Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001111.1 Hibiscus syriacus cultivar Beakdansim tig00002193_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3891333
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 17
Found at i:880250 original size:68 final size:68
Alignment explanation
Indices: 880157--880408 Score: 373
Period size: 68 Copynumber: 3.7 Consensus size: 68
880147 TGAACCATTT
* * * *
880157 ATCTAACTGTCATAATTGACTCATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGAACTTAGCCT
1 ATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGTACTTAGCCT
880222 TTC
66 TTC
* * * *
880225 ATCTAACTGGTATAATTGACACATTTATGTCAAATACACAGTTAGGCCTCAAAGGTACTTAGCCT
1 ATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGTACTTAGCCT
880290 TTC
66 TTC
*
880293 ATCTAACTGGCATAAATGACA-ACTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGTATTTAGCC
1 ATCTAACTGGCATAAATGACACA-TTTCTGTCAAATGCACAGTTAGGCCTCAAAGGTACTTAGCC
*
880357 CTTC
65 TTTC
* *
880361 ATCTAACTGGCATAAATGACACTTTTCTATCAAATGCACA-TTAGGCCT
1 ATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTAGGCCT
880409 ATTAATTTTT
Statistics
Matches: 168, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
67 9 0.05
68 159 0.95
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (68 bp):
ATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGTACTTAGCCT
TTC
Found at i:880738 original size:55 final size:55
Alignment explanation
Indices: 880640--880777 Score: 188
Period size: 55 Copynumber: 2.5 Consensus size: 55
880630 TTAATGCACT
* * * **
880640 TAGTATGAATTTTTTAG-TTCGCACACATAGTGCCCATACAGAAATTTATACACC
1 TAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAGAAATGCATACACC
*
880694 TAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAGAAATGCATACACT
1 TAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAGAAATGCATACACC
*
880749 TAGTATGGATTTCTTAAGTCTTTGCACAC
1 TAGTATGAATTTCTT-AGT-TTTGCACAC
880778 TTAGTGTCAT
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
54 16 0.22
55 46 0.62
56 3 0.04
57 9 0.12
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (55 bp):
TAGTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAGAAATGCATACACC
Found at i:887222 original size:19 final size:20
Alignment explanation
Indices: 887198--887240 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
887188 AGCATTTATC
*
887198 TTCATT-AAAATTATGTATT
1 TTCATTAAAAATCATGTATT
*
887217 TTCATTAAAAATCATGTGTT
1 TTCATTAAAAATCATGTATT
887237 TTCA
1 TTCA
887241 AAGGAGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (20 bp):
TTCATTAAAAATCATGTATT
Found at i:892729 original size:17 final size:17
Alignment explanation
Indices: 892707--892750 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
892697 TAATTAAGAG
892707 TTAGTTTAATAAATGAA
1 TTAGTTTAATAAATGAA
* *
892724 TTAGTTTGATGAATGAA
1 TTAGTTTAATAAATGAA
892741 TTAGTTTAAT
1 TTAGTTTAAT
892751 TATAAACTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (17 bp):
TTAGTTTAATAAATGAA
Found at i:899156 original size:24 final size:26
Alignment explanation
Indices: 899107--899157 Score: 79
Period size: 24 Copynumber: 2.0 Consensus size: 26
899097 TTATTATCAT
899107 AATAACTATAGATATATATATATGAA
1 AATAACTATAGATATATATATATGAA
*
899133 AATAACTATA-TTATA-ATATATGAA
1 AATAACTATAGATATATATATATGAA
899157 A
1 A
899158 TAAGCATCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 10 0.42
25 4 0.17
26 10 0.42
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (26 bp):
AATAACTATAGATATATATATATGAA
Found at i:900325 original size:41 final size:42
Alignment explanation
Indices: 900268--900353 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 42
900258 TTGTTTAATA
* *
900268 TATGATATGAGATGGGTA-AAATGAAGGCAAGCTTCTCAATT
1 TATGATATGAGATGGGTACAAATGAAGACAAGCCTCTCAATT
900309 TATGATATGAGATGGGTACAAATGAAGACAAGCCTCTCAATT
1 TATGATATGAGATGGGTACAAATGAAGACAAGCCTCTCAATT
900351 TAT
1 TAT
900354 AGGAAATGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
41 18 0.43
42 24 0.57
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (42 bp):
TATGATATGAGATGGGTACAAATGAAGACAAGCCTCTCAATT
Found at i:901070 original size:23 final size:24
Alignment explanation
Indices: 900968--901072 Score: 74
Period size: 23 Copynumber: 4.3 Consensus size: 24
900958 TTTAAACATT
900968 ATATTATATGATTTATATTTCATA
1 ATATTATATGATTTATATTTCATA
*
900992 ATATGTATAGCTTATCTTATA-TTCAT-
1 ATAT-TATA--TGAT-TTATATTTCATA
* * *** *
901018 -CATTAAATGAAGCATATTTAAT-
1 ATATTATATGATTTATATTTCATA
901040 ATATTATATGATTTATATTTCATA
1 ATATTATATGATTTATATTTCATA
901064 ATATATATA
1 ATAT-TATA
901073 GCTTATCTTG
Statistics
Matches: 59, Mismatches: 14, Indels: 15
0.67 0.16 0.17
Matches are distributed among these distances:
21 3 0.05
22 6 0.10
23 16 0.27
24 11 0.19
25 10 0.17
27 8 0.14
28 5 0.08
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.49
Consensus pattern (24 bp):
ATATTATATGATTTATATTTCATA
Found at i:902219 original size:22 final size:23
Alignment explanation
Indices: 902170--902222 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
902160 TTGATATCAT
902170 TTATTTCCATTTCATTTCTTATC
1 TTATTTCCATTTCATTTCTTATC
*
902193 -AATTTCCATTTC-TTTCATT-TC
1 TTATTTCCATTTCATTTC-TTATC
902214 TTATTTCCA
1 TTATTTCCA
902223 ATTAATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (23 bp):
TTATTTCCATTTCATTTCTTATC
Found at i:902506 original size:29 final size:30
Alignment explanation
Indices: 902470--902526 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
902460 TGGAGTACAA
902470 AAAG-AAAATAAAAGAAGAAAATT-CAAAGC
1 AAAGAAAAATAAAAGAA-AAAATTGCAAAGC
*
902499 AAAGAAAAATAGAAGAAAAAATTGCAAA
1 AAAGAAAAATAAAAGAAAAAATTGCAAA
902527 ATACACTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.70, C:0.05, G:0.14, T:0.11
Consensus pattern (30 bp):
AAAGAAAAATAAAAGAAAAAATTGCAAAGC
Found at i:902671 original size:15 final size:16
Alignment explanation
Indices: 902637--902674 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
902627 GAGTTATAAG
*
902637 TTATCTTCATTTTCTCT
1 TTAT-TTCATTTCCTCT
902654 TTATTTCATTTCCT-T
1 TTATTTCATTTCCTCT
902669 TTATTT
1 TTATTT
902675 GATCCTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 9 0.45
17 4 0.20
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATTTCATTTCCTCT
Found at i:907337 original size:18 final size:18
Alignment explanation
Indices: 907314--907353 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
907304 TGTATGAGTC
*
907314 TTTTCTT-TTCTCTTTTTG
1 TTTTCTTCTT-TCTTTTTA
907332 TTTTCTTCTTTCTTTTTA
1 TTTTCTTCTTTCTTTTTA
907350 TTTT
1 TTTT
907354 TGTTGTAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (18 bp):
TTTTCTTCTTTCTTTTTA
Found at i:910641 original size:19 final size:21
Alignment explanation
Indices: 910593--910644 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
910583 GAAACCCCTT
910593 TGAAAATACATGATTTTTAAG
1 TGAAAATACATGATTTTTAAG
910614 TGAAAATACATGA-TTTTAA-
1 TGAAAATACATGATTTTTAAG
*
910633 TGAAGATACATG
1 TGAAAATACATG
910645 CTCTTGGCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 6 0.20
21 13 0.43
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAG
Found at i:911573 original size:30 final size:31
Alignment explanation
Indices: 911532--911591 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
911522 ACATGTTGCC
**
911532 ATGATATCTAAATGATATGCAAACATAATAA
1 ATGATATCTAAAACATATGCAAACATAATAA
*
911563 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACATATGCAAACATAATA
