3567577--3567601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3567567 CATAAAGTGT
3567577 TGTATCGATACAA
1 TGTATCGATACAA
3567590 TGTATCGATACA
1 TGTATCGATACA
3567602 TGTTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3567682 original size:13 final size:13
Alignment explanation
Indices: 3567664--3567688 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3567654 ATCACTTAAA
3567664 TGTATCGATACAT
1 TGTATCGATACAT
3567677 TGTATCGATACA
1 TGTATCGATACA
3567689 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3567741 original size:52 final size:52
Alignment explanation
Indices: 3567697--3567877 Score: 344
Period size: 52 Copynumber: 3.5 Consensus size: 52
3567687 CACTGATCTT
3567697 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3567749 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
3567801 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
3567853 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3567878 TCATATTTCG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 127 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:3576959 original size:79 final size:79
Alignment explanation
Indices: 3576805--3577405 Score: 457
Period size: 79 Copynumber: 7.6 Consensus size: 79
3576795 TTTTGGAAAT
* ** * * * *
3576805 GGGGTTGGAGTATCCCCGATGGTAAAAAATCGATGTTTCGGAAACAAAATCGAGGTTAGAGTATC
1 GGGGTTAGAGTATCCCCGATGGTGGAAAATCAATGTTTTGGAAATAAAATCGAGGTTGGAGTATC
*
3576870 C-CTTCAAAAATAAC
66 CTC-TCGAAAATAAC
* * * * * *
3576884 GGTGTTAGAGTATCACCGATTGTGGAAAATCAATGTGTTGGAAATAAAATCGAGGTTGGATTTTC
1 GGGGTTAGAGTATCCCCGATGGTGGAAAATCAATGTTTTGGAAATAAAATCGAGGTTGGAGTATC
3576949 CTCTCGAAAATAAC
66 CTCTCGAAAATAAC
* ** * *
3576963 GGGGTT-GAAGTATCCCCGATGGTAGAAAATTGATGTTTTAGAAATAAAATCGGGGTT-GAGGTA
1 GGGGTTAG-AGTATCCCCGATGGTGGAAAATCAATGTTTTGGAAATAAAATCGAGGTTGGA-GTA
* *
3577026 T-CTCTTTGAAAATAAT
64 TCCTC-TCGAAAATAAC
* * * * *
3577042 GGGGTTAGAGTATCCTCGATTGTGGAAAATCAGTATTTTGGAAA-AAAA-CTAGGGTTGGAGTAT
1 GGGGTTAGAGTATCCCCGATGGTGGAAAATCAATGTTTTGGAAATAAAATCGA-GGTTGGAGTAT
*
3577105 -CTCCTGGAAAATAAC
65 CCT-CTCGAAAATAAC
* * ** * * * *
3577120 GGGGTTGGAGTATCCCCAATGGTGGAAAATCGGTGCTTTAGAAAAAAAATCGAGGATGGAGTATC
1 GGGGTTAGAGTATCCCCGATGGTGGAAAATCAATGTTTTGGAAATAAAATCGAGGTTGGAGTATC
* * *
3577185 CCCTCGGAAATAAT
66 CTCTCGAAAATAAC
* * * * * * *
3577199 GGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTGAAAATAAAATTGAGGTTGGAGTATC
1 GGGGTTAGAGTATCCCCGATGGTGGAAAATCAATGTTTTGGAAATAAAATCGAGGTTGGAGTATC
*
3577264 CTCTC-ATAAATAAT
66 CTCTCGA-AAATAAC
* * *** * * * * **
3577278 AGGGTTGGAGTATCTAGGATGGTGAAAAATTGGAA--TTTTAGAAATAAAACCGAGGTTAAAGTA
1 GGGGTTAGAGTATCCCCGATGGTGGAAAA-T-CAATGTTTTGGAAATAAAATCGAGGTTGGAGTA
* *
3577341 TCCCCTCAAAAATAAC
64 TCCTCTCGAAAATAAC
* * ** * **
3577357 GGGGTTGGAGTATCCTCGATTATGGAAAATCAGTGTTTTACAAATAAAA
1 GGGGTTAGAGTATCCCCGATGGTGGAAAATCAATGTTTTGGAAATAAAA
3577406 ACATGAGTGA
Statistics
Matches: 414, Mismatches: 91, Indels: 34
0.77 0.17 0.06
Matches are distributed among these distances:
77 2 0.00
78 66 0.16
79 338 0.82
80 7 0.02
81 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (79 bp):
GGGGTTAGAGTATCCCCGATGGTGGAAAATCAATGTTTTGGAAATAAAATCGAGGTTGGAGTATC
CTCTCGAAAATAAC
Found at i:3576967 original size:158 final size:157
Alignment explanation
Indices: 3576805--3577405 Score: 622
Period size: 158 Copynumber: 3.8 Consensus size: 157
3576795 TTTTGGAAAT
* *
3576805 GGGGTTGGAGTATCCCCGATGGTAAAAAATCGATGTTTCGGAAACAAAATCGAGGTTAGAGTATC
1 GGGGTTGGAGTATCCCCGATGGTAAAAAATCGATGTTT-AGAAATAAAATCGAGGTTAGAGTATC
* * * * *
3576870 CCTTCAAAAATAACGGTGTTAGAGTATCAC-CGATTGTGGAAAATCAATGTGTTGGAAATAAAAT
65 CCCTCAAAAATAACGGGGTTAGAGTATC-CTCGATTGTGGAAAATCAGTATTTTGGAAATAAAAT
* *
3576934 CGAGGTTGGATTTTCCTCTCGAAAATAAC
129 CGAGGTTGGAGTATCCTCTCGAAAATAAC
* * * *
3576963 GGGGTTGAAGTATCCCCGATGGTAGAAAATTGATGTTTTAGAAATAAAATCGGGGTT-GAGGTAT
1 GGGGTTGGAGTATCCCCGATGGTAAAAAATCGATG-TTTAGAAATAAAATCGAGGTTAGA-GTAT
* * ** *
3577027 CTCTTTGAAAATAATGGGGTTAGAGTATCCTCGATTGTGGAAAATCAGTATTTTGGAAA-AAAA-
64 CCCCTCAAAAATAACGGGGTTAGAGTATCCTCGATTGTGGAAAATCAGTATTTTGGAAATAAAAT
* *
3577090 CTAGGGTTGGAGTAT-CTCCTGGAAAATAAC
129 CGA-GGTTGGAGTATCCT-CTCGAAAATAAC
* ** * * * *
3577120 GGGGTTGGAGTATCCCCAATGGTGGAAAATCGGTGCTTTAGAAAAAAAATCGAGGATGGAGTATC
1 GGGGTTGGAGTATCCCCGATGGTAAAAAATCGATG-TTTAGAAATAAAATCGAGGTTAGAGTATC
** * * * * * *
3577185 CCCTCGGAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTGAAAATAAAATT
65 CCCTCAAAAATAACGGGGTTAGAGTATCCTCGATTGTGGAAAATCAGTATTTTGGAAATAAAATC
*
3577250 GAGGTTGGAGTATCCTCTC-ATAAATAAT
130 GAGGTTGGAGTATCCTCTCGA-AAATAAC
* *** * * * *
3577278 AGGGTTGGAGTATCTAGGATGGTGAAAAATTGGAAT-TTTAGAAATAAAACCGAGGTTAAAGTAT
1 GGGGTTGGAGTATCCCCGATGGT-AAAAAATCG-ATGTTTAGAAATAAAATCGAGGTTAGAGTAT
* * * **
3577342 CCCCTCAAAAATAACGGGGTTGGAGTATCCTCGATTATGGAAAATCAGTGTTTTACAAATAAAA
64 CCCCTCAAAAATAACGGGGTTAGAGTATCCTCGATTGTGGAAAATCAGTATTTTGGAAATAAAA
3577406 ACATGAGTGA
Statistics
Matches: 368, Mismatches: 63, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
156 4 0.01
157 131 0.36
158 221 0.60
159 11 0.03
160 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (157 bp):
GGGGTTGGAGTATCCCCGATGGTAAAAAATCGATGTTTAGAAATAAAATCGAGGTTAGAGTATCC
CCTCAAAAATAACGGGGTTAGAGTATCCTCGATTGTGGAAAATCAGTATTTTGGAAATAAAATCG
AGGTTGGAGTATCCTCTCGAAAATAAC
Found at i:3577277 original size:236 final size:237
Alignment explanation
Indices: 3576856--3577371 Score: 544
Period size: 236 Copynumber: 2.2 Consensus size: 237
3576846 AAACAAAATC
* * * * * * *
3576856 GAGGTTAGAGTATCCCTTCAAAAATAACGGTGTTAGAGTATCACCGATTGTGGAAAATCAATGTG
1 GAGGTTAAAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCAATGGTGGAAAATCAATGTG
* * * * * *
3576921 TTGGAAATAAAATCGAGGTTGGATTTTCCTCTCGAAAATAACGGGGTTGAAGTATCCCCGATGGT
66 TTAGAAAAAAAATCGAGGATGGAGTATCCCCTCGAAAATAACGGGGTTGAAGTATCCCCGATGGT
* * * * * * *
3576986 AGAAAATTGATGTTTTAGAAATAAAATCGGGGTTGAGGTATCTCTTTGAAAATAATGGGGTTAGA
131 AGAAAAATCATATTTTAGAAATAAAATCGAGGTTGAGGTATCTCTCTCAAAATAATAGGGTTAGA
* * * *
3577051 GTATCCT-CGATTGTGGAAAATCAGTATTTTGGAAA-AAAACTA
196 GTAT-CTACGATGGTGAAAAATCAGAATTTTAGAAATAAAAC-A
** * ** **
3577093 G-GGTTGGAGTATCTCCTGGAAAATAACGGGGTTGGAGTATCCCCAATGGTGGAAAATCGGTGCT
1 GAGGTTAAAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCAATGGTGGAAAATCAATG-T
* * * *
3577157 -TTAGAAAAAAAATCGAGGATGGAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCCCGATTG
65 GTTAGAAAAAAAATCGAGGATGGAGTATCCCCTCGAAAATAACGGGGTTGAAGTATCCCCGATGG
*
3577221 T-GAAAAATCAGTATTTT-GAAAATAAAATTGAGGTTG-GAGTATC-CTCTCATAAATAATAGGG
130 TAGAAAAATCA-TATTTTAG-AAATAAAATCGAGGTTGAG-GTATCTCTCTCA-AAATAATAGGG
* * ** *
3577282 TTGGAGTATCTAGGATGGTGAAAAATTGGAATTTTAGAAATAAAACC
191 TTAGAGTATCTACGATGGTGAAAAATCAGAATTTTAGAAATAAAACA
3577329 GAGGTTAAAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCC
1 GAGGTTAAAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCC
3577372 TCGATTATGG
Statistics
Matches: 227, Mismatches: 44, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
235 15 0.07
236 169 0.74
237 43 0.19
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (237 bp):
GAGGTTAAAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCAATGGTGGAAAATCAATGTG
TTAGAAAAAAAATCGAGGATGGAGTATCCCCTCGAAAATAACGGGGTTGAAGTATCCCCGATGGT
AGAAAAATCATATTTTAGAAATAAAATCGAGGTTGAGGTATCTCTCTCAAAATAATAGGGTTAGA
GTATCTACGATGGTGAAAAATCAGAATTTTAGAAATAAAACA
Found at i:3577377 original size:315 final size:315
Alignment explanation
Indices: 3576805--3577395 Score: 740
Period size: 315 Copynumber: 1.9 Consensus size: 315
3576795 TTTTGGAAAT
* * * *
3576805 GGGGTTGGAGTATCCCCGATGGTAAAAAATCGATGTTTCGGAAACAAAATCGAGGTTAGAGTATC
1 GGGGTTGGAGTATCCCCAATGGTAAAAAATCGATGTTTCAGAAAAAAAATCGAGGATAGAGTATC
* * * * *
3576870 CCTTCAAAAATAACGGTGTTAGAGTATCACCGATTGTGGAAAATCAATGTGTTGGAAATAAAATC
66 CCCTCAAAAATAACGGGGTTAGAGTATCACCGATTGTGAAAAATCAATATGTTGAAAATAAAATC
* * * * *
3576935 GAGGTTGGATTTTCCTCTCGAAAATAACGGGGTTGAAGTATCCCCGATGGTAGAAAATTGATGTT
131 GAGGTTGGAGTATCCTCTCGAAAATAACAGGGTTGAAGTATCCACGATGGTAGAAAATTGATATT
* * * * * * ** * *
3577000 TTAGAAATAAAATCGGGGTTGAGGTATCTCTTTGAAAATAATGGGGTTAGAGTATCCTCGATTGT
196 TTAGAAATAAAACCGAGGTTAAAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCTCGATTAT
3577065 GGAAAATCAGTATTTTGGAAAAAAACTAGGGTTGGAGTATCTCCTGGAAAATAAC
261 GGAAAATCAGTATTTTGGAAAAAAACTAGGGTTGGAGTATCTCCTGGAAAATAAC
** * *
3577120 GGGGTTGGAGTATCCCCAATGGTGGAAAATCGGTGCTTT-AGAAAAAAAATCGAGGATGGAGTAT
1 GGGGTTGGAGTATCCCCAATGGTAAAAAATCGATG-TTTCAGAAAAAAAATCGAGGATAGAGTAT
** * * * * *
3577184 CCCCTCGGAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTATTTTGAAAATAAAAT
65 CCCCTCAAAAATAACGGGGTTAGAGTATCACCGATTGTGAAAAATCAATATGTTGAAAATAAAAT
* * * * *
3577249 TGAGGTTGGAGTATCCTCTC-ATAAATAATAGGGTTGGAGTATCTAGGATGGT-GAAAAATTGGA
130 CGAGGTTGGAGTATCCTCTCGA-AAATAACAGGGTTGAAGTATCCACGATGGTAG-AAAATT-GA
*