911592 TAAAGCTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.28
Consensus pattern (31 bp):
ATGATATCTAAAACATATGCAAACATAATAA
Found at i:913348 original size:14 final size:14
Alignment explanation
Indices: 913329--913362 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
913319 GTGTGAAATG
* *
913329 TGTTTGTTCTTTGA
1 TGTTTGTTCTCTAA
913343 TGTTTGTTCTCTAA
1 TGTTTGTTCTCTAA
913357 TGTTTG
1 TGTTTG
913363 GAATGATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.09, C:0.09, G:0.21, T:0.62
Consensus pattern (14 bp):
TGTTTGTTCTCTAA
Found at i:913913 original size:18 final size:17
Alignment explanation
Indices: 913892--913971 Score: 53
Period size: 18 Copynumber: 4.6 Consensus size: 17
913882 CCTTGGCTTG
913892 CTTTCTTTTTGAATTTTT
1 CTTTCTTTTTG-ATTTTT
913910 CTTT-TTCTTT--TCTTTT
1 CTTTCTT-TTTGAT-TTTT
*
913926 ATTT-TTTTCTGATTTTT
1 CTTTCTTTT-TGATTTTT
*
913943 CTCTTC-TTTTGTCTTTTT
1 CT-TTCTTTTTG-ATTTTT
913961 CTTTCTTTTTG
1 CTTTCTTTTTG
913972 CACTCCAATT
Statistics
Matches: 50, Mismatches: 3, Indels: 18
0.70 0.04 0.25
Matches are distributed among these distances:
15 3 0.06
16 10 0.20
17 12 0.24
18 25 0.50
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.75
Consensus pattern (17 bp):
CTTTCTTTTTGATTTTT
Found at i:913949 original size:27 final size:27
Alignment explanation
Indices: 913911--913962 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
913901 TGAATTTTTC
* *
913911 TTTTTCTTTTCTTTTATTTTTTTCTGA
1 TTTTTCTCTTCTTTTATCTTTTTCTGA
*
913938 TTTTTCTCTTCTTTTGTCTTTTTCT
1 TTTTTCTCTTCTTTTATCTTTTTCT
913963 TTCTTTTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.77
Consensus pattern (27 bp):
TTTTTCTCTTCTTTTATCTTTTTCTGA
Found at i:913969 original size:27 final size:27
Alignment explanation
Indices: 913907--913969 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
913897 TTTTTGAATT
* *
913907 TTTCTTTTTCTTTTCTTTTATTTTTTTC
1 TTTC-TTTTCTCTTCTTTTATCTTTTTC
* *
913935 TGAT-TTTTCTCTTCTTTTGTCTTTTTC
1 T-TTCTTTTCTCTTCTTTTATCTTTTTC
913962 TTTCTTTT
1 TTTCTTTT
913970 TGCACTCCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
26 1 0.04
27 25 0.89
28 1 0.04
29 1 0.04
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (27 bp):
TTTCTTTTCTCTTCTTTTATCTTTTTC
Found at i:914718 original size:19 final size:21
Alignment explanation
Indices: 914678--914726 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
914668 AACCCCTTTG
*
914678 AAATACATGATTTTTAAATGA
1 AAATACATGATTGTTAAATGA
914699 AAATACATGA-TGTT-AATGA
1 AAATACATGATTGTTAAATGA
*
914718 AGATACATG
1 AAATACATG
914727 CTCTTGGCCG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 13 0.50
20 3 0.12
21 10 0.38
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (21 bp):
AAATACATGATTGTTAAATGA
Found at i:915655 original size:30 final size:31
Alignment explanation
Indices: 915614--915673 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
915604 ACATGTTGCC
**
915614 ATGATATCTAAATGATATGCAAACATAATAA
1 ATGATATCTAAAACATATGCAAACATAATAA
*
915645 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACATATGCAAACATAATA
915674 TAAAGCTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.28
Consensus pattern (31 bp):
ATGATATCTAAAACATATGCAAACATAATAA
Found at i:926700 original size:14 final size:15
Alignment explanation
Indices: 926681--926711 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
926671 TTTCCTTGGA
926681 TTTATTGGTG-AGAT
1 TTTATTGGTGAAGAT
926695 TTTATTGGTGAAGAT
1 TTTATTGGTGAAGAT
926710 TT
1 TT
926712 AAATATTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.52
Consensus pattern (15 bp):
TTTATTGGTGAAGAT
Found at i:928737 original size:1 final size:1
Alignment explanation
Indices: 928687--928723 Score: 65
Period size: 1 Copynumber: 37.0 Consensus size: 1
928677 GCTATTTTTT
*
928687 AAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
928724 CACCCAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:929803 original size:20 final size:21
Alignment explanation
Indices: 929760--929805 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
929750 CAACCTTAAT
*
929760 TCCTAATAAAATAATAAATGA
1 TCCTAATAAAATAATAAATCA
* *
929781 TCCTAA-AAGATAATTAATCA
1 TCCTAATAAAATAATAAATCA
929801 TCCTA
1 TCCTA
929806 TATTAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.30
Consensus pattern (21 bp):
TCCTAATAAAATAATAAATCA
Found at i:935494 original size:10 final size:10
Alignment explanation
Indices: 935481--935542 Score: 69
Period size: 10 Copynumber: 6.4 Consensus size: 10
935471 TTTTTTGAAA
*
935481 TTTTGGCTTT
1 TTTTGCCTTT
935491 TTTTGCCTTT
1 TTTTGCCTTT
935501 TTTTGCCTTTT
1 TTTTGCC-TTT
935512 TTTTGCCTTT
1 TTTTGCCTTT
935522 TATTT---TTT
1 T-TTTGCCTTT
935530 TTTTG-CTTT
1 TTTTGCCTTT
935539 TTTT
1 TTTT
935543 TTTTGTTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
7 3 0.06
8 4 0.09
9 7 0.15
10 20 0.43
11 13 0.28
ACGTcount: A:0.02, C:0.13, G:0.10, T:0.76
Consensus pattern (10 bp):
TTTTGCCTTT
Found at i:935504 original size:11 final size:11
Alignment explanation
Indices: 935488--935527 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
935478 AAATTTTGGC
935488 TTTTTTTGCC-
1 TTTTTTTGCCT
935498 TTTTTTTGCCT
1 TTTTTTTGCCT
935509 TTTTTTTGCCT
1 TTTTTTTGCCT
935520 TTTATTTT
1 TTT-TTTT
935528 TTTTTTGCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.36
11 14 0.50
12 4 0.14
ACGTcount: A:0.03, C:0.15, G:0.07, T:0.75
Consensus pattern (11 bp):
TTTTTTTGCCT
Found at i:935528 original size:17 final size:16
Alignment explanation
Indices: 935508--935566 Score: 68
Period size: 16 Copynumber: 3.6 Consensus size: 16
935498 TTTTTTTGCC
935508 TTTTTTTTGCCTTTTATT
1 TTTTTTTTG-CTTTT-TT
935526 TTTTTTTTGCTTTTTT
1 TTTTTTTTGCTTTTTT
935542 TTTTTGTTT--TTTTTT
1 TTTTT-TTTGCTTTTTT
935557 TGTTTTTTTG
1 T-TTTTTTTG
935567 AAACAAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.26
16 11 0.29
17 8 0.21
18 9 0.24
ACGTcount: A:0.02, C:0.05, G:0.08, T:0.85
Consensus pattern (16 bp):
TTTTTTTTGCTTTTTT
Found at i:935539 original size:12 final size:11
Alignment explanation
Indices: 935519--935565 Score: 67
Period size: 11 Copynumber: 4.1 Consensus size: 11
935509 TTTTTTTGCC
*
935519 TTTTATTTTTT
1 TTTTGTTTTTT
935530 TTTTGCTTTTTTT
1 TTTTG--TTTTTT
935543 TTTTGTTTTTT
1 TTTTGTTTTTT
935554 TTTTGTTTTTT
1 TTTTGTTTTTT
935565 T
1 T
935566 GAAACAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
11 22 0.67
13 11 0.33
ACGTcount: A:0.02, C:0.02, G:0.06, T:0.89
Consensus pattern (11 bp):
TTTTGTTTTTT
Found at i:935539 original size:24 final size:24
Alignment explanation
Indices: 935512--935563 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
935502 TTTGCCTTTT
935512 TTTTGCCTTTTATTTTTTTTTTGC
1 TTTTGCCTTTTATTTTTTTTTTGC
*** * *
935536 TTTTTTTTTTTGTTTTTTTTTTGT
1 TTTTGCCTTTTATTTTTTTTTTGC
935560 TTTT
1 TTTT
935564 TTGAAACAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.02, C:0.06, G:0.08, T:0.85
Consensus pattern (24 bp):
TTTTGCCTTTTATTTTTTTTTTGC
Found at i:935551 original size:10 final size:10
Alignment explanation
Indices: 935488--935565 Score: 52
Period size: 10 Copynumber: 7.5 Consensus size: 10
935478 AAATTTTGGC
**
935488 TTTTTTTGCC
1 TTTTTTTGTT
*
935498 TTTTTTTGCCT
1 TTTTTTTG-TT
935509 TTTTTTTGCCTT
1 TTTTTTTG--TT
935521 TTATTTTT-TT
1 TT-TTTTTGTT
**
935531 TTTGCTT-TT
1 TTTTTTTGTT
935540 TTTTTTTGTTT
1 TTTTTTTG-TT
935551 TTTTTTTGTT
1 TTTTTTTGTT
935561 TTTTT
1 TTTTT
935566 GAAACAAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