3577312 -ATTTTAGAAATAAAACCGAGGTTAAAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTCGA
192 TATTTTAGAAATAAAACCGAGGTTAAAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCTCGA
*
3577376 TTATGGAAAATCAGTGTTTT
257 TTATGGAAAATCAGTATTTT
3577396 ACAAATAAAA
Statistics
Matches: 230, Mismatches: 42, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
314 2 0.01
315 223 0.97
316 5 0.02
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (315 bp):
GGGGTTGGAGTATCCCCAATGGTAAAAAATCGATGTTTCAGAAAAAAAATCGAGGATAGAGTATC
CCCTCAAAAATAACGGGGTTAGAGTATCACCGATTGTGAAAAATCAATATGTTGAAAATAAAATC
GAGGTTGGAGTATCCTCTCGAAAATAACAGGGTTGAAGTATCCACGATGGTAGAAAATTGATATT
TTAGAAATAAAACCGAGGTTAAAGTATCCCCTCAAAAATAACGGGGTTAGAGTATCCTCGATTAT
GGAAAATCAGTATTTTGGAAAAAAACTAGGGTTGGAGTATCTCCTGGAAAATAAC
Found at i:3580347 original size:34 final size:34
Alignment explanation
Indices: 3580306--3580370 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
3580296 AAAGAAGGGG
*** *
3580306 CGTCCTACTCTTTGGGGATAAAGGAAAAAGAGTA
1 CGTCCTACTCTTCAAGGACAAAGGAAAAAGAGTA
3580340 CGTCCTACTCTTCAAGGACAAAGGAAAAAGA
1 CGTCCTACTCTTCAAGGACAAAGGAAAAAGA
3580371 ATGAAATGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.20
Consensus pattern (34 bp):
CGTCCTACTCTTCAAGGACAAAGGAAAAAGAGTA
Found at i:3580475 original size:42 final size:41
Alignment explanation
Indices: 3580416--3580594 Score: 186
Period size: 42 Copynumber: 4.3 Consensus size: 41
3580406 AAGGAATATA
3580416 TCCTGCTCTTTGAGGACAAAGGAAAAAAGAAACTAAAGTGTG
1 TCCTGCTCTTTGAGGACAAAGGAAAAAAGAAA-TAAAGTGTG
* ***
3580458 TCCTGTTCTTTGAGGACAATCTAAAAGAAGAAAATTAAA-TGTG
1 TCCTGCTCTTTGAGGACAAAGGAAAA-AAG-AAA-TAAAGTGTG
* * * *
3580501 TCATGCTC-TTGAGGATAAAGGAGAAAAGGAAATAAAGTGCG
1 TCCTGCTCTTTGAGGACAAAGGA-AAAAAGAAATAAAGTGTG
3580542 TCCTGCTCTTTGAGGACAAA--AAGAAAAGGAAATAAAGTGTG
1 TCCTGCTCTTTGAGGACAAAGGAA-AAAA-GAAATAAAGTGTG
*
3580583 TGCTGCTCTTTG
1 TCCTGCTCTTTG
3580595 GAGACTAAAA
Statistics
Matches: 112, Mismatches: 18, Indels: 15
0.77 0.12 0.10
Matches are distributed among these distances:
39 1 0.01
40 8 0.07
41 36 0.32
42 44 0.39
43 16 0.14
44 7 0.06
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (41 bp):
TCCTGCTCTTTGAGGACAAAGGAAAAAAGAAATAAAGTGTG
Found at i:3580551 original size:41 final size:43
Alignment explanation
Indices: 3580416--3580594 Score: 190
Period size: 41 Copynumber: 4.3 Consensus size: 43
3580406 AAGGAATATA
*
3580416 TCCTGCTCTTTGAGGACAAAGGA-AAAAAGAAACTAAAGTGTG
1 TCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAACTAAAGTGTG
* *** * * *
3580458 TCCTGTTCTTTGAGGACAATCTAAAAGAAGAAAATTAAA-TGTG
1 TCCTGCTCTTTGAGGACAAAGGAGAA-AAGGAAACTAAAGTGTG
* * *
3580501 TCATGCTC-TTGAGGATAAAGGAGAAAAGGAAA-TAAAGTGCG
1 TCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAACTAAAGTGTG
*
3580542 TCCTGCTCTTTGAGGACAAA-AAGAAAAGGAAA-TAAAGTGTG
1 TCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAACTAAAGTGTG
*
3580583 TGCTGCTCTTTG
1 TCCTGCTCTTTG
3580595 GAGACTAAAA
Statistics
Matches: 112, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
40 4 0.04
41 46 0.41
42 41 0.37
43 12 0.11
44 9 0.08
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (43 bp):
TCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAACTAAAGTGTG
Found at i:3580690 original size:61 final size:59
Alignment explanation
Indices: 3580586--3581216 Score: 292
Period size: 61 Copynumber: 10.4 Consensus size: 59
3580576 AAGTGTGTGC
* * * * * **
3580586 TGCTCTTTG-GAGACTAAAAGGTGCCACCAACATGTATGGGCTTTGCAAGGAGAAAACATCA
1 TGCTCTTTGAG-GACTAGAAGGTGCCACTAACTTGTGTGCGCTTT--AAAAAGAAAACATCA
*
3580647 TGCTCTTTGAGGACTAGAAGGTGCCACTAACTTGTGTGCGCTTTAAAAAGAAAACATCC
1 TGCTCTTTGAGGACTAGAAGGTGCCACTAACTTGTGTGCGCTTTAAAAAGAAAACATCA
* ** *
3580706 TGCTCTTTGAGGACT-GAAAGGTGCCACTAACTTGTGTG-GCCTTTAAAAGGAAAAGGTGCCC
1 TGCTCTTTGAGGACTAG-AAGGTGCCACTAACTTGTGTGCG-CTTTAAAAAGAAAACAT--CA
* * * * * * * ** *
3580767 TACTCTTTGAAGACT-GAAATGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGTGTCC
1 TGCTCTTTGAGGACTAG-AAGGTGCCACTAACTTGTGTGCGCTTTAAAAAGAAAA--CATCA
* * * ** * * *
3580828 TACTCTTTCAGGACTA-AAGGGTGCCACCAACTCCTGTGGGCTTTGAAAAGAAAAAGGCATCC
1 TGCTCTTTGAGGACTAGAA-GGTGCCACTAACTTGTGTGCGCTTTAAAAAG-AAAA--CATCA
* * * * * * * * *
3580890 TACTCTTTGAGGACT-GAACGGTACCACCAACTTCTATGGGCTTTAAAAGGAAAAGGCGTCT
1 TGCTCTTTGAGGACTAGAA-GGTGCCACTAACTTGTGTGCGCTTTAAAAAGAAAA--CATCA
* * * * * * * * *
3580951 TGTTTTTTTAGGACT-GAAAGATGCCACCAACTTAG-GCGGGCTTTAAAAGGAAAAGACGTCCA
1 TGCTCTTTGAGGACTAG-AAGGTGCCACTAACTT-GTGTGCGCTTTAAAAAG-AAA-ACAT-CA
* * * * ** *
3581013 -GCTCTTTGAGGACTAAAAGGTGCCACCAACATGTGTGGGCTTTAACAGAA-AAGAAGTGTCC
1 TGCTCTTTGAGGACTAGAAGGTGCCACTAACTTGTGTGCGCTTTAA-A-AAGAA-AA-CATCA
* * * * * * *
3581074 TGCTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCC
1 TGCTCTTTGAGGACTAGAAGGTGCCACTAACTTGTGTGCGCTTTAAAAAG-AAA-ACATCA
* * * * * *
3581135 TGCTTTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAGGCATCC
1 TGCTCTTTGAGGACTAGAAGGTGCCACTAACTTGTGTGCGCTTTAAAAAGAAAA--CATCA
* *
3581196 TGCTCTTTGAGTACTGGAAGG
1 TGCTCTTTGAGGACTAGAAGG
3581217 ATAAAAGGTT
Statistics
Matches: 471, Mismatches: 70, Indels: 58
0.79 0.12 0.10
Matches are distributed among these distances:
58 2 0.00
59 63 0.13
60 7 0.01
61 286 0.61
62 109 0.23
63 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (59 bp):
TGCTCTTTGAGGACTAGAAGGTGCCACTAACTTGTGTGCGCTTTAAAAAGAAAACATCA
Found at i:3580907 original size:123 final size:121
Alignment explanation
Indices: 3580597--3581203 Score: 620
Period size: 123 Copynumber: 5.0 Consensus size: 121
3580587 GCTCTTTGGA
* * ** * * *
3580597 GACTAAAAGGTGCCACCAACATGTATGGGCTTTGCAAGGAGAAA-ACATCATGCTCTTTGAGGAC
1 GACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGACGTCCTACTCTTTGAGGAC
* * * * *
3580661 T-AGAAGGTGCCACTAACTTGTGTGCGCTTTAAAAAGAAAA--CATCCTGCTCTTTGAG
64 TGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTCAG
* * ** * *
3580717 GACTGAAAGGTGCCACTAACTTGTGTGGCCTTTAAAAGGAAAAGGTGCCCTACTCTTTGAAGACT
1 GACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTACTCTTTGAGGACT
* * * *
3580782 GAAATGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGTGTCCTACTCTTTCAG
65 GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTCAG
** * * *
3580839 GACTAAAGGGTGCCACCAACTCCTGTGGGCTTTGAAAAGAAAAAGGCATCCTACTCTTTGAGGAC
1 GACTAAA-GGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGACGTCCTACTCTTTGAGGAC
* * * * * * * *
3580904 TGAACGGTACCACCAACTTCTATGGGCTTTAAAAGGAAAAGGCGTCTTGTTTTTTTAG
64 TGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTCAG
* *
3580962 GACTGAAAGATGCCACCAACTTAG-GCGGGCTTTAAAAGGAAAAGACGTCC-AGCTCTTTGAGGA
1 GACT-AAAGGTGCCACCAACTT-GTGTGGGCTTTAAAAGGAAAAGACGTCCTA-CTCTTTGAGGA
* * * *
3581025 CTAAAAGGTGCCACCAACATGTGTGGGCTTTAACA-GAAAAGAAGTGTCCTGCTC-TTCGAG
63 CTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG--GCGTCCTGCTCTTTC-AG
* *
3581085 GACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTTTTTGAGGACT
1 GACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTACTCTTTGAGGACT
* *
3581150 AGAAA-GTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAGGCATCCTGCTCTTT
65 -GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTT
3581204 GAGTACTGGA
Statistics
Matches: 398, Mismatches: 72, Indels: 31
0.79 0.14 0.06
Matches are distributed among these distances:
119 3 0.01
120 79 0.20
121 11 0.03
122 102 0.26
123 191 0.48
124 12 0.03
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (121 bp):
GACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTACTCTTTGAGGACTG
AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTCAG
Found at i:3580978 original size:184 final size:179
Alignment explanation
Indices: 3580648--3581206 Score: 658
Period size: 184 Copynumber: 3.1 Consensus size: 179
3580638 AAAACATCAT
* *
3580648 GCTCTTTGAGGACTAGAAGGTGCCACTAACTTGTGTGCGCTTTAAAA-AGAAAA-CATCCTGCTC
1 GCTCTTTGAGGACTA-AAGGTGCCACCAAC-TGTGTGGGCTTTAAAAGA-AAAAGCATCCTGCTC
* * * * * *
3580711 TTTGAGGACTGAAAGGTGCCACTAACTTGTGTGGCCTTTAAAAGGAAAAGGTGCCCTACTCTTTG
63 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTTTTTG
* * *
3580776 AAGACTGAAATGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGTGTCCTA
128 AGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC-A
* * *
3580830 -CTCTTTCAGGACTAAAGGGTGCCACCAACTCCTGTGGGCTTTGAAAAGAAAAAGGCATCCTACT
1 GCTCTTTGAGGACTAAA-GGTGCCACCAACT-GTGTGGGCTTT-AAAAGAAAAA-GCATCCTGCT
* * * * * *
3580894 CTTTGAGGACTGAACGGTACCACCAACTTCTATGGGCTTTAAAAGGAAAAGGCGTCTTGTTTTTT
62 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTTTTT
* * *
3580959 TAGGACTGAAAGATGCCACCAACTTAG-GCGGGCTTTAAAAGGAAAAGACGTCCA
127 GAGGACTGAAAG-TGCCACCAACTT-GTGTGGGCTTTAAAAGGAAAAGGCGTCCA
* **
3581013 GCTCTTTGAGGACTAAAAGGTGCCACCAACATGTGTGGGCTTTAACAGAAAAGAAGTGTCCTGCT
1 GCTCTTTGAGGACT-AAAGGTGCCACCAAC-TGTGTGGGCTTTAAAAG-AAA-AAGCATCCTGCT
* * *
3581078 CTTCGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTTTTT
62 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTTTTT
* * *
3581143 GAGGACTAGAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAGGCATCCT
127 GAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCA
3581197 GCTCTTTGAG
1 GCTCTTTGAG
3581207 TACTGGAAGG
Statistics
Matches: 318, Mismatches: 44, Indels: 28
0.82 0.11 0.07
Matches are distributed among these distances:
180 3 0.01
181 33 0.10
182 8 0.03
183 8 0.03
184 254 0.80
185 12 0.04
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (179 bp):
GCTCTTTGAGGACTAAAGGTGCCACCAACTGTGTGGGCTTTAAAAGAAAAAGCATCCTGCTCTTT
GAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTTTTTGAGG
ACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCA
Found at i:3582196 original size:1 final size:1
Alignment explanation
Indices: 3582190--3582251 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
3582180 AAGTAGGTTC
* * * * * * * *
3582190 TTTTTTTCTCTTTTTTATTTTTTTCTTTTTTTGTTATTTTTTTATTTTGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3582252 GAAGAAAAAA
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.05, C:0.05, G:0.03, T:0.87
Consensus pattern (1 bp):
T
Found at i:3582212 original size:17 final size:19
Alignment explanation
Indices: 3582190--3582232 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
3582180 AAGTAGGTTC
3582190 TTTTTTTC-TCTTTT-TTA
1 TTTTTTTCTTCTTTTGTTA
*
3582207 TTTTTTTCTTTTTTTGTTA
1 TTTTTTTCTTCTTTTGTTA
3582226 TTTTTTT
1 TTTTTTT
3582233 ATTTTGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.35
18 5 0.22
19 10 0.43
ACGTcount: A:0.05, C:0.07, G:0.02, T:0.86
Consensus pattern (19 bp):
TTTTTTTCTTCTTTTGTTA
Found at i:3582220 original size:8 final size:8
Alignment explanation
Indices: 3582187--3582251 Score: 62
Period size: 8 Copynumber: 8.1 Consensus size: 8
3582177 CTTAAGTAGG
3582187 TTCTTTTT
1 TTCTTTTT
3582195 TTCTCTTTT
1 TTCT-TTTT
*
3582204 TTATTTTT
1 TTCTTTTT
3582212 TTCTTTTT
1 TTCTTTTT
*
3582220 TTGTTATTT
1 TTCTT-TTT
*
3582229 TT-TTATT
1 TTCTTTTT
*
3582236 TTGTTTTT
1 TTCTTTTT
3582244 TT-TTTTT
1 TTCTTTTT
3582251 T
1 T
3582252 GAAGAAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
7 10 0.20
8 27 0.55
9 12 0.24
ACGTcount: A:0.05, C:0.06, G:0.03, T:0.86
Consensus pattern (8 bp):
TTCTTTTT
Found at i:3582221 original size:16 final size:15
Alignment explanation
Indices: 3582190--3582251 Score: 70
Period size: 16 Copynumber: 3.9 Consensus size: 15
3582180 AAGTAGGTTC
*
3582190 TTTTTTTCTCTTTTTTA
1 TTTTTTT-T-TTTTTTG
3582207 TTTTTTTCTTTTTTTG
1 TTTTTTT-TTTTTTTG
*
3582223 TTATTTTTTTATTTTG
1 TT-TTTTTTTTTTTTG
3582239 TTTTTTTTTTTTT
1 TTTTTTTTTTTTT
3582252 GAAGAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
15 10 0.24
16 17 0.41
17 14 0.34
ACGTcount: A:0.05, C:0.05, G:0.03, T:0.87
Consensus pattern (15 bp):
TTTTTTTTTTTTTTG
Found at i:3583073 original size:20 final size:20
Alignment explanation
Indices: 3583048--3583087 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
3583038 GTGACATTGG
3583048 CATAAGATGCTGCCTCTACC
1 CATAAGATGCTGCCTCTACC
3583068 CATAAGATGCTGCCTCTACC
1 CATAAGATGCTGCCTCTACC
3583088 GAGGTCATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.35, G:0.15, T:0.25
Consensus pattern (20 bp):
CATAAGATGCTGCCTCTACC
Found at i:3583620 original size:584 final size:584
Alignment explanation
Indices: 3582512--3583651 Score: 2226
Period size: 584 Copynumber: 2.0 Consensus size: 584
3582502 ATTACCGAGG
*
3582512 GTGGACTTTTCTATCATGGGCCCTTATCATGTGCCTTTGATATAACTGCCCATGACAAATGGCTT
1 GTGGACTTTTCTATCATGGGCCCTTATCATGTGCCTTTGATACAACTGCCCATGACAAATGGCTT
3582577 TAATTCTTTTCTCCTCAATGAGATTAAGCTGGTCATATCGGTTCTTAACCCATTCGGCCTCCTCA
66 TAATTCTTTTCTCCTCAATGAGATTAAGCTGGTCATATCGGTTCTTAACCCATTCGGCCTCCTCA
* *
3582642 AGCTACGATTCCATCAATACCCTAAGTGAAGGGATTTCAACTTCGATTGGTAATATGGTTTCCAT
131 AGCTACGATTCCATCAAGACCCTAAGTGAAGGGATTTCAACTTCGATTGGTAATACGGTTTCCAT
3582707 GCCATAGACAAAGGAAAACGGGGCAGCACCCGTGGAAGTTCTTACTACTGTACGATATGCATGTA
196 GCCATAGACAAAGGAAAACGGGGCAGCACCCGTGGAAGTTCTTACTACTGTACGATATGCATGTA
3582772 AAGCAAAGGGCAACTTTTCATGCCAATCCTTATATGTCTCGGCCATCTTCTTGACTATCTTCTTA
261 AAGCAAAGGGCAACTTTTCATGCCAATCCTTATATGTCTCGGCCATCTTCTTGACTATCTTCTTA
*
3582837 ATATTCTTGTTGGCTGCTTCAATTGCCCTATTCATTTTTAGGCGGTACGGGATAAAGTTTCAATG
326 ATATTCTTGTTGGCTGCTTCAACTGCCCTATTCATTTTTAGGCGGTACGGGATAAAGTTTCAATG
3582902 TTGAATCCTGAATTAAGAGCAGACTTCTTGCATCAACTTATTTTTTAGATTACGTGCATTATAAG
391 TTGAATCCTGAATTAAGAGCAGACTTCTTGCATCAACTTATTTTTTAGATTACGTGCATTATAAG
*
3582967 TGATGATCTACTCGAAAGGACAATCTCTGCAAATAATGTCTCGTTTTACGAACTTACAAATGACT
456 TGATGATCTACTCGAAAGGACAATATCTGCAAATAATGTCTCGTTTTACGAACTTACAAATGACT
3583032 GACCTAGTGACATTGGCATAAGATGCTGCCTCTACCCATAAGATGCTGCCTCTACCGAGGTCAT
521 GACCTAGTGACATTGGCATAAGATGCTGCCTCTACCCATAAGATGCTGCCTCTACCGAGGTCAT
3583096 GTGGACTTTTCTATCATGGGCCCTTATCATGTGCCTTTGATACAACTGCCCATGACAAATGGCTT
1 GTGGACTTTTCTATCATGGGCCCTTATCATGTGCCTTTGATACAACTGCCCATGACAAATGGCTT
3583161 TAATTCTTTTCTCCTCAATGAGATTAAGCTGGTCATATCGGTTCTTAACCCATTCGGCCTCCTCA
66 TAATTCTTTTCTCCTCAATGAGATTAAGCTGGTCATATCGGTTCTTAACCCATTCGGCCTCCTCA
3583226 AGCTACGATTCCATCAAGACCCTAAGTGAAGGGATTTCAACTTCGATTGGTAATACGGTTTCCAT
131 AGCTACGATTCCATCAAGACCCTAAGTGAAGGGATTTCAACTTCGATTGGTAATACGGTTTCCAT
3583291 GCCATAGACAAAGGAAAACGGGGCAGCACCCGTGGAAGTTCTTACTACTGTACGATATGCATGTA
196 GCCATAGACAAAGGAAAACGGGGCAGCACCCGTGGAAGTTCTTACTACTGTACGATATGCATGTA
3583356 AAGCAAAGGGCAACTTTTCATGCCAATCCTTATATGTCTCGGCCATCTTCTTGACTATCTTCTTA
261 AAGCAAAGGGCAACTTTTCATGCCAATCCTTATATGTCTCGGCCATCTTCTTGACTATCTTCTTA
3583421 ATATTCTTGTTGGCTGCTTCAACTGCCCTATTCATTTTTAGGCGGTACGGGATAAAGTTTCAATG
326 ATATTCTTGTTGGCTGCTTCAACTGCCCTATTCATTTTTAGGCGGTACGGGATAAAGTTTCAATG
*
3583486 TTGAATCTTGAATTAAGAGCAGACTTCTTGCATCAACTTATTTTTTAGATTACGTGCATTATAAG
391 TTGAATCCTGAATTAAGAGCAGACTTCTTGCATCAACTTATTTTTTAGATTACGTGCATTATAAG
3583551 TGATGATCTACTCGAAAGGACAATATCTGCAAATAATGTCTCGTTTTACGAACTTACAAATGACT
456 TGATGATCTACTCGAAAGGACAATATCTGCAAATAATGTCTCGTTTTACGAACTTACAAATGACT
3583616 GACCTAGTGACATTGGCATAAGATGCTGCCTCTACC
521 GACCTAGTGACATTGGCATAAGATGCTGCCTCTACC
3583652 GAGGTCATGT
Statistics
Matches: 550, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
584 550 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (584 bp):
GTGGACTTTTCTATCATGGGCCCTTATCATGTGCCTTTGATACAACTGCCCATGACAAATGGCTT
TAATTCTTTTCTCCTCAATGAGATTAAGCTGGTCATATCGGTTCTTAACCCATTCGGCCTCCTCA
AGCTACGATTCCATCAAGACCCTAAGTGAAGGGATTTCAACTTCGATTGGTAATACGGTTTCCAT
GCCATAGACAAAGGAAAACGGGGCAGCACCCGTGGAAGTTCTTACTACTGTACGATATGCATGTA
AAGCAAAGGGCAACTTTTCATGCCAATCCTTATATGTCTCGGCCATCTTCTTGACTATCTTCTTA
ATATTCTTGTTGGCTGCTTCAACTGCCCTATTCATTTTTAGGCGGTACGGGATAAAGTTTCAATG
TTGAATCCTGAATTAAGAGCAGACTTCTTGCATCAACTTATTTTTTAGATTACGTGCATTATAAG
TGATGATCTACTCGAAAGGACAATATCTGCAAATAATGTCTCGTTTTACGAACTTACAAATGACT
GACCTAGTGACATTGGCATAAGATGCTGCCTCTACCCATAAGATGCTGCCTCTACCGAGGTCAT
Found at i:3594652 original size:51 final size:51
Alignment explanation
Indices: 3594564--3594661 Score: 128
Period size: 51 Copynumber: 1.9 Consensus size: 51
3594554 ACAATAACGA
* *
3594564 GGTTGGAGTATCTCCGATGGTGGAAAATCGATGTTTTGGAAACAAAAATTG
1 GGTTGGAGTATCTCCGATGGTGGAAAATAGATATTTTGGAAACAAAAATTG
* *
3594615 GGTTGGAGTATC-CTCGATTGTGGAAAATTAG-TATTTTGGAAATAAAA
1 GGTTGGAGTATCTC-CGATGGTGGAAAA-TAGATATTTTGGAAACAAAA
3594662 TCGAGGTTAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 1 0.02
51 38 0.93
52 2 0.05
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.32
Consensus pattern (51 bp):
GGTTGGAGTATCTCCGATGGTGGAAAATAGATATTTTGGAAACAAAAATTG
Found at i:3594768 original size:130 final size:129
Alignment explanation
Indices: 3594547--3594868 Score: 432
Period size: 130 Copynumber: 2.5 Consensus size: 129
3594537 GTTGGAGTAT
* * * *
3594547 CCCCTCGACAATAACGAGGTTGGAGTATCTCCGATGGTGGAAAATCGATGTTTTGGAAACAAAAA
1 CCCCTAGA-AATAACGAGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAA-AAAAA
** *
3594612 TTGGGTTGGAGTATCCTCGATTGTGGAAAATTAGTATTTTGGAAATAAAA-TCGAGGTTAGACTA
64 CAGGGTTGGAGTATCCTCGATTGTGGAAAATTAGTATTTTAGAAATAAAACT-GAGGTTAGACTA
3594676 TC
128 TC
* ** *
3594678 CCCCTAGAAATAACGAGGTTAGAGTATCCCCGATGGTTTAAAATCGATGTTTTAGAAATAAAACC
1 CCCCTAGAAATAACGAGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAA-AAAAAC
* * *
3594743 AGGGTTGGAGTATCCTCGATTGTGGAAAATTAGTATTTTAGAAATAAAACTGGGGTTGGAGTATC
65 AGGGTTGGAGTATCCTCGATTGTGGAAAATTAGTATTTTAGAAATAAAACTGAGGTTAGACTATC
* * * *
3594808 CCTC-AGAAATAATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAAAAAA
1 CCCCTAGAAATAACGAGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAAAAAA
3594869 TTGAGGTTGG
Statistics
Matches: 169, Mismatches: 21, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
128 4 0.02
129 47 0.28
130 110 0.65
131 8 0.05
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.28
Consensus pattern (129 bp):
CCCCTAGAAATAACGAGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAAAAAAACA
GGGTTGGAGTATCCTCGATTGTGGAAAATTAGTATTTTAGAAATAAAACTGAGGTTAGACTATC
Found at i:3594772 original size:51 final size:51
Alignment explanation
Indices: 3594694--3594809 Score: 135
Period size: 51 Copynumber: 2.3 Consensus size: 51
3594684 GAAATAACGA
* ** *
3594694 GGTTAGAGTATCCCCGATGGTTTAAAATCGA-TGTTTTAGAAATAAAACCAG
1 GGTTGGAGTATCCCCGATGGTGGAAAAT-GAGTATTTTAGAAATAAAACCAG
* * * **
3594745 GGTTGGAGTATCCTCGATTGTGGAAAATTAGTATTTTAGAAATAAAACTGG
1 GGTTGGAGTATCCCCGATGGTGGAAAATGAGTATTTTAGAAATAAAACCAG
3594796 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
3594810 TCAGAAATAA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 1 0.02
51 53 0.98
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATGGTGGAAAATGAGTATTTTAGAAATAAAACCAG
Found at i:3595062 original size:79 final size:79
Alignment explanation
Indices: 3594744--3595105 Score: 379
Period size: 79 Copynumber: 4.6 Consensus size: 79
3594734 AATAAAACCA
* * *
3594744 GGGTTGGAGTATCCTCGATTGTGGAAAATTAGTATTTTAGAAATAAAACTGGGGTTGGAGTAT-C
1 GGGTTGGAGTATCCCCGATGGTGGAAAATCAGTATTTTAGAAATAAAACTGGGGTTGGAGTATCC
*
3594808 CCTCAGAAATAATG
66 CCTCAGAAATAACG
* * * *
3594822 GGGTTGGAGTATCCCCGATGGTGAAAAATC-GATATTTTAGAAA-AAAATTGAGGTTGGTGTATC
1 GGGTTGGAGTATCCCCGATGGTGGAAAATCAG-TATTTTAGAAATAAAACTGGGGTTGGAGTATC
**
3594885 CCCTTGGAAATAACG
65 CCCTCAGAAATAACG
* * * * * * **
3594900 GGATTGGAGTATCCCCAATTGTGGAAAATTAGTGTTTTGGAAATAAAACAAGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATGGTGGAAAATCAGTATTTTAGAAATAAAACTGGGGTTGGAGTATCC
**
3594965 CCTCAGAAATAATA
66 CCTCAGAAATAACG
* * * *
3594979 GGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAGAAATATAACCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATGGTGGAAAATCAGTATTTTAGAAATAAAACTGGGGTTGGAGTATCC
* *
3595044 CCTTAAAAATAACG
66 CCTCAGAAATAACG
* * * * * * * * *
3595058 GGGTTAGAATTTTCCCGATTGTGAAAAATCAATGTTTTAAAAATAAAA
1 GGGTTGGAGTATCCCCGATGGTGGAAAATCAGTATTTTAGAAATAAAA
3595106 ACATGAATGA
Statistics
Matches: 231, Mismatches: 49, Indels: 7
0.80 0.17 0.02
Matches are distributed among these distances:
77 17 0.07
78 83 0.36
79 131 0.57
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCGATGGTGGAAAATCAGTATTTTAGAAATAAAACTGGGGTTGGAGTATCC
CCTCAGAAATAACG
Found at i:3595084 original size:157 final size:156
Alignment explanation
Indices: 3594753--3595105 Score: 445
Period size: 158 Copynumber: 2.2 Consensus size: 156
3594743 AGGGTTGGAG
* **
3594753 TATCCTCGATTGTGGAAAATTAGTATTTTAGAAATAAAACTGGGGTTGGAGTATCCCTCAGAAAT
1 TATCCCCGATTGTGGAAAATTAGTATTTTAGAAATAAAACAAGGGTTGGAGTATCCCTCAGAAAT
* ** *
3594818 AATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAAAAAATTGAGGTTGGTGTA
66 AATAGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAAAAAACCGAGGTTGGAGTA
** * *
3594883 TCCCCTTGGAAATAACGGGATTGGAG
131 TCCCCTTAAAAATAACGGGATTAGAA
* * *
3594909 TATCCCCAATTGTGGAAAATTAGTGTTTTGGAAATAAAACAAGGGTTGGAGTATCCCCTCAGAAA
1 TATCCCCGATTGTGGAAAATTAGTATTTTAGAAATAAAACAAGGGTTGGAGTAT-CCCTCAGAAA
* * * * *
3594974 TAATAGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAGAAATATAACCGGGGTTGGAG
65 TAATAGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAA-AAAACCGAGGTTGGAG
*
3595039 TATCCCCTTAAAAATAACGGGGTTAGAA
129 TATCCCCTTAAAAATAACGGGATTAGAA
* * * * * * *
3595067 TTTTCCCGATTGTGAAAAATCAATGTTTTAAAAATAAAA
1 TATCCCCGATTGTGGAAAATTAGTATTTTAGAAATAAAA
3595106 ACATGAATGA
Statistics
Matches: 167, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
156 48 0.29
157 54 0.32
158 65 0.39
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (156 bp):
TATCCCCGATTGTGGAAAATTAGTATTTTAGAAATAAAACAAGGGTTGGAGTATCCCTCAGAAAT
AATAGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATTTTAGAAAAAAACCGAGGTTGGAGTA
TCCCCTTAAAAATAACGGGATTAGAA
Found at i:3599204 original size:24 final size:24
Alignment explanation
Indices: 3599177--3599234 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 24
3599167 TGGTGAACCT
3599177 ATCGGACATCTCCTCGATGGTTTC
1 ATCGGACATCTCCTCGATGGTTTC
3599201 ATC-GACCATCTCCTCGATGGTTTC
1 ATCGGA-CATCTCCTCGATGGTTTC
*
3599225 ATCGGCCATC
1 ATCGGACATC
3599235 ATCTTAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 2 0.06
24 28 0.90
25 1 0.03
ACGTcount: A:0.17, C:0.33, G:0.19, T:0.31
Consensus pattern (24 bp):
ATCGGACATCTCCTCGATGGTTTC
Found at i:3600815 original size:20 final size:20
Alignment explanation
Indices: 3600754--3600815 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 20
3600744 CTTATCTAGA
* *
3600754 TGTATCAATATATTATGCTT
1 TGTATCGATACATTATGCTT
3600774 TGTATCGATACA-T-TGC--
1 TGTATCGATACATTATGCTT
3600790 ---ATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
3600807 TGTATCGAT
1 TGTATCGAT
3600816 TGCTCATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
13 9 0.27
14 1 0.03
15 3 0.09
18 3 0.09
19 1 0.03
20 16 0.48
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATTATGCTT
Found at i:3600904 original size:13 final size:13
Alignment explanation
Indices: 3600886--3600910 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3600876 TATCACTATT
3600886 TGTATCGATACAA
1 TGTATCGATACAA
3600899 TGTATCGATACA
1 TGTATCGATACA
3600911 TAGTAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3610211 original size:1 final size:1
Alignment explanation
Indices: 3610207--3610273 Score: 62
Period size: 1 Copynumber: 67.0 Consensus size: 1
3610197 TTCTTTTTCC
* * * * * * * *
3610207 AAAAAAAACAAAAAAACAACAAAAAAAACAAAAAAACAAAAAAACAAAAAAAAAAACAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3610272 AA
1 AA
3610274 GAGAAAAGAA
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.88, C:0.10, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:3610239 original size:28 final size:28
Alignment explanation
Indices: 3610208--3610271 Score: 110
Period size: 28 Copynumber: 2.2 Consensus size: 28
3610198 TCTTTTTCCA
*
3610208 AAAAAAACAAAAAAACAACAAAAAAAAC
1 AAAAAAACAAAAAAACAAAAAAAAAAAC
3610236 AAAAAAACAAAAAAACAAAAAAAAAAAC
1 AAAAAAACAAAAAAACAAAAAAAAAAAC
3610264 AAAGAAAA
1 AAA-AAAA
3610272 AAGAGAAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 30 0.88
29 4 0.12
ACGTcount: A:0.88, C:0.11, G:0.02, T:0.00
Consensus pattern (28 bp):
AAAAAAACAAAAAAACAAAAAAAAAAAC
Found at i:3610266 original size:20 final size:20
Alignment explanation
Indices: 3610207--3610273 Score: 100
Period size: 20 Copynumber: 3.3 Consensus size: 20
3610197 TTCTTTTTCC
*
3610207 AAAAAAAACAAAAAAACAAC
1 AAAAAAAACAAAAAAACAAA
3610227 AAAAAAAACAAAAAAACAAA
1 AAAAAAAACAAAAAAACAAA
3610247 AAAACAAAA-AAAAAAACAAA
1 AAAA-AAAACAAAAAAACAAA
3610267 GAAAAAA
1 -AAAAAA
3610274 GAGAAAAGAA
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
20 36 0.82
21 8 0.18
ACGTcount: A:0.88, C:0.10, G:0.01, T:0.00
Consensus pattern (20 bp):
AAAAAAAACAAAAAAACAAA
Found at i:3610271 original size:9 final size:8
Alignment explanation
Indices: 3610208--3610273 Score: 71
Period size: 8 Copynumber: 7.8 Consensus size: 8
3610198 TCTTTTTCCA
3610208 AAAAAAAC
1 AAAAAAAC
3610216 AAAAAAACAAC
1 --AAAAA-AAC
3610227 AAAAAAAAC
1 -AAAAAAAC
3610236 AAAAAAAC
1 AAAAAAAC
3610244 AAAAAAAC
1 AAAAAAAC
3610252 AAAAAAA-
1 AAAAAAAC
*
3610259 AAAACAAAG
1 AAAA-AAAC
3610268 AAAAAA
1 AAAAAA
3610274 GAGAAAAGAA
Statistics
Matches: 53, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
7 4 0.08
8 28 0.53
9 7 0.13
10 11 0.21
11 3 0.06
ACGTcount: A:0.88, C:0.11, G:0.02, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:3611555 original size:60 final size:58
Alignment explanation
Indices: 3611358--3611606 Score: 289
Period size: 60 Copynumber: 4.3 Consensus size: 58
3611348 CTCCTTTCAC
*
3611358 CCTTTAGTCCTCAAAGAGTAGGACGCCTTTC----AAAGCCCACACAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGTAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
*
3611412 CCTTTCAGTCCTCAAAGAGTAGGACGCC--T-TTTTAAAGCCCACACGAGTTGGTGGCA
1 CC-TTCAGTCCTCAAAGAGTAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
3611468 CCCTCCAGTCCTTAAAGAGCAGGACGCCTTTTTCTTTTAAAGCTCACATAAGCTGGTGGCA
1 -CCTTCAGTCCTCAAAGAGTAGGACGCC--TTTCTTTTAAAGCCCACACAAGTTGGTGGCA
*
3611529 CCTTCAGTCCTCAAAGAGTAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCAGTCCTCAAAGAGTAGGACGCCTT-T-CTTTTAAAGCCCACACAAGTTGGTGGCA
3611589 -CTTCGTAGTCCTCAAAGA
1 CCTTC--AGTCCTCAAAGA
3611607 TCAGGATGCT
Statistics
Matches: 164, Mismatches: 16, Indels: 23
0.81 0.08 0.11
Matches are distributed among these distances:
53 1 0.01
54 2 0.01
55 24 0.15
56 44 0.27
57 2 0.01
58 2 0.01
59 5 0.03
60 49 0.30
61 35 0.21
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (58 bp):
CCTTCAGTCCTCAAAGAGTAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:3611785 original size:61 final size:59
Alignment explanation
Indices: 3611635--3611886 Score: 300
Period size: 61 Copynumber: 4.3 Consensus size: 59
3611625 TCGCCTTTTT
* * *