9 10 0.18
10 19 0.33
11 19 0.33
12 4 0.07
13 5 0.09
ACGTcount: A:0.01, C:0.09, G:0.08, T:0.82
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:935551 original size:18 final size:17
Alignment explanation
Indices: 935488--935566 Score: 72
Period size: 21 Copynumber: 4.5 Consensus size: 17
935478 AAATTTTGGC
935488 TTTTTTTGCCTTTTTTTGCCT
1 TTTTTTTG-CTTTTTTT---T
*
935509 TTTTTTTGCCTTTTATTT
1 TTTTTTTG-CTTTTTTTT
935527 TTTTTTTGCTTTTTTTT
1 TTTTTTTGCTTTTTTTT
* *
935544 TTTGTTT--TTTTTTTG
1 TTTTTTTGCTTTTTTTT
935559 TTTTTTTG
1 TTTTTTTG
935567 AAACAAAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
15 13 0.25
17 14 0.27
18 9 0.17
21 16 0.31
ACGTcount: A:0.01, C:0.09, G:0.09, T:0.81
Consensus pattern (17 bp):
TTTTTTTGCTTTTTTTT
Found at i:935564 original size:24 final size:24
Alignment explanation
Indices: 935519--935565 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
935509 TTTTTTTGCC
935519 TTTTATTTTTTTTTTGCTTTTTTT
1 TTTTATTTTTTTTTTGCTTTTTTT
*
935543 TTTTGTTTTTTTTTTG-TTTTTTT
1 TTTTATTTTTTTTTTGCTTTTTTT
935566 GAAACAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.02, C:0.02, G:0.06, T:0.89
Consensus pattern (24 bp):
TTTTATTTTTTTTTTGCTTTTTTT
Found at i:942191 original size:11 final size:10
Alignment explanation
Indices: 942177--942224 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
942167 AAATTTTGGC
942177 TTTTTTTTTG
1 TTTTTTTTTG
942187 -TTTTTTTTG
1 TTTTTTTTTG
**
942196 GCTTTTTTTG
1 TTTTTTTTTG
942206 TTTTTTTTTTG
1 -TTTTTTTTTG
942217 TTTTTTTT
1 TTTTTTTT
942225 AAAAAAATAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 9 0.27
10 16 0.48
11 8 0.24
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:942194 original size:21 final size:20
Alignment explanation
Indices: 942170--942224 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
942160 TTTTTTGAAA
942170 TTTTGGCTTTTTTTTTGTTTT
1 TTTTGGCTTTTTTTTT-TTTT
942191 TTTTGGCTTTTTTTGTTTTTT
1 TTTTGGCTTTTTTT-TTTTTT
942212 TTTT-G-TTTTTTTT
1 TTTTGGCTTTTTTTT
942225 AAAAAAATAG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
18 1 0.03
19 7 0.21
20 1 0.03
21 22 0.67
22 2 0.06
ACGTcount: A:0.00, C:0.04, G:0.13, T:0.84
Consensus pattern (20 bp):
TTTTGGCTTTTTTTTTTTTT
Found at i:942595 original size:15 final size:16
Alignment explanation
Indices: 942575--942611 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
942565 TATTAGAATA
942575 AAATAAACAAAAGAT-
1 AAATAAACAAAAGATG
*
942590 AAATAAACAGAAGATG
1 AAATAAACAAAAGATG
942606 AAATAA
1 AAATAA
942612 GATAATAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.70, C:0.05, G:0.11, T:0.14
Consensus pattern (16 bp):
AAATAAACAAAAGATG
Found at i:943098 original size:15 final size:16
Alignment explanation
Indices: 943078--943114 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
943068 GATTAGAATA
943078 AAATAAACAAAAGAT-
1 AAATAAACAAAAGATG
*
943093 AAATAAACGAAAGATG
1 AAATAAACAAAAGATG
943109 AAATAA
1 AAATAA
943115 GATAATAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.70, C:0.05, G:0.11, T:0.14
Consensus pattern (16 bp):
AAATAAACAAAAGATG
Found at i:944015 original size:11 final size:11
Alignment explanation
Indices: 943999--944051 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
943989 TGCTATTTTT
943999 AAAAAAAAACA
1 AAAAAAAAACA
944010 AAAAAAAAAGGCA
1 AAAAAAAAA--CA
**
944023 AAAAAAAGGC-
1 AAAAAAAAACA
944033 AAAAAAAAACA
1 AAAAAAAAACA
944044 AAAAAAAA
1 AAAAAAAA
944052 GCCAAAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 8 0.23
11 18 0.51
13 9 0.26
ACGTcount: A:0.85, C:0.08, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:944058 original size:11 final size:11
Alignment explanation
Indices: 944011--944058 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
944001 AAAAAAACAA
*
944011 AAAAAAAAGGC
1 AAAAAAAAGCC
*
944022 AAAAAAAAGGC
1 AAAAAAAAGCC
* *
944033 AAAAAAAAACA
1 AAAAAAAAGCC
944044 AAAAAAAAGCC
1 AAAAAAAAGCC
944055 AAAA
1 AAAA
944059 TTTCAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.79, C:0.10, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGCC
Found at i:946663 original size:9 final size:9
Alignment explanation
Indices: 946649--946684 Score: 72
Period size: 9 Copynumber: 4.0 Consensus size: 9
946639 TAATAACTCG
946649 GATATTTCT
1 GATATTTCT
946658 GATATTTCT
1 GATATTTCT
946667 GATATTTCT
1 GATATTTCT
946676 GATATTTCT
1 GATATTTCT
946685 ACCCATACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.56
Consensus pattern (9 bp):
GATATTTCT
Found at i:948166 original size:15 final size:16
Alignment explanation
Indices: 948135--948171 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
948125 CTTTATTATC
948135 TTATTTCATCTTCTGT
1 TTATTTCATCTTCTGT
*
948151 TTATTT-ATCTTTTGT
1 TTATTTCATCTTCTGT
948166 TTATTT
1 TTATTT
948172 TATTCTAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.14, C:0.11, G:0.05, T:0.70
Consensus pattern (16 bp):
TTATTTCATCTTCTGT
Found at i:949721 original size:17 final size:17
Alignment explanation
Indices: 949701--949752 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
949691 TTGAATAAGT
949701 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
* *
949718 TAGTTCATTCATCAAAC
1 TAGTTCATTAATTAAAC
*
949735 TAGTTCATTTA-TAAAC
1 TAGTTCATTAATTAAAC
949751 TA
1 TA
949753 ACTCTTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 6 0.19
17 25 0.81
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.40
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:953564 original size:35 final size:35
Alignment explanation
Indices: 953526--953639 Score: 201
Period size: 35 Copynumber: 3.3 Consensus size: 35
953516 GATTTATATT
* *
953526 TTATCATATGTTTGTATTTACCTCTCGTGATATGT
1 TTATCATATGTTTGTATTTACCTCTTGTGATATGC
*
953561 TTATCATATGTTTGTATTTACCTCTTATGATATGC
1 TTATCATATGTTTGTATTTACCTCTTGTGATATGC
953596 TTATCATATGTTTGTATTTACCTCTTGTGATATGC
1 TTATCATATGTTTGTATTTACCTCTTGTGATATGC
953631 TTATCATAT
1 TTATCATAT
953640 TATATCATTC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 75 1.00
ACGTcount: A:0.22, C:0.14, G:0.12, T:0.52
Consensus pattern (35 bp):
TTATCATATGTTTGTATTTACCTCTTGTGATATGC
Found at i:953808 original size:21 final size:17
Alignment explanation
Indices: 953745--953819 Score: 98
Period size: 17 Copynumber: 4.4 Consensus size: 17
953735 TTTAAAGCAT
953745 CTAGTTCATTGAA-TAAA
1 CTAGTTCATT-AATTAAA
*
953762 GTTAGTTCATTAATTAAA
1 -CTAGTTCATTAATTAAA
953780 CTAGTTCATTAATTAAA
1 CTAGTTCATTAATTAAA
* *
953797 CTAGTTCATTCATCAAA
1 CTAGTTCATTAATTAAA
953814 CTAGTT
1 CTAGTT
953820 TAAACTAACT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
17 39 0.75
18 13 0.25
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.40
Consensus pattern (17 bp):
CTAGTTCATTAATTAAA
Found at i:955829 original size:14 final size:14
Alignment explanation
Indices: 955792--955830 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
955782 AGTTCCTTAA
*
955792 TTAAACTAGTTCAT
1 TTAAACTAATTCAT
955806 TCTCAAACTAATTCAT
1 T-T-AAACTAATTCAT
955822 TTAAACTAA
1 TTAAACTAA
955831 CTCTTAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 8 0.36
15 2 0.09
16 12 0.55
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (14 bp):
TTAAACTAATTCAT
Found at i:958617 original size:25 final size:25
Alignment explanation
Indices: 958583--958638 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
958573 TGCAACTGTA
958583 CACACATATTTAAAGACCCAAAGGC
1 CACACATATTTAAAGACCCAAAGGC
958608 CACACATATTTAAAGACCCAAAGGC