3611635 GTCCTCAAAGAGCAGGATG-C---C-TTTTAAAACCCACACAAGCTAGTGGCACCTTCA
1 GTCCTCAAAGAGCAGGATGCCTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCA
* * *
3611689 GTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCA
1 GTCCTCAAAGAGCAGGATGCCTT-TCTTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCA
3611750 GTCCTCAAAGAGCAGGATG-CTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCTA
1 GTCCTCAAAGAGCAGGATGCCTTTCTTTTT--AAAGCCCACACAAGTTGGTGGCACCTTC-A
* * ** *
3611811 GTCCTCAAAGGGCAGGATGCCTTTTCTTTTCAAAGCCCACATGAGTTGGTGGCACTTTTCA
1 GTCCTCAAAGAGCAGGATGCC-TTTCTTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCA
3611872 GTCCTCAAAGAGCAG
1 GTCCTCAAAGAGCAG
3611887 AACACACTTC
Statistics
Matches: 171, Mismatches: 14, Indels: 19
0.84 0.07 0.09
Matches are distributed among these distances:
54 18 0.11
55 1 0.01
59 7 0.04
60 31 0.18
61 102 0.60
62 4 0.02
63 8 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (59 bp):
GTCCTCAAAGAGCAGGATGCCTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTCA
Found at i:3611791 original size:215 final size:216
Alignment explanation
Indices: 3611419--3611830 Score: 573
Period size: 215 Copynumber: 1.9 Consensus size: 216
3611409 GCACCTTTCA
* * * * * *
3611419 GTCCTCAAAGAGTAGGACGCCTTTTTAAAGCCCACACGAGTTGGTGGCACCCTCCAGTCCTTAAA
1 GTCCTCAAAGAGCAGGACGCCTTTTTAAAACCCACACAAGCTAGTGGCACCCTCCAGTCCTCAAA
* * * * *
3611484 GAGCAGGACGCCTTTTTCTTTTAAAGCTCACATAAGCTGGTGGCACCTTCAGTCCTCAAAGAGTA
66 GAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCA
*
3611549 AGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCGTAGTCCTCAAAGATCAGGA
131 AGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC-TAGTCCTCAAAGAGCAGGA
3611613 TGCTCTCTCCTTTCGCCTTTTT
195 TGCTCTCTCCTTTCGCCTTTTT
* *
3611635 GTCCTCAAAGAGCAGGATGCC-TTTTAAAACCCACACAAGCTAGTGGCA-CCTTCAGTCCTCAAA
1 GTCCTCAAAGAGCAGGACGCCTTTTTAAAACCCACACAAGCTAGTGGCACCCTCCAGTCCTCAAA
* *
3611698 GAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGC
66 GAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGCTGGTGGCAC-CTTCAGTCCTCAAAGAGC
* * * *
3611763 AGGATG-CTT-TCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGGGCAG
130 AAGACGCCTTCTCCTTTT--AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAG
3611826 GATGC
193 GATGC
3611831 CTTTTCTTTT
Statistics
Matches: 172, Mismatches: 20, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
213 6 0.03
214 57 0.33
215 86 0.50
216 23 0.13
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (216 bp):
GTCCTCAAAGAGCAGGACGCCTTTTTAAAACCCACACAAGCTAGTGGCACCCTCCAGTCCTCAAA
GAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCA
AGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAT
GCTCTCTCCTTTCGCCTTTTT
Found at i:3611846 original size:122 final size:115
Alignment explanation
Indices: 3611635--3611886 Score: 353
Period size: 122 Copynumber: 2.1 Consensus size: 115
3611625 TCGCCTTTTT
3611635 GTCCTCAAAGAGCAGGATGCCTTTTAAAACCCACACAAGCTAGTGGCACCTTCAGTCCTCAAAGA
1 GTCCTCAAAGAGCAGGATGCCTTTTAAAACCCACACAAGCTAGTGGCACCTTCAGTCCTCAAAGA
3611700 GCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCA
66 GCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCA
* * *
3611750 GTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCC
1 GTCCTCAAAGAGCAGGATGC---C-TTTT--AAAACCCACACAAGCTAGTGGCACCTTC-AGTCC
* * * **
3611815 TCAAAGGGCAGGATGCCTT-TTCTTTTCAAAGCCCACATGAGTTGGTGGCACTTTTCA
59 TCAAAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCA
3611872 GTCCTCAAAGAGCAG
1 GTCCTCAAAGAGCAG
3611887 AACACACTTC
Statistics
Matches: 121, Mismatches: 8, Indels: 9
0.88 0.06 0.07
Matches are distributed among these distances:
115 20 0.17
118 1 0.01
119 4 0.03
121 31 0.26
122 65 0.54
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (115 bp):
GTCCTCAAAGAGCAGGATGCCTTTTAAAACCCACACAAGCTAGTGGCACCTTCAGTCCTCAAAGA
GCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCA
Found at i:3611940 original size:45 final size:42
Alignment explanation
Indices: 3611873--3611969 Score: 104
Period size: 45 Copynumber: 2.2 Consensus size: 42
3611863 CACTTTTCAG
3611873 TCCTCAAAGAGCAGAACACACTTCCTTCCCTTCTTTTCTCTTTTA
1 TCCTCAAAGAGCAGAACACACTT--TTCCCTTCTTTT-TCTTTTA
* * * *** *
3611918 TCCTCAAAGAGTAGGACGCACTTTTTTTTTCTTTTTCTTTTG
1 TCCTCAAAGAGCAGAACACACTTTTCCCTTCTTTTTCTTTTA
3611960 TCCTCAAAGA
1 TCCTCAAAGA
3611970 ACAGGACGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 16 0.36
43 9 0.20
45 20 0.44
ACGTcount: A:0.22, C:0.27, G:0.10, T:0.41
Consensus pattern (42 bp):
TCCTCAAAGAGCAGAACACACTTTTCCCTTCTTTTTCTTTTA
Found at i:3612857 original size:20 final size:19
Alignment explanation
Indices: 3612832--3612902 Score: 97
Period size: 20 Copynumber: 3.6 Consensus size: 19
3612822 ACCCAGATGC
3612832 ATCGATACATTTTGCATTGT
1 ATCGATACATTTT-CATTGT
*
3612852 ATCGATACATTGCTCATTGT
1 ATCGATACATT-TTCATTGT
*
3612872 ATCGATACATTTTACAATGT
1 ATCGATACATTTT-CATTGT
3612892 ATCGATACATT
1 ATCGATACATT
3612903 CAAGCATTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
19 1 0.02
20 44 0.96
21 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (19 bp):
ATCGATACATTTTCATTGT
Found at i:3615215 original size:51 final size:51
Alignment explanation
Indices: 3615124--3615303 Score: 193
Period size: 51 Copynumber: 3.5 Consensus size: 51
3615114 TAAATTTCTA
* ** * *
3615124 AATTTTTCAC-CTCGGGGATACTCCAA-TCCCGATTCCATTTCCAAAACATT
1 AATTTTTCACAATCGGGGATACTCCAACT-CCGATTTTATTTCTAAAACATC
** * * *
3615174 AATTTTTCTTAATCAGGGATACTCCAACTCCAATTTTATTTCTAAAGCATC
1 AATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACATC
* ** * *
3615225 GATTTACCACAATCGGGGATACTCCAACTCCGATTTTATTTTTAAAACACC
1 AATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACATC
*
3615276 AATTTTTCACAATTGGGGATACTCCAAC
1 AATTTTTCACAATCGGGGATACTCCAAC
3615304 CCTGTTATTT
Statistics
Matches: 104, Mismatches: 24, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
50 8 0.08
51 95 0.91
52 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.34
Consensus pattern (51 bp):
AATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACATC
Found at i:3615322 original size:28 final size:28
Alignment explanation
Indices: 3615290--3615363 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
3615280 TTTCACAATT
* * **
3615290 GGGGATACTCCAACCCTGTTATTTTATC
1 GGGGATACTCCAACCCCGTTATTTCAGA
* *
3615318 GGGGATACTTCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCAGA
3615346 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
3615364 GCTTTATATC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.27
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCAGA
Found at i:3615439 original size:28 final size:28
Alignment explanation
Indices: 3615396--3615451 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
3615386 TTTTTTCATA
* * *
3615396 ATCGGGGGTACTCCAACCCCGTTATTTC
1 ATCGGGGATACCCCAACCCCATTATTTC
*
3615424 ATCGGGGATACCCCAATCCCATTATTTC
1 ATCGGGGATACCCCAACCCCATTATTTC
3615452 CGAGGGGATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.21, C:0.32, G:0.18, T:0.29
Consensus pattern (28 bp):
ATCGGGGATACCCCAACCCCATTATTTC
Found at i:3615479 original size:109 final size:109
Alignment explanation
Indices: 3615278--3615479 Score: 296
Period size: 109 Copynumber: 1.9 Consensus size: 109
3615268 AAAACACCAA
* * * ** *
3615278 TTTTTCACAATTGGGGATACTCCAACCCTGTTATTTTATCGGGGATACTTCAACCCCGTTATTTC
1 TTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCATCGGGGATACCCCAACCCCATTATTTC
*
3615343 CGAGGGGATACTCCAACCCCGGCTTTATATCTAAAAATATTTTT
66 CGAGGGGATACTCCAACCCCGACTTTATATCTAAAAATATTTTT
* * *
3615387 TTTTTCATAATCGGGGGTACTCCAACCCCGTTATTTCATCGGGGATACCCCAATCCCATTATTTC
1 TTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCATCGGGGATACCCCAACCCCATTATTTC
* *
3615452 CGAGGGGATACTCCAATCCCGATTTTAT
66 CGAGGGGATACTCCAACCCCGACTTTAT
3615480 TTTCAAAATA
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
109 81 1.00
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (109 bp):
TTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCATCGGGGATACCCCAACCCCATTATTTC
CGAGGGGATACTCCAACCCCGACTTTATATCTAAAAATATTTTT
Found at i:3615592 original size:80 final size:79
Alignment explanation
Indices: 3615424--3615595 Score: 215
Period size: 79 Copynumber: 2.2 Consensus size: 79
3615414 CCGTTATTTC
* * * *
3615424 ATCGGGGATACCCCAATCCCATTATTTCCGAGGGGATACTCCAATCCCGATTTTATTTTCAAAAT
1 ATCGGGGATACTCCAATCCCATTATTTCCGAAGGGATACTCCAACCCCGATTTTATTTTCAAAAC
3615489 ACCGATTTTCTATA
66 ACCGATTTTCTATA
* * * *
3615503 ATCAGGGATACTCCAA-CCCTATTATTTTCGAAGGGATACTCCAACCCCTATTTT-TATTTCTAG
1 ATCGGGGATACTCCAATCCC-ATTATTTCCGAAGGGATACTCCAACCCCGATTTTAT-TTTC-AA
3615566 AACACCGATTTT-TCATA
63 AACACCGATTTTCT-ATA
3615583 ATCGGGGATACTC
1 ATCGGGGATACTC
3615596 TAGCCTAGTT
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
78 4 0.05
79 49 0.61
80 27 0.34
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (79 bp):
ATCGGGGATACTCCAATCCCATTATTTCCGAAGGGATACTCCAACCCCGATTTTATTTTCAAAAC
ACCGATTTTCTATA
Found at i:3617955 original size:44 final size:44
Alignment explanation
Indices: 3617906--3617993 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
3617896 GGCTATTGGT
*
3617906 GCTTTCATGATCTTGACCAAAGATTCCGCCTTCAATCAGGATCA
1 GCTTTCATGATCTTGACCAAAGATTCCGCCTTCAATCAAGATCA
3617950 GCTTTCATGATCTTGACCAAAGATTCCGCCTTCAATCAAGATCA
1 GCTTTCATGATCTTGACCAAAGATTCCGCCTTCAATCAAGATCA
3617994 ACTGTACTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (44 bp):
GCTTTCATGATCTTGACCAAAGATTCCGCCTTCAATCAAGATCA
Found at i:3620292 original size:22 final size:21
Alignment explanation
Indices: 3620238--3620293 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
3620228 CCTTAAAAAG
* **
3620238 AATATTCAAATAAAATTTCAA
1 AATAATCAAATAAAATACCAA
*
3620259 AATAATGAAAATAAAATACCAA
1 AATAAT-CAAATAAAATACCAA
3620281 AATTAATCAAATA
1 AA-TAATCAAATA
3620294 TGTAAATTCC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 5 0.18
22 19 0.68
23 4 0.14
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.27
Consensus pattern (21 bp):
AATAATCAAATAAAATACCAA
Found at i:3622351 original size:152 final size:151
Alignment explanation
Indices: 3621969--3622527 Score: 501
Period size: 153 Copynumber: 3.7 Consensus size: 151
3621959 TAGTGATTAC
* * * * * * *
3621969 CTAGGACTCGATTCTTAAAAAATTATCAAAATGCCTTTGAGGTATACTTTCGACGTGAAAGTATC
1 CTAGGACTCGATTCTAAAAAAATTACCAAAATGCCCTT-AAGTATACCTTCGACATGAAAGTA-G
* * * *
3622034 CTAGTAA-CCTAATGGACATGAAAATGATAAGTAAAAGGATGATTCTATCCT--AAATGACACCT
64 CTAGTAATCCTAAAGGACATGAAAAT-ATTA-TAAAAGGATGA-ACTATCCTAAAAAT-ATACCT
* * *
3622096 TTGGCATAAAAGTGACATGGTGACTAT
125 TTGGCATAAAAGCGACCTGATGACTAT
* * *
3622123 -TAGGACTCGATTCTAAAAAAATTACCAAAGTGCCCTTAAGGTATACCTTCAACATGAAAATAGC
1 CTAGGACTCGATTCTAAAAAAATTACCAAAATGCCCTTAA-GTATACCTTCGACATGAAAGTAGC
* * * *
3622187 TAGTAATCCTAAAGGACATGAAAGTATTATAAAATGATGAACCTATCCTAAAAATATACATTTGA
65 TAGTAATCCTAAAGGACATGAAAATATTATAAAAGGATGAA-CTATCCTAAAAATATACCTTTGG
**
3622252 CATAAAAGCGACCCAATGACTAT
129 CATAAAAGCGACCTGATGACTAT
* * * * *
3622275 CTAGGATTCAATTCTAAAAAAATTACCAAAATGCCTTTAAGTATACTTTCGACGTGAAAGTA-CT
1 CTAGGACTCGATTCTAAAAAAATTACCAAAATGCCCTTAAGTATACCTTCGACATGAAAGTAGC-
* * ** * * * *
3622339 TAGTAACCCTAAA--AGATGTGAA-A--ATGAAAGGATGAACTAATCCTAAACACATACCTTCGG
65 TAGTAATCCTAAAGGACATGAAAATATTATAAAAGGATGAACT-ATCCTAAAAATATACCTTTGG
* * *
3622399 CATAAAAGCGATCTGACGACTAC
129 CATAAAAGCGACCTGATGACTAT
* * ** *
3622422 CTAGGATTCGATTCTAAAGAAAAATATTAAAATGCCCCTATAGTATACCTTCGACATGAAAGTA-
1 CTAGGACTCGATTCTAAA-AAAATTACCAAAATGCCCTTA-AGTATACCTTCGACATGAAAGTAG
* * *
3622486 CTCGATAATCCTAAAGGAAATGAAAATATTATAAAAAGATGA
64 CTAG-TAATCCTAAAGGACATGAAAATATTATAAAAGGATGA
3622528 CTTTTATCCT
Statistics
Matches: 326, Mismatches: 63, Indels: 32
0.77 0.15 0.08
Matches are distributed among these distances:
146 2 0.01
147 62 0.19
148 18 0.06
149 32 0.10
150 5 0.02
151 24 0.07
152 67 0.21
153 106 0.33
154 10 0.03
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (151 bp):
CTAGGACTCGATTCTAAAAAAATTACCAAAATGCCCTTAAGTATACCTTCGACATGAAAGTAGCT
AGTAATCCTAAAGGACATGAAAATATTATAAAAGGATGAACTATCCTAAAAATATACCTTTGGCA
TAAAAGCGACCTGATGACTAT
Found at i:3622518 original size:301 final size:304
Alignment explanation
Indices: 3621969--3622527 Score: 674
Period size: 301 Copynumber: 1.8 Consensus size: 304
3621959 TAGTGATTAC
* * * *
3621969 CTAGGACTCGATTCTTAAAAAATTATCAAAATGCCTTTGAGGTATACTTTCGACGTGAAAGTATC
1 CTAGGACTCAATTCTAAAAAAATTACCAAAATGCCTTTGAAGTATACTTTCGACGTGAAAGTATC
* * * *
3622034 CTAGTAACCTAATGGACATGAAAATGATAAGTAAAAGGATGATTCTATCCTAAATGACACCTTTG
66 CTAGTAACCTAA--GACATGAAAATGATAAATAAAAGGATGATACTATCCTAAATCACACCTTCG
* ** * * * *
3622099 GCATAAAAGTGACATGGTGACTATTAGGACTCGATTCTAAAAAAATTACCAAAGTGCCCTTAAGG
129 GCATAAAAGCGACATGACGACTACTAGGACTCGATTCTAAAAAAAATACCAAAATGCCCCTAAGG
* * *
3622164 TATACCTTCAACATGAAAATAGCTAGTAATCCTAAAGGACATGAAAGTATTATAAAATGATGAAC
194 TATACCTTCAACATGAAAATAGCTAGTAATCCTAAAGGAAATGAAAATATTATAAAAAGATGAAC
3622229 CTATCCTAAAAATATACATTTGACATAAAAGCGACCCAATGACTAT
259 CTATCCTAAAAATATACATTTGACATAAAAGCGACCCAATGACTAT
*
3622275 CTAGGATTCAATTCTAAAAAAATTACCAAAATGCCTTT-AAGTATACTTTCGACGTGAAAGTA-C
1 CTAGGACTCAATTCTAAAAAAATTACCAAAATGCCTTTGAAGTATACTTTCGACGTGAAAGTATC
* ** *
3622338 TTAGTAACCCTAA-A-A-G-ATGTGA-AAATGAAAGGATGA-ACTAATCCTAAA-CACATACCTT
66 CTAGTAA-CCTAAGACATGAAAATGATAAATAAAAGGATGATACT-ATCCTAAATCAC--ACCTT
* **
3622396 CGGCATAAAAGCGATC-TGACGACTACCTAGGATTCGATTCTAAAGAAAAATATTAAAATGCCCC
127 CGGCATAAAAGCGA-CATGACGACTA-CTAGGACTCGATTCTAAA-AAAAATACCAAAATGCCCC
* * *
3622460 TATA-GTATACCTTCGACATGAAAGTA-CTCGATAATCCTAAAGGAAATGAAAATATTATAAAAA
189 TA-AGGTATACCTTCAACATGAAAATAGCTAG-TAATCCTAAAGGAAATGAAAATATTATAAAAA
3622523 GATGA
252 GATGA
3622528 CTTTTATCCT
Statistics
Matches: 215, Mismatches: 29, Indels: 23
0.81 0.11 0.09
Matches are distributed among these distances:
297 4 0.02
298 20 0.09
299 28 0.13
300 21 0.10
301 71 0.33
302 2 0.01
304 7 0.03
305 28 0.13
306 34 0.16
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (304 bp):
CTAGGACTCAATTCTAAAAAAATTACCAAAATGCCTTTGAAGTATACTTTCGACGTGAAAGTATC
CTAGTAACCTAAGACATGAAAATGATAAATAAAAGGATGATACTATCCTAAATCACACCTTCGGC
ATAAAAGCGACATGACGACTACTAGGACTCGATTCTAAAAAAAATACCAAAATGCCCCTAAGGTA
TACCTTCAACATGAAAATAGCTAGTAATCCTAAAGGAAATGAAAATATTATAAAAAGATGAACCT
ATCCTAAAAATATACATTTGACATAAAAGCGACCCAATGACTAT
Found at i:3626520 original size:15 final size:15
Alignment explanation
Indices: 3626500--3626528 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3626490 AAATAATGAT
3626500 AAATTGAAACCAAAG
1 AAATTGAAACCAAAG
3626515 AAATTGAAACCAAA
1 AAATTGAAACCAAA
3626529 TCAAAACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.14, G:0.10, T:0.14
Consensus pattern (15 bp):
AAATTGAAACCAAAG
Found at i:3628084 original size:37 final size:38
Alignment explanation
Indices: 3628034--3628107 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
3628024 TTGAGTTATT
*
3628034 GATTTTCTTTTG-AATTCTTCCTATGTTCAAATTATGG
1 GATTTTCTTTTGAAATTCTTCCTACGTTCAAATTATGG
3628071 GATTTTCTTTTGAAATTCTTCCTACGTTCAAATTATG
1 GATTTTCTTTTGAAATTCTTCCTACGTTCAAATTATG
3628108 TTTAAAACAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 12 0.34
38 23 0.66
ACGTcount: A:0.23, C:0.15, G:0.12, T:0.50
Consensus pattern (38 bp):
GATTTTCTTTTGAAATTCTTCCTACGTTCAAATTATGG
Found at i:3628144 original size:209 final size:212
Alignment explanation
Indices: 3627900--3628290 Score: 664
Period size: 209 Copynumber: 1.8 Consensus size: 212
3627890 TTTTTGGTGA
*
3627900 TAAAATAAGAGCTTTTCTTTGCTCGTAAAACTTTTCAGTGGAATTTTCTTGAGTTTCAAATATCA
1 TAAAACAAGAGCTTTTCTTTGCTCGTAAAACTTTTCAGTGGAATTTTCTTGAGTTTCAAATATCA
* **
3627965 AAATTCTTTAAATATTATCTTTTAA-TTCTCACCAAATCATTTTT-AATTTTTTTTATTTTTTGA
66 AAATTCTTTAAATATTATCCTTTAATTTC-CACCAAATCATTTTTAAATTCCTTTTATTTTTTGA
* *
3628028 GTTATTGATTTTCTTTTG-AATTCTTCCTATGTTCAAATTATGGGATTTTCTTTTGAAATTCTTC
130 GTTATTGATTTTCTTTTGAAATTCTTCCTATATTCAAATTATGAGATTTTCTTTTGAAATTCTTC
3628092 CTACGTTCAAATTATGTT
195 CTACGTTCAAATTATGTT
3628110 TAAAACAAGAGCTTTT-TTTGCTCGTAAAACTTTTCAGTGGAATTTTCTTGAGTTTCAAATATCA
1 TAAAACAAGAGCTTTTCTTTGCTCGTAAAACTTTTCAGTGGAATTTTCTTGAGTTTCAAATATCA
3628174 AAATTCTTTAAATATTATCCTTTAATTTCCACCAAATCATTTTTAAAAAATTCCTTTTATTTTTT
66 AAATTCTTTAAATATTATCCTTTAATTTCCACCAAATCATTTTT---AAATTCCTTTTATTTTTT
3628239 GAGTTATTGATTTTCTTTTGAAATTCTTCCTATATTCAAATTATGAGATTTT
128 GAGTTATTGATTTTCTTTTGAAATTCTTCCTATATTCAAATTATGAGATTTT
3628291 TTTCTCCGTA
Statistics
Matches: 169, Mismatches: 6, Indels: 8
0.92 0.03 0.04
Matches are distributed among these distances:
209 87 0.51
210 18 0.11
213 35 0.21
214 29 0.17
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (212 bp):
TAAAACAAGAGCTTTTCTTTGCTCGTAAAACTTTTCAGTGGAATTTTCTTGAGTTTCAAATATCA
AAATTCTTTAAATATTATCCTTTAATTTCCACCAAATCATTTTTAAATTCCTTTTATTTTTTGAG
TTATTGATTTTCTTTTGAAATTCTTCCTATATTCAAATTATGAGATTTTCTTTTGAAATTCTTCC
TACGTTCAAATTATGTT
Found at i:3628912 original size:15 final size:15
Alignment explanation
Indices: 3628888--3628949 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
3628878 AAATTTTATC
3628888 TTAA-TTTTTA-AATT
1 TTAATTTTTTATAA-T
3628902 TTAATTTTTTATAAT
1 TTAATTTTTTATAAT
3628917 TTAATTATTTT-T-A-
1 TTAATT-TTTTATAAT
3628930 TTAA-TTTTTATAAT
1 TTAATTTTTTATAAT
*
3628944 ATAATT
1 TTAATT
3628950 ATACGAATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
11 4 0.10
12 2 0.05
13 5 0.12
14 8 0.20
15 15 0.38
16 6 0.15
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTAATTTTTTATAAT
Found at i:3628959 original size:27 final size:28
Alignment explanation
Indices: 3628902--3628959 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 28
3628892 TTTTTAAATT
* ****
3628902 TTAATTTTTTATAATTTAATTATTTTTA
1 TTAATTTTTTATAATATAATTATACGAA