1 CACACATATTTAAAGACCCAAAGGC
958633 CACACA
1 CACACA
958639 ACACTAACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.45, C:0.30, G:0.11, T:0.14
Consensus pattern (25 bp):
CACACATATTTAAAGACCCAAAGGC
Found at i:963270 original size:96 final size:96
Alignment explanation
Indices: 963136--963315 Score: 245
Period size: 96 Copynumber: 1.9 Consensus size: 96
963126 CAATAGATTT
*
963136 TGATCCATAAATTAGGAACAATCATATTTTCCAATGAAAACAGAAAACCAGATAACACATTTCAG
1 TGATCCATAAATCAGGAACAATCATATTTTCCAATGAAAACAGAAAACCAGATAACACATTTCAG
*
963201 GTAACCATAGTTCATAAACCGTTAGATTCCA
66 GAAACCATAGTTCATAAACCGTTAGATTCCA
* * * * ** * * *
963232 TGATCCATAAATCCA-GAACTATTATATTTTCTATTGAAAATGGGAAACCATATAATACATTTCA
1 TGATCCATAAAT-CAGGAACAATCATATTTTCCAATGAAAACAGAAAACCAGATAACACATTTCA
963296 GGAAACCATAGTTCATAAAC
65 GGAAACCATAGTTCATAAAC
963316 AGTAAATTAG
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
96 71 0.99
97 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.28
Consensus pattern (96 bp):
TGATCCATAAATCAGGAACAATCATATTTTCCAATGAAAACAGAAAACCAGATAACACATTTCAG
GAAACCATAGTTCATAAACCGTTAGATTCCA
Found at i:964286 original size:147 final size:147
Alignment explanation
Indices: 964019--964315 Score: 576
Period size: 147 Copynumber: 2.0 Consensus size: 147
964009 TCACTTAATC
964019 CAAGTCATAAAGATATTTAGGTAATATTGACATTTAGGGTTATTTTAGTCATTTTTTGGTCCAGA
1 CAAGTCATAAAGATATTTAGGTAATATTGACATTTAGGGTTATTTTAGTCATTTTTTGGTCCAGA
*
964084 CACATTAGTTATTTCAAAACTTGAGAATAATTCATCATTTAAATATTTTTGTGACGTGACACACT
66 CACATTAGTTATTTCAAAACTTGAGAATAATTCATCATTTAAATACTTTTGTGACGTGACACACT
964149 TCCAGTAATATAATCCT
131 TCCAGTAATATAATCCT
964166 CAAGTCATAAAGATATTTAGGTAATATTGACATTTAGGGTTATTTTAGTCATTTTTTGGTCCAGA
1 CAAGTCATAAAGATATTTAGGTAATATTGACATTTAGGGTTATTTTAGTCATTTTTTGGTCCAGA
964231 CACATTAGTTATTTCAAAACTTGAGAATAATTCATCATTTAAATACTTTTGTGACGTGACACACT
66 CACATTAGTTATTTCAAAACTTGAGAATAATTCATCATTTAAATACTTTTGTGACGTGACACACT
*
964296 TCCAGTAATCTAATCCT
131 TCCAGTAATATAATCCT
964313 CAA
1 CAA
964316 TTAATCATTC
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 148 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.39
Consensus pattern (147 bp):
CAAGTCATAAAGATATTTAGGTAATATTGACATTTAGGGTTATTTTAGTCATTTTTTGGTCCAGA
CACATTAGTTATTTCAAAACTTGAGAATAATTCATCATTTAAATACTTTTGTGACGTGACACACT
TCCAGTAATATAATCCT
Found at i:966234 original size:27 final size:27
Alignment explanation
Indices: 966196--966251 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
966186 TTTTATCGGG
*
966196 GGGTTTATTTTTTACTAACAAAAAATA
1 GGGTTTATTTTTCACTAACAAAAAATA
**
966223 GGGTTTATTTTTCACTAACCTAAAATA
1 GGGTTTATTTTTCACTAACAAAAAATA
966250 GG
1 GG
966252 TAAAATTTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (27 bp):
GGGTTTATTTTTCACTAACAAAAAATA
Found at i:968696 original size:12 final size:12
Alignment explanation
Indices: 968679--968727 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
968669 CTGAAATTTT
968679 AAAACATGTTAG
1 AAAACATGTTAG
968691 AAAACATGTTAG
1 AAAACATGTTAG
**
968703 --AATGTGTTA-
1 AAAACATGTTAG
968712 AAAACATGTTAG
1 AAAACATGTTAG
968724 AAAA
1 AAAA
968728 AGTGGTATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
10 7 0.23
11 7 0.23
12 16 0.53
ACGTcount: A:0.51, C:0.06, G:0.16, T:0.27
Consensus pattern (12 bp):
AAAACATGTTAG
Found at i:968717 original size:21 final size:22
Alignment explanation
Indices: 968685--968725 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
968675 TTTTAAAACA
968685 TGTTAGAAAACATGTTAGAATG
1 TGTTAGAAAACATGTTAGAATG
968707 TGTTA-AAAACATGTTAGAA
1 TGTTAGAAAACATGTTAGAA
968726 AAAGTGGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.32
Consensus pattern (22 bp):
TGTTAGAAAACATGTTAGAATG
Found at i:969442 original size:81 final size:81
Alignment explanation
Indices: 969301--969712 Score: 511
Period size: 81 Copynumber: 5.1 Consensus size: 81
969291 CTATTTTAAA
* * * * *
969301 TAAAAGATTAATTTCCTAGCTATACGTTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
969366 GTTTAATACCTTTGAG
66 GTTTAATACCTTTGAG
* * *
969382 AAAAATATTAATTGTCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
969447 GTTTAATACCTTTGAG
66 GTTTAATACCTTTGAG
* * *
969463 TAAAAGATTAATTACCTAG-TCGTGCATTTAACAGAAAGGTATCAATTATGCCAGTTAGATGAAA
1 TAAAAGATTAATTGCCTAGCT-GTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
969527 GGTTTAATACCTTTGAG
65 GGTTTAATACCTTTGAG
* * * *
969544 TAAAAGATTAGTTGCCTAGCTATGCATTTGATAGAAAGGTGTCAATTATGCCAGTTATATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* * ** *
969609 GCTAAATGGCTTTGAT
66 GTTTAATACCTTTGAG
* * * * * * * * *
969625 TTAAAGACTAAATGTCTAGTTGTGCATTTGGCAGAAATGTGTCAATCATGCAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* * * *
969690 GCTAAATTCCTTTGGG
66 GTTTAATACCTTTGAG
969706 TAAAAGA
1 TAAAAGA
969713 CTAAATGTTG
Statistics
Matches: 285, Mismatches: 44, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
80 1 0.00
81 283 0.99
82 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.33
Consensus pattern (81 bp):
TAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTTAATACCTTTGAG
Found at i:972593 original size:18 final size:18
Alignment explanation
Indices: 972570--972611 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
972560 GCTTTTAAAA
*
972570 GATTATGATTTGATTATT
1 GATTATAATTTGATTATT
972588 GATTATAATTTGATTATT
1 GATTATAATTTGATTATT
*
972606 CATTAT
1 GATTAT
972612 CATCCCGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (18 bp):
GATTATAATTTGATTATT
Found at i:974995 original size:94 final size:96
Alignment explanation
Indices: 974884--975064 Score: 237
Period size: 96 Copynumber: 1.9 Consensus size: 96
974874 CGATACCAAA
* *
974884 AAGGAAAGTATCAATACCATGGATTCCAGAATGCCA-AAATAGT-A-T-CGATA-CTAAAGGGAG
1 AAGGAAAGTATCAATACCATAGA-TCCAGAATG-CATAAATAGTGAGTGC-ATACCGAAAGGGAG
*
974944 TATCGATACCATAGTATAGAAGTATCAGCACTAT
63 TATCGATACCATAGTATAAAAGTATCAGCACTAT
* *
974978 AAGGAAAGTATCGATACCATAGATCCAGAATGCATAAATGGTGAGTGCATACCGAAAGGGAGTAT
1 AAGGAAAGTATCAATACCATAGATCCAGAATGCATAAATAGTGAGTGCATACCGAAAGGGAGTAT
* *
975043 CGGTACTATAGTATAAAAGTAT
66 CGATACCATAGTATAAAAGTAT
975065 TGATACCATG
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
92 2 0.03
93 15 0.20
94 22 0.29
95 4 0.05
96 32 0.43
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (96 bp):
AAGGAAAGTATCAATACCATAGATCCAGAATGCATAAATAGTGAGTGCATACCGAAAGGGAGTAT
CGATACCATAGTATAAAAGTATCAGCACTAT
Found at i:976922 original size:24 final size:24
Alignment explanation
Indices: 976863--976928 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
976853 GGTTCTACGC
* *
976863 GGTCCTTCGGGA-AAAATCTATGT
1 GGTCATTCGGGACAAATTCTATGT
* **
976886 GGTCCTTTTGGACAAATTCTATGT
1 GGTCATTCGGGACAAATTCTATGT
*
976910 TGTCATTCGGGACAAATTC
1 GGTCATTCGGGACAAATTC
976929 GACGTGGCAC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
23 10 0.29
24 25 0.71
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (24 bp):
GGTCATTCGGGACAAATTCTATGT
Found at i:979214 original size:8 final size:8
Alignment explanation
Indices: 979203--979263 Score: 68
Period size: 9 Copynumber: 7.0 Consensus size: 8
979193 TTTTTTTTTT
979203 CAAAAAAA
1 CAAAAAAA
979211 CAAAAAAAA
1 C-AAAAAAA
979220 GGCAAAAAAA
1 --CAAAAAAA
*
979230 CAAAAAAGG
1 CAAAAAA-A
979239 CAAAAAAA
1 CAAAAAAA
979247 CAAAAAAA
1 CAAAAAAA
979255 CCAAAAAAA
1 -CAAAAAAA
979264 GCCAAAAAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
8 16 0.35
9 22 0.48
10 7 0.15
11 1 0.02
ACGTcount: A:0.80, C:0.13, G:0.07, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:979234 original size:17 final size:17
Alignment explanation
Indices: 979203--979279 Score: 91
Period size: 17 Copynumber: 4.3 Consensus size: 17
979193 TTTTTTTTTT
*
979203 CAAAAAAACAAAAAAAAGG
1 CAAAAAAAC--AAAAAAGC
*
979222 CAAAAAAACAAAAAAGG
1 CAAAAAAACAAAAAAGC
*
979239 CAAAAAAACAAAAAAAC
1 CAAAAAAACAAAAAAGC
979256 CAAAAAAAGCCAAAAAAGC
1 CAAAAAAA--CAAAAAAGC
979275 CAAAA
1 CAAAA
979280 TTTCAAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
17 31 0.58
19 22 0.42
ACGTcount: A:0.77, C:0.16, G:0.08, T:0.00
Consensus pattern (17 bp):
CAAAAAAACAAAAAAGC
Found at i:979250 original size:36 final size:35
Alignment explanation
Indices: 979203--979279 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 35
979193 TTTTTTTTTT
* *
979203 CAAAAAAACAAAAAAAAGGCAAAAAAA-CAAAAAAGG
1 CAAAAAAAC-AAAAAAA-CCAAAAAAACCAAAAAAGC
979239 CAAAAAAACAAAAAAACCAAAAAAAGCCAAAAAAGC
1 CAAAAAAACAAAAAAACCAAAAAAA-CCAAAAAAGC
979275 CAAAA
1 CAAAA
979280 TTTCAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
34 8 0.22
35 7 0.19
36 22 0.59
ACGTcount: A:0.77, C:0.16, G:0.08, T:0.00
Consensus pattern (35 bp):
CAAAAAAACAAAAAAACCAAAAAAACCAAAAAAGC
Found at i:979270 original size:9 final size:9
Alignment explanation
Indices: 979214--979279 Score: 64
Period size: 9 Copynumber: 7.4 Consensus size: 9
979204 AAAAAAACAA
*
979214 AAAAAAGGC
1 AAAAAAGCC
*
979223 AAAAAA-AC
1 AAAAAAGCC
*
979231 AAAAAAGGC
1 AAAAAAGCC
*
979240 AAAAAA-AC
1 AAAAAAGCC
*
979248 AAAAAAACC
1 AAAAAAGCC
979257 AAAAAAAGCC
1 -AAAAAAGCC
979267 AAAAAAGCC
1 AAAAAAGCC
979276 AAAA
1 AAAA
979280 TTTCAAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
8 14 0.29
9 27 0.55
10 8 0.16
ACGTcount: A:0.76, C:0.15, G:0.09, T:0.00
Consensus pattern (9 bp):
AAAAAAGCC
Found at i:988308 original size:19 final size:19
Alignment explanation
Indices: 988284--988330 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
988274 ATCAGATTGT
*
988284 CCAGGGGTG-CAGATTCCCC
1 CCAGGGG-GACAGATTCCCA
988303 CCAGGGGGAACAGATTCCCA
1 CCAGGGGG-ACAGATTCCCA
988323 CCAGGGGG
1 CCAGGGGG
988331 TATCGATTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 1 0.04
19 7 0.28
20 17 0.68
ACGTcount: A:0.21, C:0.32, G:0.36, T:0.11
Consensus pattern (19 bp):
CCAGGGGGACAGATTCCCA
Found at i:988341 original size:20 final size:20
Alignment explanation
Indices: 988293--988330 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
988283 TCCAGGGGTG
*
988293 CAGATTCCCCCCAGGGGGAA
1 CAGATTCCCACCAGGGGGAA
988313 CAGATTCCCACCAGGGGG
1 CAGATTCCCACCAGGGGG
988331 TATCGATTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
CAGATTCCCACCAGGGGGAA
Found at i:988370 original size:34 final size:35
Alignment explanation
Indices: 988308--988389 Score: 114
Period size: 35 Copynumber: 2.4 Consensus size: 35
988298 TCCCCCCAGG
988308 GGGAACAGATTCCCACCAGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCACCAGGGGGTATCGATTCCCC
* *
988343 GGGAACATATTCCCCCCA-GGGGTATCGATT-CCC
1 GGGAACAGATTCCCACCAGGGGGTATCGATTCCCC
* *
988376 AGGTACAGATTCCC
1 GGGAACAGATTCCC
988390 CCTGCATGGT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 14 0.33
34 12 0.29
35 16 0.38
ACGTcount: A:0.23, C:0.32, G:0.26, T:0.20
Consensus pattern (35 bp):
GGGAACAGATTCCCACCAGGGGGTATCGATTCCCC
Found at i:988530 original size:21 final size:21
Alignment explanation
Indices: 988504--988545 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
988494 ATTTGAATAT
*
988504 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
988525 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
988546 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:988852 original size:34 final size:32
Alignment explanation
Indices: 988813--988882 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
988803 TTTTGTAAAG
* *
988813 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTATAGCTTAGCCCG-G-AAAAACTA
*
988847 GGGAAAGGTTATAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTATAGCTTAGCCCGGAAAAACTA
988879 GGGA
1 GGGA
988883 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTATAGCTTAGCCCGGAAAAACTA
Found at i:991873 original size:20 final size:20
Alignment explanation
Indices: 991848--991905 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
991838 CAGATTGTCT
991848 AGGGGGTACAGATTCCCCCC
1 AGGGGGTACAGATTCCCCCC
* *
991868 AGGGGGAACAGATTCCCCCT
1 AGGGGGTACAGATTCCCCCC
*
991888 AGGGGTTATC-GATTCCCC
1 AGGGGGTA-CAGATTCCCC
991906 GGGAGTAGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.21, C:0.31, G:0.29, T:0.19
Consensus pattern (20 bp):
AGGGGGTACAGATTCCCCCC
Found at i:991950 original size:34 final size:35
Alignment explanation
Indices: 991875--991958 Score: 111
Period size: 34 Copynumber: 2.4 Consensus size: 35
991865 CCCAGGGGGA
991875 ACAGA-TTCCCCCTAGGGGTTATCGATTCCCCGGG
1 ACAGATTTCCCCCTAGGGGTTATCGATTCCCCGGG
*
991909 AGTAGATTTCCCCC-AGGGG-TATCGATTCCCCGGG
1 A-CAGATTTCCCCCTAGGGGTTATCGATTCCCCGGG
*
991943 TACAGATTCCCCCCTA
1 -ACAGATTTCCCCCTA
991959 CATGGTTTGG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
34 26 0.60
35 10 0.23
36 7 0.16
ACGTcount: A:0.19, C:0.33, G:0.24, T:0.24
Consensus pattern (35 bp):
ACAGATTTCCCCCTAGGGGTTATCGATTCCCCGGG
Found at i:992095 original size:21 final size:21
Alignment explanation
Indices: 992069--992110 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
992059 ATTTGAATAT
*
992069 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
992090 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
992111 CCTATTCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:992433 original size:34 final size:32
Alignment explanation
Indices: 992394--992463 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
992384 TTTTGTAAAG
* *
992394 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTATAGCTTAGCCCG-G-AAAAACTA
*
992428 GGGAAAGGTTATAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTATAGCTTAGCCCGGAAAAACTA
992460 GGGA
1 GGGA
992464 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTATAGCTTAGCCCGGAAAAACTA
Found at i:995456 original size:20 final size:20
Alignment explanation
Indices: 995431--995490 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
995421 ATCAGATTGT
995431 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
*
995451 CCAGGGGGAACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
*
995471 CCAGGGTGTATC-GATTCCCC
1 CCAGGGGGTA-CAGATTCCCC
995491 GGGAACAGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 35 0.97
21 1 0.03
ACGTcount: A:0.20, C:0.35, G:0.28, T:0.17
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:995516 original size:34 final size:35
Alignment explanation
Indices: 995456--995540 Score: 145
Period size: 34 Copynumber: 2.5 Consensus size: 35
995446 TCCCCCCAGG
995456 GGGAACAGATTCCCCCCAGGGTGTATCGATTCCCC
1 GGGAACAGATTCCCCCCAGGGTGTATCGATTCCCC
*
995491 GGGAACAGATTCCCCCCATGG-GTATCGATTCCCC
1 GGGAACAGATTCCCCCCAGGGTGTATCGATTCCCC
*
995525 GGGTACAGATTCCCCC
1 GGGAACAGATTCCCCC
995541 TGCATGGTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
34 28 0.58
35 20 0.42
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (35 bp):
GGGAACAGATTCCCCCCAGGGTGTATCGATTCCCC
Found at i:995535 original size:15 final size:15
Alignment explanation
Indices: 995483--995539 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
995473 AGGGTGTATC
*
995483 GATTCCCCGGGAACA
1 GATTCCCCGGGTACA
995498 GATTCCCCCCATGGGTATC-