3628930 TTAA-TTTTTATAATATAATTATACGAA
1 TTAATTTTTTATAATATAATTATACGAA
3628957 TTA
1 TTA
3628960 CTATAAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (28 bp):
TTAATTTTTTATAATATAATTATACGAA
Found at i:3629701 original size:20 final size:20
Alignment explanation
Indices: 3629659--3629702 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
3629649 ACAACAGATA
*
3629659 ACAGCAACACCAAACAAATG
1 ACAGCAACACCAAACAAACG
3629679 ACAGCAACACCAAGA-AAACG
1 ACAGCAACACCAA-ACAAACG
3629699 ACAG
1 ACAG
3629703 TTGCTGCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.55, C:0.30, G:0.14, T:0.02
Consensus pattern (20 bp):
ACAGCAACACCAAACAAACG
Found at i:3632435 original size:309 final size:311
Alignment explanation
Indices: 3631779--3632441 Score: 714
Period size: 313 Copynumber: 2.1 Consensus size: 311
3631769 CACAGGGTTT
* * * * * * *
3631779 GCTTTTATGCTGAAGGTGGGTATTTAGGATAGGTTTAT-CCATTTTATATTCTTTTTTAAGTTCT
1 GCTTTTATGCTGAAGGTGGATATTTAGGATAGGTTCATCCCAGTTAAAATCCTTTTTTAAGTCCT
* * * *
3631843 TTAGAGGTACTGAGATACTTTCACGTCGAAGGTATCCCCTAAGGGTATTTTCATAATTTTTTAGG
66 TTAGAGGTACTGAGATACTTTCACGTCAAAGGTATCCCCTAAGGGCATTTTCATAATTTTCTAGA
* * * *
3631908 ATCGAGTCCTAGGTTATCACCGGGTCCACTTTTATGCCGAAGGTGGGCATTTAGGATAGGTCAAT
131 ATCAAGTCCTAAGTTATCACCGGGTCCACTTTTATGCCAAAGGT--GAATTTAGGATAGGTCAAT
* * * ** * * *
3631973 CCCTTTTATAGTCCCTTTTAAGTCTTTTAGGGGTACTAGGATACTTTCACGTCGAAGGTATCTCT
194 CCCTTTTAAAATCCCTTTTAAGTCCTTTAACGGTACTAGGATACTTTCACATCGAAGGCATCCCT
* * * * *
3632038 AGGGGCATTTTTTGTAATTCTTTAGAATCGAGTCCTAAGTTATCACCGGGTCT
259 AGGAGCATTTTTTGTAATTCTTTAGAACCAAGTCCTAAGTTATCACCAGGTCC
* *
3632091 GCTTTTATGTTGAAGGTGGATATTTAGGGTAGGTTCATCCCAGTTAAAATCCTTTTTTAAAGTCC
1 GCTTTTATGCTGAAGGTGGATATTTAGGATAGGTTCATCCCAGTTAAAATCCTTTTTT-AAGTCC
* * * * *
3632156 TTT-GAGGGTA-TTAGGTACTTTTATGTCAAAGGTATCCCCT-CGAGGCATTTTCATAATTTTCT
65 TTTAGA-GGTACTGAGATACTTTCACGTCAAAGGTATCCCCTAAG-GGCATTTTCATAATTTTCT
* * * *
3632218 AGAA-CTAAGTCTTAAGTTGTCATCGGGTCTACTTTTATGCCAAAGGT-AATTTAGGATAGGTTC
128 AGAATC-AAGTCCTAAGTTATCACCGGGTCCACTTTTATGCCAAAGGTGAATTTAGGATAGG-TC
* ** * * *
3632281 -ATCCTTTTTAAAATCTTTTTTAAGTCCTTTAACGGTA-TCGGGTACTTTTACATCGAAGGCATC
191 AATCCCTTTTAAAATCCCTTTTAAGTCCTTTAACGGTACTAGGATACTTTCACATCGAAGGCATC
* * * * *
3632344 CCTTAGGAGCA-TTTTTGTAATTTTTTAGAACCAAGTCTTAGGTTTTCACTAGGTCC
256 CC-TAGGAGCATTTTTTGTAATTCTTTAGAACCAAGTCCTAAGTTATCACCAGGTCC
* * *
3632400 GTTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCATCCCA
1 GCTTTTATGCTGAAGGTGGATATTTAGGATAGGTTCATCCCA
3632442 TTCATGATTC
Statistics
Matches: 289, Mismatches: 55, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
309 95 0.33
310 48 0.17
311 2 0.01
312 36 0.12
313 96 0.33
314 12 0.04
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (311 bp):
GCTTTTATGCTGAAGGTGGATATTTAGGATAGGTTCATCCCAGTTAAAATCCTTTTTTAAGTCCT
TTAGAGGTACTGAGATACTTTCACGTCAAAGGTATCCCCTAAGGGCATTTTCATAATTTTCTAGA
ATCAAGTCCTAAGTTATCACCGGGTCCACTTTTATGCCAAAGGTGAATTTAGGATAGGTCAATCC
CTTTTAAAATCCCTTTTAAGTCCTTTAACGGTACTAGGATACTTTCACATCGAAGGCATCCCTAG
GAGCATTTTTTGTAATTCTTTAGAACCAAGTCCTAAGTTATCACCAGGTCC
Found at i:3632513 original size:155 final size:154
Alignment explanation
Indices: 3631706--3632524 Score: 620
Period size: 156 Copynumber: 5.3 Consensus size: 154
3631696 ATCAAATACT
* * * * * * * * *
3631706 TTTACGTCAAAGATATCCCCTATGAGTATTTTTGTAATTTTTTAAAATCAACTCCTACA-TCATC
1 TTTACGTCGAAGGTATCCCCTAAGGGCATTTTTGTAATTTTTTAGAACCAAGTCCTA-AGTTATC
* *** * * *
3631770 ACAGGGTTTGCTTTTATGCTGAAGGTGGGTATTTAGGATAGGTTTAT-CCATTTTATATTCTTTT
65 ACCGGGTCCACTTTTATGCCGAAGGTGGATATTTAGGATAGGTTCATCCCA-TTTATATTCTTTT
* *
3631834 TTAAGT-TCTTTAGAGGTA-CTGAGATAC
129 TTAAGTCT-TTTAGGGGTATC-G-GGTAC
* ** * * * *
3631861 TTTCACGTCGAAGGTATCCCCTAAGGGTATTTTCATAATTTTTTAGGATCGAGTCCTAGGTTATC
1 TTT-ACGTCGAAGGTATCCCCTAAGGGCATTTTTGTAATTTTTTAGAACCAAGTCCTAAGTTATC
** * * **
3631926 ACCGGGTCCACTTTTATGCCGAAGGTGGGCATTTAGGATAGG-TCAATCCCTTTTATAGTCCCTT
65 ACCGGGTCCACTTTTATGCCGAAGGTGGATATTTAGGATAGGTTC-ATCCCATTTATATTCTTTT
* *
3631990 TTAAGTCTTTTAGGGGTACTAGGATAC
129 TTAAGTCTTTTAGGGGTA-TCGGGTAC
* * * * *
3632017 TTTCACGTCGAAGGTAT-CTCTAGGGGCATTTTTTGTAATTCTTTAGAATCGAGTCCTAAGTTAT
1 TTT-ACGTCGAAGGTATCCCCTAAGGGCA-TTTTTGTAATTTTTTAGAACCAAGTCCTAAGTTAT
** ** * * * *
3632081 CACCGGGTCTGCTTTTATGTTGAAGGTGGATATTTAGGGTAGGTTCATCCCAGTTAAAATCCTTT
64 CACCGGGTCCACTTTTATGCCGAAGGTGGATATTTAGGATAGGTTCATCCCA-TTTATATTCTTT
* **
3632146 TTTAAAGTCCTTT-GAGGGTATTAGGTAC
128 TTT-AAGTCTTTTAG-GGGTATCGGGTAC
* * * ** * * * *
3632174 TTTTATGTCAAAGGTATCCCCT-CGAGGCATTTTCATAATTTTCTAGAACTAAGTCTTAAGTTGT
1 -TTTACGTCGAAGGTATCCCCTAAG-GGCATTTTTGTAATTTTTTAGAACCAAGTCCTAAGTTAT
* * * ** * *
3632238 CATCGGGTCTACTTTTATGCCAAAGGT--A-ATTTAGGATAGGTTCATCCTTTTTAAAATCTTTT
64 CACCGGGTCCACTTTTATGCCGAAGGTGGATATTTAGGATAGGTTCATCCCATTTATATTCTTTT
* **
3632300 TTAAGTCCTTTAACGGTATCGGGTAC
129 TTAAGTCTTTTAGGGGTATCGGGTAC
* * * * * *
3632326 TTTTACATCGAAGGCAT-CCCTTAGGAGCATTTTTGTAATTTTTTAGAACCAAGTCTTAGGTTTT
1 -TTTACGTCGAAGGTATCCCCTAAGG-GCATTTTTGTAATTTTTTAGAACCAAGTCCTAAGTTAT
** ** * *
3632390 CACTAGGTCCGTTTTTATGCCGAAGGTAGATATTTAGGATAGGTTCATCCCATTCATGATTC-TT
64 CACCGGGTCCACTTTTATGCCGAAGGTGGATATTTAGGATAGGTTCATCCCATTTAT-ATTCTTT
*
3632454 TTTATGTCTTTTAGGGGTATCGGGTAC
128 TTTAAGTCTTTTAGGGGTATCGGGTAC
* * *
3632481 TTCTACGTCGAAGGTATCCTCTAAGGGTATTTTTGTAAATTTTT
1 TT-TACGTCGAAGGTATCCCCTAAGGGCATTTTTGTAATTTTTT
3632525 GAAACTTAAC
Statistics
Matches: 528, Mismatches: 112, Indels: 48
0.77 0.16 0.07
Matches are distributed among these distances:
151 5 0.01
152 85 0.16
153 12 0.02
154 21 0.04
155 88 0.17
156 213 0.40
157 81 0.15
158 23 0.04
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (154 bp):
TTTACGTCGAAGGTATCCCCTAAGGGCATTTTTGTAATTTTTTAGAACCAAGTCCTAAGTTATCA
CCGGGTCCACTTTTATGCCGAAGGTGGATATTTAGGATAGGTTCATCCCATTTATATTCTTTTTT
AAGTCTTTTAGGGGTATCGGGTAC
Found at i:3642278 original size:33 final size:32
Alignment explanation
Indices: 3642233--3642371 Score: 104
Period size: 29 Copynumber: 4.7 Consensus size: 32
3642223 CCAACGACAT
* * *
3642233 TGGG-TTTAGA-AGGGTTGTCACCACCTTGCG
1 TGGGCTTTAGAGAAGGTTGCCACCAACTTGCG
*
3642263 TGGGCTTTAGAGAAGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAAGGTTGCCACCAACTTGCG
* * *
3642295 TGGGCTTT--AGAAGGAT-CCACTAACTT--A
1 TGGGCTTTAGAGAAGGTTGCCACCAACTTGCG
* *
3642322 TGGGCTTT-GAGAAGGATGCCACTAAC-T-CG
1 TGGGCTTTAGAGAAGGTTGCCACCAACTTGCG
*
3642351 TGGGCTTT-GAAAAGG-TGCCAC
1 TGGGCTTTAGAGAAGGTTGCCAC
3642372 TGACTTATGG
Statistics
Matches: 95, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
27 8 0.08
28 15 0.16
29 31 0.33
30 11 0.12
31 6 0.06
32 24 0.25
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.27
Consensus pattern (32 bp):
TGGGCTTTAGAGAAGGTTGCCACCAACTTGCG
Found at i:3642390 original size:28 final size:28
Alignment explanation
Indices: 3642293--3642739 Score: 371
Period size: 28 Copynumber: 15.7 Consensus size: 28
3642283 CACCAACTTG
* *
3642293 TGTGGGCTTT-AGAAGGAT-CCACTAACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* * *
3642320 TATGGGCTTTGAGAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
*
3642349 CGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * * *
3642377 TATGGTCTTCGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * *
3642405 TGTGGGCTTTAAAAAGGATGCCACTAACG
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* ** *
3642434 TATGGGCTTTGAAAATAATGCCACCGACT
1 TGTGGGCTTTGAAAA-GGTGCCACTGACT
* *
3642463 TGTGCGGGCTTCGAAATGGTGCCACTGACT
1 TGT--GGGCTTTGAAAAGGTGCCACTGACT
* * *
3642493 TGTGGGCTTTTAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
3642521 TGTGGTCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* * *
3642549 TGTGGGGTTTAAAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* * *
3642578 TGTGGGCTTTGAAAAGATGCTACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * ** **
3642606 TGTAGGCTTTAAAAATAATGCCACCAACTT
1 TGTGGGCTTTGAAAA-GGTGCCACTGAC-T
* * *
3642636 GTGTGGGCTTCGAAAAGGTGCCAATAACT
1 -TGTGGGCTTTGAAAAGGTGCCACTGACT
* * *
3642665 TGTGGGCTTTTAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
3642693 TGTGGTCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
*
3642721 TGTGGGCTTTAAAAAGGTG
1 TGTGGGCTTTGAAAAGGTG
3642740 AACGTTCTAG
Statistics
Matches: 337, Mismatches: 70, Indels: 25
0.78 0.16 0.06
Matches are distributed among these distances:
27 17 0.05
28 176 0.52
29 100 0.30
30 22 0.07
31 22 0.07
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACT
Found at i:3642527 original size:144 final size:142
Alignment explanation
Indices: 3642337--3642735 Score: 462
Period size: 144 Copynumber: 2.8 Consensus size: 142
3642327 TTTGAGAAGG
* * * *
3642337 ATGCCACTAACTCGTGGGCTTTGAAAAGGTGCCACTGACTTATGGTCTTCGAAAGGGTGCCACTG
1 ATGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACTG
* * * *
3642402 ACTTGTGGGCTTTAAAAAGGATGCCACTAACGTATGGGCTTTGAAAATAATGCCACCGACTTGTG