1 GATT--CCCC--GGGTA-CA
995517 GATTCCCCGGGTACA
1 GATTCCCCGGGTACA
995532 GATTCCCC
1 GATTCCCC
995540 CTGCATGGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
14 1 0.03
15 17 0.49
17 8 0.23
19 8 0.23
20 1 0.03
ACGTcount: A:0.19, C:0.37, G:0.23, T:0.21
Consensus pattern (15 bp):
GATTCCCCGGGTACA
Found at i:995607 original size:21 final size:22
Alignment explanation
Indices: 995577--995618 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
995567 ATATTACTCG
995577 GAGGGAACCGATTCCC-CACTT
1 GAGGGAACCGATTCCCTCACTT
*
995598 GAGGGTACCGATTCCCTCACT
1 GAGGGAACCGATTCCCTCACT
995619 GTTCATCAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.21, C:0.33, G:0.24, T:0.21
Consensus pattern (22 bp):
GAGGGAACCGATTCCCTCACTT
Found at i:997482 original size:65 final size:65
Alignment explanation
Indices: 997349--997507 Score: 227
Period size: 65 Copynumber: 2.5 Consensus size: 65
997339 GCACTAAGAG
* *
997349 TGCATCGATGCATCAAATGCATTCGATG-TTTCAAAATAGCCTGAGTGCATCGATGCATGGTTGG
1 TGCATCGATGCATCAAATGAATTCGATGTTTTCAAAATAGCCTGAGTGCATCGATGCATGGTTGA
*
997413 TGCATCGATGCATCAAATGTATTCGATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATGGTA
1 TGCATCGATGCATCAAATGAATTCGATGTTTTCA-AAATAGC-CTGAGTGCATCGATGCATGGT-
997476 T-A
63 TGA
*
997478 TGCATCGATGCATGAAATGAATTCGATGTT
1 TGCATCGATGCATCAAATGAATTCGATGTT
997508 CAATTTATTC
Statistics
Matches: 87, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
64 28 0.32
65 55 0.63
66 4 0.05
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (65 bp):
TGCATCGATGCATCAAATGAATTCGATGTTTTCAAAATAGCCTGAGTGCATCGATGCATGGTTGA
Found at i:997547 original size:65 final size:63
Alignment explanation
Indices: 997348--997549 Score: 214
Period size: 65 Copynumber: 3.1 Consensus size: 63
997338 TGCACTAAGA
* * *
997348 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGGTTG
1 GTGCATCGATGCATCAAATGAATTCGATGTTTC-AATTAACCTGAGTGCATCGATGCATGGTTG
* *
997412 GTGCATCGATGCATCAAATGTATTCGATGTTTTC-ATAAAACTCTGAGTGCATCGATGCATGGTA
1 GTGCATCGATGCATCAAATGAATTCGATG-TTTCAAT-TAAC-CTGAGTGCATCGATGCATGGT-
997476 T-
62 TG
* * * *
997477 ATGCATCGATGCATGAAATGAATTCGATG-TTCAATTTATTCCATG-GTGCATTGATGCATGGAT
1 GTGCATCGATGCATCAAATGAATTCGATGTTTCAA-TTA-ACC-TGAGTGCATCGATGCATGG-T
997540 TG
62 TG
997542 GTGCATCG
1 GTGCATCG
997550 GTGTATCACT
Statistics
Matches: 117, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
63 4 0.03
64 49 0.42
65 63 0.54
66 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGAATTCGATGTTTCAATTAACCTGAGTGCATCGATGCATGGTTG
Found at i:1005955 original size:65 final size:65
Alignment explanation
Indices: 1005822--1006029 Score: 239
Period size: 65 Copynumber: 3.2 Consensus size: 65
1005812 TGCACTAAGA
* *
1005822 GTGCACCGATGCATAAAATGCATTCGATG-TTTCAAAATAGCCTGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATGGCTG
*
1005886 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ACCCTGAGTGCATCGATGCATGG-T
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATACCCTGAGTGCATCGATGCATGGCT
*
1005949 AT
65 -G
* * * *
1005951 GTGCATCGATGCATGAAATGCATTCGATG--TTCAATTTATTCCATG-GTGCATCGATGCATGGA
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAA--AATACCCTGAGTGCATCGATGCATGG-
*
1006013 TTG
63 CTG
*
1006016 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
1006030 CACTTTAAAA
Statistics
Matches: 126, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 45 0.36
65 72 0.57
66 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATGGCTG
Found at i:1007498 original size:60 final size:60
Alignment explanation
Indices: 1007393--1007879 Score: 627
Period size: 60 Copynumber: 8.1 Consensus size: 60
1007383 GCTCTAAAAT
* * *
1007393 AAAAGTTAAATGTCTAACGATGCATTTTGGCGGAAAGGT-TCCACTAATGCAAGTTAGATG
1 AAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGT-CACTAATGCAAGTTAGATG
* * *
1007453 AAAAGTTAAATACCTAACGGTACATTTTGGCAGAAATGTGTCACTAATGCAAGTTAGATG
1 AAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGTCACTAATGCAAGTTAGATG
* * * ** * *
1007513 AAAAATTAAATTCCCAATAGTGCATTTTGGCTGAAAGGTGACACTAATGCAAGTTAGATG
1 AAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGTCACTAATGCAAGTTAGATG
* *
1007573 AAAAGTTAAATGTCTAACGGTGCATTTAGGCAGAAAGGTGTCACTAATGCAAGTTAGATG
1 AAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGTCACTAATGCAAGTTAGATG
* * * *
1007633 AAAAGTTAAATGCCTAACGGTGCATTTTGGTAGGAAGTTGCCACTAATGCAAGTTAGATG
1 AAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGTCACTAATGCAAGTTAGATG
* * *
1007693 AAAAGTTAAATGCCTAACGGTACATTTTGGCA-AGAAGGTGTCACTAATGCATGTTAAATG
1 AAAAGTTAAATGCCTAACGGTGCATTTTGGCAGA-AAGGTGTCACTAATGCAAGTTAGATG
* ** * * * * *
1007753 AAAAGTTAAATGCCTAACTGTTTATTTTGGCAAAAAGATGCCAGTAATTCAAGTTAGATG
1 AAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGTCACTAATGCAAGTTAGATG
* * * *
1007813 AAAAGTTAAATGCCTAACGGTGCATTTTTGGTAGAAATGTGCCACTAATGCAAGATAGATG
1 AAAAGTTAAATGCCTAACGGTGCA-TTTTGGCAGAAAGGTGTCACTAATGCAAGTTAGATG
1007874 AAAAGT
1 AAAAGT
1007880 AGTGCATTTC
Statistics
Matches: 367, Mismatches: 56, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
60 330 0.90
61 37 0.10
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (60 bp):
AAAAGTTAAATGCCTAACGGTGCATTTTGGCAGAAAGGTGTCACTAATGCAAGTTAGATG
Found at i:1009967 original size:21 final size:21
Alignment explanation
Indices: 1009943--1010022 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 21
1009933 GTCCTTCAGG
*
1009943 ACATATATGTAATCCTTTGGA
1 ACATATATGTAGTCCTTTGGA
* * *
1009964 ACATATATGCAGTTCTTTGGG
1 ACATATATGTAGTCCTTTGGA
* * *
1009985 ACACATATTTGGTCCTTTGGA
1 ACATATATGTAGTCCTTTGGA
* *
1010006 ATATATATGTGGTCCTT
1 ACATATATGTAGTCCTT
1010023 AAGGAGAATT
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (21 bp):
ACATATATGTAGTCCTTTGGA
Found at i:1010068 original size:21 final size:21
Alignment explanation
Indices: 1009989--1010094 Score: 79
Period size: 21 Copynumber: 5.0 Consensus size: 21
1009979 TTTGGGACAC
* * *
1009989 ATATTTGGTCCTTTGGAATAT
1 ATATGTGGTCCTTAGGGATAT
1010010 ATATGTGGTCCTTAAGGAGA-ATT
1 ATATGTGGTCCTT-AGG-GATA-T
* * * *
1010033 ATATATAGTCTTTCGGGATAT
1 ATATGTGGTCCTTAGGGATAT
* * *
1010054 ATATCTGGTCCTTCGGGACAT
1 ATATGTGGTCCTTAGGGATAT
*
1010075 ATATGAGGTCCTTAGGGATA
1 ATATGTGGTCCTTAGGGATA
1010095 ATTTTATATG
Statistics
Matches: 66, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
21 48 0.73
22 6 0.09
23 12 0.18
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (21 bp):
ATATGTGGTCCTTAGGGATAT
Found at i:1016305 original size:20 final size:19
Alignment explanation
Indices: 1016271--1016326 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
1016261 AAGATATTCA
*
1016271 AGGTA-TATCGGTACCTAAG
1 AGGTAGTATCGATACC-AAG
* *
1016290 GGGTAGTATCGATACCATG
1 AGGTAGTATCGATACCAAG
1016309 AGGTGAGTATCGATACCA
1 AGGT-AGTATCGATACCA
1016327 TTTTGGAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 9 0.29
20 22 0.71
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (19 bp):
AGGTAGTATCGATACCAAG
Found at i:1017175 original size:21 final size:21
Alignment explanation
Indices: 1017151--1017213 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
1017141 TAAGGAGAAT
*
1017151 TATATGTGGTCGTTCGGGATA
1 TATATGTGGTCCTTCGGGATA
1017172 TATATGTGGTCCTTCGGGATA
1 TATATGTGGTCCTTCGGGATA
** *
1017193 TATATAAGGTCCTTAGGGATA
1 TATATGTGGTCCTTCGGGATA
1017214 ATTTTATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.24, C:0.11, G:0.29, T:0.37
Consensus pattern (21 bp):
TATATGTGGTCCTTCGGGATA
Found at i:1018756 original size:24 final size:24
Alignment explanation
Indices: 1018698--1018770 Score: 85
Period size: 24 Copynumber: 3.1 Consensus size: 24
1018688 GAGTTGAGGG
* * **
1018698 TTCTACGCGGTCCTTCGAGTCAAA
1 TTCTATGCGGTCCTTCGGGAAAAA
*
1018722 -TCTATGTGGTCCTTCGGGAAAAA
1 TTCTATGCGGTCCTTCGGGAAAAA
*
1018745 TTCTATGCGGTCCTTCGGGATAAA
1 TTCTATGCGGTCCTTCGGGAAAAA
1018769 TT
1 TT
1018771 ATAGTGGCAC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 18 0.44
24 23 0.56
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (24 bp):
TTCTATGCGGTCCTTCGGGAAAAA
Found at i:1019698 original size:26 final size:27
Alignment explanation
Indices: 1019647--1019698 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
1019637 GGTATGCTTC
* *
1019647 ATGTCATGTTTAATAGTTTGTTGTTTA
1 ATGTAATGTTTAATAGTTTGTCGTTTA
*
1019674 ATGTAATGTTT-ATGGTTTGTCGTTT
1 ATGTAATGTTTAATAGTTTGTCGTTT
1019699 TTATAGTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.19, C:0.04, G:0.21, T:0.56
Consensus pattern (27 bp):
ATGTAATGTTTAATAGTTTGTCGTTTA
Found at i:1020717 original size:83 final size:83
Alignment explanation
Indices: 1020575--1021553 Score: 1145
Period size: 83 Copynumber: 11.8 Consensus size: 83
1020565 TTTCATAGTG
* * *
1020575 TTTTCCATTATTAATCAGATAATCTCTGCCATGTCATAGTGTTCCATCCCATCTGAAATGAAAGG
1 TTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
* *
1020640 TGCATTCTAGGGGAAGCGA
66 CGCGTTCTAGGGGAAGC-A
* ** * * * *
1020659 -TTTCCATTATTATTCAGAAAATCTCTAACATTTCATAGTATTTCATCCCATCCAAAATGAAAGG
1 TTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
* *
1020723 CGCGTTTTAGGGGAATCA
66 CGCGTTCTAGGGGAAGCA
* *
1020741 TTTTCCATTATTATTCAGAGAATCTCTGTCATGTCATAGTGTTCCATCCCATCCTAAATGAAAGG
1 TTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
* * * *
1020806 TGTGTTCTAAGGGAAGCT
66 CGCGTTCTAGGGGAAGCA
* * * * * * * *
1020824 TTTTCTATTATTATTTAGAAAATCTCTGCCAGGTCATAGTATTCCATCCTATTCGAAATAAAAGG
1 TTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
* * * *
1020889 CTCGTTCCAGGGAAAGCG
66 CGCGTTCTAGGGGAAGCA
* ** * * * *
1020907 TTTTCCATTATTATTCAGAAAATCTCTATCATTTCATAGTATTCCATCCCATCCTAAATGAAAGA
1 TTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
* ** *
1020972 CGCATTAAAGGGGAAGTA
66 CGCGTTCTAGGGGAAGCA
*
1020990 TTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATTCGAAATGAAAGG
1 TTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
* * * *
1021055 CGTGTTCCAAGGGAAGCG
66 CGCGTTCTAGGGGAAGCA
* * * * * *
1021073 TTTTCCATTATTATTCAAAAAATCTATGTCATGTCATAATGTTCCATCCTATCCGAAATGAAAGG
1 TTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
* *
1021138 CTCGTTCTAGGGAAAGCA
66 CGCGTTCTAGGGGAAGCA
* * * * * * *
1021156 TTTTCTATTATTATTTAGTGAATATCTGCCATGTCATAGTGTTCCATCCCATCCTAAATAAAAGA
1 TTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
*
1021221 CACGTTAC-AGGGGAAGCA
66 CGCGTT-CTAGGGGAAGCA
*
1021239 TTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGA
1 TTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
* * * *
1021304 CGCATTCCAAGGGAATCA
66 CGCGTTCTAGGGGAAGCA
* *
1021322 TTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCTATTCGAAATGAAAGG
1 TTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
* *
1021387 CACGTT-TCAGGGGAAGCG
66 CGCGTTCT-AGGGGAAGCA
* * * * * *
1021405 TTTTCCATTATTATTCAGAAAATCTATGCCATGTCATAATGTTCCATGCTATCCAAAATGAAAGG
1 TTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
* *
1021470 CTCGTTCTAGGGAAAGCA
66 CGCGTTCTAGGGGAAGCA
* * * *
1021488 TTTTCTATTATTATTTATAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATAAAAGG
1 TTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
1021553 C
66 C
1021554 TCATGTTCTA
Statistics
Matches: 748, Mismatches: 142, Indels: 11
0.83 0.16 0.01
Matches are distributed among these distances:
82 2 0.00
83 744 0.99
84 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (83 bp):
TTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
CGCGTTCTAGGGGAAGCA
Found at i:1021025 original size:249 final size:249
Alignment explanation
Indices: 1020575--1021553 Score: 1287
Period size: 249 Copynumber: 3.9 Consensus size: 249
1020565 TTTCATAGTG
* * *
1020575 TTTTCCATTATTAATCAGATAATCTCTGCCATGTCATAGTGTTCCATCCCA-TCTGAAATGAAAG
1 TTTTCCATTATTATTCAGAAAATCTCTGCCATGTCATAGTGTTCCATCCTATTC-GAAATGAAAG
* * * * * * *
1020639 G-TGCATTCTAGGGGAAGCGATTTCCATTATTATTCAGAAAATCTCTAACATTTCATAGTATTTC
65 GCT-CGTTCCAGGGAAAGCGTTTTCCATTATTATTCAGAAAATCTCTACCATGTCATAGTATTCC
* * *
1020703 ATCCCATCCAAAATGAAAGGCGCGTTTTAGGGGAATCATTTTCCATTATTATTCAGAGAATCTCT
129 ATCCCATCCAAAATGAAAGACGCGTTATAGGGGAAGCATTTTCCATTATTATTCAGAGAATCTCT
* * * * *
1020768 GTCATGTCATAGTGTTCCATCCCATCCTAAATGAAAGGTGTGTTCTAAGGGAAGCT
194 GCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGCGTGTTCCAAGGGAAGCA
* * * * *
1020824 TTTTCTATTATTATTTAGAAAATCTCTGCCAGGTCATAGTATTCCATCCTATTCGAAATAAAAGG
1 TTTTCCATTATTATTCAGAAAATCTCTGCCATGTCATAGTGTTCCATCCTATTCGAAATGAAAGG
* *
1020889 CTCGTTCCAGGGAAAGCGTTTTCCATTATTATTCAGAAAATCTCTATCATTTCATAGTATTCCAT
66 CTCGTTCCAGGGAAAGCGTTTTCCATTATTATTCAGAAAATCTCTACCATGTCATAGTATTCCAT
* * * *
1020954 CCCATCCTAAATGAAAGACGCATTAAAGGGGAAGTATTTTCCATTATTATTCAGAGAATCTCTGC
131 CCCATCCAAAATGAAAGACGCGTTATAGGGGAAGCATTTTCCATTATTATTCAGAGAATCTCTGC
* *
1021019 CATGTCATAGTGTTCCATCCCATTCGAAATGAAAGGCGTGTTCCAAGGGAAGCG
196 CATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGCGTGTTCCAAGGGAAGCA
* * * * *
1021073 TTTTCCATTATTATTCAAAAAATCTATGTCATGTCATAATGTTCCATCCTATCCGAAATGAAAGG
1 TTTTCCATTATTATTCAGAAAATCTCTGCCATGTCATAGTGTTCCATCCTATTCGAAATGAAAGG
* * * * ** * * *
1021138 CTCGTTCTAGGGAAAGCATTTTCTATTATTATTTAGTGAATATCTGCCATGTCATAGTGTTCCAT
66 CTCGTTCCAGGGAAAGCGTTTTCCATTATTATTCAGAAAATCTCTACCATGTCATAGTATTCCAT
* * * *
1021203 CCCATCCTAAATAAAAGACACGTTACAGGGGAAGCATTTTCCATTATTATTCAGAGAATCTCTGC
131 CCCATCCAAAATGAAAGACGCGTTATAGGGGAAGCATTTTCCATTATTATTCAGAGAATCTCTGC
* ** *
1021268 CATGTCATAGTGTTCCATCCCATCCGAAATGAAAGACGCATTCCAAGGGAATCA
196 CATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGCGTGTTCCAAGGGAAGCA
*
1021322 TTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCTATTCGAAATGAAAGG
1 TTTTCCATTATTATTCAGAAAATCTCTGCCATGTCATAGTGTTCCATCCTATTCGAAATGAAAGG
* * * * * * *
1021387 CACGTTTCAGGGGAAGCGTTTTCCATTATTATTCAGAAAATCTATGCCATGTCATAATGTTCCAT
66 CTCGTTCCAGGGAAAGCGTTTTCCATTATTATTCAGAAAATCTCTACCATGTCATAGTATTCCAT
* * * * * * * * *
1021452 GCTATCCAAAATGAAAGGCTCGTTCTAGGGAAAGCATTTTCTATTATTATTTATAGAATCTCTGC
131 CCCATCCAAAATGAAAGACGCGTTATAGGGGAAGCATTTTCCATTATTATTCAGAGAATCTCTGC
*
1021517 CATGTCATAGTGTTCCATCCCATCCGAAATAAAAGGC
196 CATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGC
1021554 TCATGTTCTA
Statistics
Matches: 637, Mismatches: 91, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
249 634 1.00
250 3 0.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (249 bp):
TTTTCCATTATTATTCAGAAAATCTCTGCCATGTCATAGTGTTCCATCCTATTCGAAATGAAAGG
CTCGTTCCAGGGAAAGCGTTTTCCATTATTATTCAGAAAATCTCTACCATGTCATAGTATTCCAT
CCCATCCAAAATGAAAGACGCGTTATAGGGGAAGCATTTTCCATTATTATTCAGAGAATCTCTGC
CATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGCGTGTTCCAAGGGAAGCA
Found at i:1026358 original size:47 final size:47
Alignment explanation
Indices: 1026283--1026823 Score: 368
Period size: 47 Copynumber: 11.1 Consensus size: 47
1026273 AAACTGAATA
* **
1026283 CATAACTAAAAATGCAAGAAATTATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* * * *
1026330 CATAATTAAAAAAGCATGAAA-GATTGCATTAAGGCATGAAAAGATGA