66 ACTTGTGGGCTTTAAAAAGGATGCCACTGACTTGTGGGCTTTGAAAA-AATGCCACCAACTTGT-
* ** *
3642467 CGGGC-TTCGAAATG
129 -AGGCTTTAAAAATA
* * * * *
3642481 GTGCCACTGACTTGTGGGCTTTTAAAGGGTGCCACTAACTTGTGGTCTTTGAAAGGATGCCACTG
1 ATGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACTG
* * * * *
3642546 ACTTGTGGGGTTTAAAAAGGATGCCATTGACTTGTGGGCTTTGAAAAGATGCTACTAACTTGTAG
66 ACTTGTGGGCTTTAAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAAATGCCACCAACTTGTAG
3642611 GCTTTAAAAATA
131 GCTTTAAAAATA
* * * * *
3642623 ATGCCACCAACTTGTGTGGGCTTCGAAAAGGTGCCAATAACTTGTGGGCTTTTAAAGGGTGCCAC
1 ATGCCACTAAC-T-TGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGTCTTTGAAAGGGTGCCAC
* * *
3642688 TAACTTGTGGTCTTT-GAAAGGATGCCACTGACTTGTGGGCTTT-AAAAA
64 TGACTTGTGGGCTTTAAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAA
3642736 GGTGAACGTT
Statistics
Matches: 214, Mismatches: 38, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
141 3 0.01
142 18 0.08
143 39 0.18
144 154 0.72
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (142 bp):
ATGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGTCTTTGAAAGGGTGCCACTG
ACTTGTGGGCTTTAAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAAATGCCACCAACTTGTAG
GCTTTAAAAATA
Found at i:3642623 original size:172 final size:173
Alignment explanation
Indices: 3642280--3642737 Score: 613
Period size: 172 Copynumber: 2.7 Consensus size: 173
3642270 TAGAGAAGGT
* * * * * *
3642280 TGCCACCAACTTGTGTGGGCTT-TAGAAGGAT-CCACTAACTTATGGGCTTTGAGAAGGATGCCA
1 TGCCACCAACTTGTGCGGGCTTCGAAAAGG-TGCCACTAACTTGTGGGCTTTTA-AAGGGTGCCA
* * * ** *
3642343 CTAACTCGTGGGCTTTGAAAAGG-TGCCACTGACTTAT--GGTCTTCGAAAGGGTGCCACTGACT
64 CTAACTTGTGGTCTTTG-AAAGGATGCCACTGACTTGTGGGGT-TTAAAAAGGATGCCACTGACT
* *
3642405 TGTGGGCTTTAAAAAGGATGCCACTAACGTATGGGCTTTGAAAATAA
127 TGTGGGCTTTAAAAAGGATGCCACTAACGTATAGGCTTTAAAAATAA
* * *
3642452 TGCCACCGACTTGTGCGGGCTTCGAAATGGTGCCACTGACTTGTGGGCTTTTAAAGGGTGCCACT
1 TGCCACCAACTTGTGCGGGCTTCGAAAAGGTGCCACTAACTTGTGGGCTTTTAAAGGGTGCCACT
*
3642517 AACTTGTGGTCTTTGAAAGGATGCCACTGACTTGTGGGGTTTAAAAAGGATGCCATTGACTTGTG
66 AACTTGTGGTCTTTGAAAGGATGCCACTGACTTGTGGGGTTTAAAAAGGATGCCACTGACTTGTG
* * * *
3642582 GGCTTTGAAAA-GATGCTACTAACTTGTAGGCTTTAAAAATAA
131 GGCTTTAAAAAGGATGCCACTAACGTATAGGCTTTAAAAATAA
* *
3642624 TGCCACCAACTTGTGTGGGCTTCGAAAAGGTGCCAATAACTTGTGGGCTTTTAAAGGGTGCCACT
1 TGCCACCAACTTGTGCGGGCTTCGAAAAGGTGCCACTAACTTGTGGGCTTTTAAAGGGTGCCACT
*
3642689 AACTTGTGGTCTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAAGG
66 AACTTGTGGTCTTTGAAAGGATGCCACTGACTTGTGGGGTTTAAAAAGG
3642738 TGAACGTTCT
Statistics
Matches: 253, Mismatches: 28, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
171 5 0.02
172 192 0.76
173 53 0.21
174 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (173 bp):
TGCCACCAACTTGTGCGGGCTTCGAAAAGGTGCCACTAACTTGTGGGCTTTTAAAGGGTGCCACT
AACTTGTGGTCTTTGAAAGGATGCCACTGACTTGTGGGGTTTAAAAAGGATGCCACTGACTTGTG
GGCTTTAAAAAGGATGCCACTAACGTATAGGCTTTAAAAATAA
Found at i:3644020 original size:16 final size:16
Alignment explanation
Indices: 3643999--3644053 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
3643989 TCTGGACCCC
* *
3643999 TTTTTGTTTGTTTGTT
1 TTTTTGTTTATTTTTT
3644015 TTTTTGTTTATTTTTT
1 TTTTTGTTTATTTTTT
*
3644031 TTATTTTTTTATTTTTT
1 TT-TTTGTTTATTTTTT
3644048 TTTTTG
1 TTTTTG
3644054 GTATGAAGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
16 19 0.56
17 15 0.44
ACGTcount: A:0.05, C:0.00, G:0.09, T:0.85
Consensus pattern (16 bp):
TTTTTGTTTATTTTTT
Found at i:3644033 original size:9 final size:9
Alignment explanation
Indices: 3644015--3644049 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
3644005 TTTGTTTGTT
3644015 TTTTTGTTTA
1 TTTTT-TTTA
3644025 TTTTTTTTA
1 TTTTTTTTA
3644034 -TTTTTTTA
1 TTTTTTTTA
3644042 TTTTTTTT
1 TTTTTTTT
3644050 TTTGGTATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 11 0.46
10 5 0.21
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.89
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:3644043 original size:17 final size:18
Alignment explanation
Indices: 3644016--3644049 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
3644006 TTGTTTGTTT
3644016 TTTTGTTTATTTTTTTTA
1 TTTTGTTTATTTTTTTTA
3644034 TTTT-TTTATTTTTTTT
1 TTTTGTTTATTTTTTTT
3644050 TTTGGTATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (18 bp):
TTTTGTTTATTTTTTTTA
Found at i:3654469 original size:61 final size:61
Alignment explanation
Indices: 3654400--3654603 Score: 354
Period size: 61 Copynumber: 3.3 Consensus size: 61
3654390 CCCTATGCAA
* *
3654400 ATGCGGAGGGTTACTCACGAGAGCATAGGTAATTTACATCCTGGAAGTTATTGCTATGCCT
1 ATGCGGAGGGTTACTCACGAAAGCATAGGTAATTTACATCCTAGAAGTTATTGCTATGCCT
* *
3654461 ATGCGGAGGGTTACTCACGAAAGCATAGCTAATTTTCATCCTAGAAGTTATTGCTATGCCT
1 ATGCGGAGGGTTACTCACGAAAGCATAGGTAATTTACATCCTAGAAGTTATTGCTATGCCT
* *
3654522 ATGCGGAGGGTTACTCACGAAAGCATAGGTAATTTACATCTTAGAAGTTATTTCTATGCCT
1 ATGCGGAGGGTTACTCACGAAAGCATAGGTAATTTACATCCTAGAAGTTATTGCTATGCCT
3654583 ATGCGGAGGGTTACTCACGAA
1 ATGCGGAGGGTTACTCACGAA
3654604 GGCAAATAGC
Statistics
Matches: 135, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 135 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (61 bp):
ATGCGGAGGGTTACTCACGAAAGCATAGGTAATTTACATCCTAGAAGTTATTGCTATGCCT
Found at i:3657363 original size:13 final size:13
Alignment explanation
Indices: 3657345--3657370 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3657335 CAATTTTTTG
3657345 TGTATCGATACAT
1 TGTATCGATACAT
3657358 TGTATCGATACAT
1 TGTATCGATACAT
3657371 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3657455 original size:20 final size:20
Alignment explanation
Indices: 3657430--3657502 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
3657420 CAACTTTTTT
3657430 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
3657450 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
3657471 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
3657491 ATGTATCGATAC
1 ATGTATCGATAC
3657503 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:3657468 original size:41 final size:41
Alignment explanation
Indices: 3657409--3657502 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
3657399 CTGCCAAGAA
*
3657409 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
3657450 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
3657491 ATGTATCGATAC
1 ATGTATCGATAC
3657503 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:3657484 original size:21 final size:21
Alignment explanation
Indices: 3657409--3657484 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
3657399 CTGCCAAGAA
* *
3657409 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
3657430 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
3657450 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
3657471 ATGTATCGATACAT
1 ATGTATCGATACAT
3657485 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:3659963 original size:13 final size:13
Alignment explanation
Indices: 3659945--3659983 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
3659935 ATAATCACCC
*
3659945 TGTATCGATACAG
1 TGTATCGATACAA
3659958 TGTATCGATACAA
1 TGTATCGATACAA
3659971 TGTATCGATACAA
1 TGTATCGATACAA
3659984 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3659994 original size:20 final size:20
Alignment explanation
Indices: 3659969--3660047 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
3659959 GTATCGATAC
3659969 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
3659989 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
3660014 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
3660034 CATGTATCGATACA
1 AATGTATCGATACA
3660048 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:3662083 original size:15 final size:15
Alignment explanation
Indices: 3662063--3662093 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3662053 ATTTCGTTTG
*
3662063 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3662078 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3662093 G
1 G
3662094 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:3664147 original size:21 final size:22
Alignment explanation
Indices: 3664105--3664147 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3664095 TTTTCAATTT
* *
3664105 ATTATCTTCTTTTAGTTTAATG
1 ATTATCTTCTTATAGCTTAATG
3664127 ATTATCTTCTTAT-GCTTAATG
1 ATTATCTTCTTATAGCTTAATG
3664148 TTCATGGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.23, C:0.12, G:0.09, T:0.56
Consensus pattern (22 bp):
ATTATCTTCTTATAGCTTAATG
Found at i:3666172 original size:13 final size:13
Alignment explanation
Indices: 3666154--3666179 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3666144 CAATTTTTTG
3666154 TGTATCGATACAT
1 TGTATCGATACAT
3666167 TGTATCGATACAT
1 TGTATCGATACAT
3666180 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.