1 CATAACTAAAAATGCATGAAAGGA-TGCATTAAGGCATGAAAGGATGC
* * * * * * *
1026377 CATAACTAAAATTGTATAAAATGATGCAGTAAGGGATGAAAGTATGC
1 CATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* * *
1026424 CATAACTAAAAATGCATGAAAGGAAGCATTAAGGCATAAAAGGATGA
1 CATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* *
1026471 CATAACTAATAATGCATGAAAGGATGCCATAACTAAAAATGCATGAAAGGATG-
1 CATAACTAAAAATGCATGAAAGGATG-CAT---T---AAGGCATGAAAGGATGC
* *
1026524 CAT---T---AAGGCATGAAAGGATGCATTAAGGCATGAAAGGATCC
1 CATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* * * * * *
1026565 CATAATTAAAAATGTATGAACGAATACATTAAGACATGAAAGGATGC
1 CATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* * * *
1026612 CATCACTATAAATGCATGAACGGATGCATT-AGGCATAAAAGGATG-
1 CATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* *
1026657 CAGTAAAGCATAAAAGGATGCCATAATTAAAAATGCATGAACGGATGCAGTAAGGCATGAAATGA
1 CA-T-AA-C-TAAAA--ATG-C----------ATG-A--AA-GGATGCATTAAGGCATGAAAGGA
1026722 TGC
45 TGC
* *
1026725 CATAACTAAAAATACATGAACA-GATGCATTAAGGAATGAAAGGATGC
1 CATAACTAAAAATGCATGAA-AGGATGCATTAAGGCATGAAAGGATGC
* * * *
1026772 CATAACTAAAAATGCATGAACA-TATGCATTAAGACATGAAAAGATGT
1 CATAACTAAAAATGCATGAA-AGGATGCATTAAGGCATGAAAGGATGC
1026819 CATAA
1 CATAA
1026824 ATGAAATAAA
Statistics
Matches: 390, Mismatches: 64, Indels: 80
0.73 0.12 0.15
Matches are distributed among these distances:
40 14 0.04
41 3 0.01
43 1 0.00
44 1 0.00
45 2 0.01
46 18 0.05
47 272 0.70
48 7 0.02
49 5 0.01
50 2 0.01
51 7 0.02
52 1 0.00
53 3 0.01
54 14 0.04
61 1 0.00
62 5 0.01
63 1 0.00
64 5 0.01
65 2 0.01
66 10 0.03
67 14 0.04
68 2 0.01
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.21
Consensus pattern (47 bp):
CATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
Found at i:1026499 original size:74 final size:71
Alignment explanation
Indices: 1026412--1026638 Score: 257
Period size: 74 Copynumber: 3.2 Consensus size: 71
1026402 GCAGTAAGGG
* *
1026412 ATGAAAGTATGCCATAACTAAAAATGCATGAAAGGAAGCATTAAGGCATAAAAGGATGACATAAC
1 ATGAAAGGATGCCATAACTAAAAATGCATGAAAGGAAGCATTAAGGCATGAAAGGATG-CAT-AC
1026477 TAATAATGC
64 T-ATAATGC
*
1026486 ATGAAAGGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC--A-T-
1 ATGAAAGGATGCCATAACTAAAAATGCATGAAAGGAAGCATTAAGGCATGAAAGGATGCATACTA
*
1026547 TAAGGC
66 TAATGC
* * * * * *
1026553 ATGAAAGGATCCCATAATTAAAAATGTATG-AACGAATACATTAAGACATGAAAGGATGCCATCA
1 ATGAAAGGATGCCATAACTAAAAATGCATGAAAGGAA-GCATTAAGGCATGAAAGGATG-CAT-A
1026617 CTATAAATGC
63 CTAT-AATGC
*
1026627 ATGAACGGATGC
1 ATGAAAGGATGC
1026639 ATTAGGCATA
Statistics
Matches: 131, Mismatches: 14, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
66 4 0.03
67 51 0.39
68 1 0.01
69 1 0.01
70 1 0.01
71 1 0.01
72 1 0.01
73 2 0.02
74 69 0.53
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (71 bp):
ATGAAAGGATGCCATAACTAAAAATGCATGAAAGGAAGCATTAAGGCATGAAAGGATGCATACTA
TAATGC
Found at i:1026524 original size:27 final size:27
Alignment explanation
Indices: 1026457--1026524 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
1026447 AAGCATTAAG
* * *
1026457 GCATAAAAGGATGACATAACTAATAAT
1 GCATGAAAGGATGCCATAACTAAAAAT
1026484 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAACTAAAAAT
1026511 GCATGAAAGGATGC
1 GCATGAAAGGATGC
1026525 ATTAAGGCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.19
Consensus pattern (27 bp):
GCATGAAAGGATGCCATAACTAAAAAT
Found at i:1026536 original size:20 final size:20
Alignment explanation
Indices: 1026511--1026562 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
1026501 AACTAAAAAT
1026511 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
1026531 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
1026551 GCATGAAAGGAT
1 GCATGAAAGGAT
1026563 CCCATAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.40, C:0.10, G:0.31, T:0.19
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:1026595 original size:67 final size:67
Alignment explanation
Indices: 1026484--1026611 Score: 193
Period size: 67 Copynumber: 1.9 Consensus size: 67
1026474 AACTAATAAT
* * * *
1026484 GCATGAAAGGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCATTA
1 GCATGAAAGGATCCCATAACTAAAAATGCATGAAAGAATACATTAAGACATGAAAGGATGCATTA
1026549 AG
66 AG
* * *
1026551 GCATGAAAGGATCCCATAATTAAAAATGTATGAACGAATACATTAAGACATGAAAGGATGC
1 GCATGAAAGGATCCCATAACTAAAAATGCATGAAAGAATACATTAAGACATGAAAGGATGC
1026612 CATCACTATA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 54 1.00
ACGTcount: A:0.45, C:0.12, G:0.23, T:0.20
Consensus pattern (67 bp):
GCATGAAAGGATCCCATAACTAAAAATGCATGAAAGAATACATTAAGACATGAAAGGATGCATTA
AG
Found at i:1026606 original size:188 final size:179
Alignment explanation
Indices: 1026343--1026724 Score: 460
Period size: 188 Copynumber: 2.1 Consensus size: 179
1026333 AATTAAAAAA
* * * *
1026343 GCATGAAAGATTGCATTAAGGCATGAAAAGATGACATAACTAAAATTGTATAAAATGATGCAGTA
1 GCATGAAAGA-TGCATTAAGGCATGAAAAGATCACATAACTAAAAATGTATAAAACGATACAGTA
** *
1026408 AGGGATGAAAGTATGCCATAACTAAAAATGCATGAAAGGAAGCATTAAGGCATAAAAGGATGACA
65 AGACATGAAAGGATGCCATAACTAAAAATGCATGAAAGGAAGCATT-AGGCATAAAAGGATG-C-
* *
1026473 TAACTAATAATGCATGAAAGGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAG
127 --ACT-A-AA-GCATAAAAGGATGCCATAACTAAAAATGCATGAAAGGATGCAGTAAG
* * * * *
1026531 GCATGAAAGGATGCATTAAGGCATGAAAGGATCCCATAATTAAAAATGTAT-GAACGAATACATT
1 GCATGAAA-GATGCATTAAGGCATGAAAAGATCACATAACTAAAAATGTATAAAACG-ATACAGT
* * * * *
1026595 AAGACATGAAAGGATGCCATCACTATAAATGCATGAACGGATGCATTAGGCATAAAAGGATGCAG
64 AAGACATGAAAGGATGCCATAACTAAAAATGCATGAAAGGAAGCATTAGGCATAAAAGGATGCAC
* *
1026660 TAAAGCATAAAAGGATGCCATAATTAAAAATGCATGAACGGATGCAGTAAG
129 TAAAGCATAAAAGGATGCCATAACTAAAAATGCATGAAAGGATGCAGTAAG
1026711 GCATGAAATGATGC
1 GCATGAAA-GATGC
1026725 CATAACTAAA
Statistics
Matches: 170, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
180 56 0.33
181 2 0.01
182 1 0.01
183 2 0.01
186 1 0.01
187 18 0.11
188 88 0.52
189 2 0.01
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.21
Consensus pattern (179 bp):
GCATGAAAGATGCATTAAGGCATGAAAAGATCACATAACTAAAAATGTATAAAACGATACAGTAA
GACATGAAAGGATGCCATAACTAAAAATGCATGAAAGGAAGCATTAGGCATAAAAGGATGCACTA
AAGCATAAAAGGATGCCATAACTAAAAATGCATGAAAGGATGCAGTAAG
Found at i:1026690 original size:113 final size:114
Alignment explanation
Indices: 1026485--1026771 Score: 414
Period size: 113 Copynumber: 2.5 Consensus size: 114
1026475 ACTAATAATG
* *
1026485 CATGAAAGGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCATTAA
1 CATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCAGTAA
* * * *
1026550 GGCATGAAAGGATCCCATAATTAAAAATGTATGAACGAATACATTAAGA
66 AGCATAAAAGGATCCCATAATTAAAAATGCATGAACGAATACAGTAAGA
* * *
1026599 CATGAAAGGATGCCATCACTATAAATGCATGAACGGATGCATT-AGGCATAAAAGGATGCAGTAA
1 CATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCAGTAA
* * * *
1026663 AGCATAAAAGGATGCCATAATTAAAAATGCATGAACGGATGCAGTAAGG
66 AGCATAAAAGGATCCCATAATTAAAAATGCATGAACGAATACAGTAAGA
* * * *
1026712 CATGAAATGATGCCATAACTAAAAATACATGAACAGATGCATTAAGGAATGAAAGGATGC
1 CATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
1026772 CATAACTAAA
Statistics
Matches: 152, Mismatches: 20, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
113 98 0.64
114 54 0.36
ACGTcount: A:0.45, C:0.13, G:0.22, T:0.20
Consensus pattern (114 bp):
CATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCAGTAA
AGCATAAAAGGATCCCATAATTAAAAATGCATGAACGAATACAGTAAGA
Found at i:1027396 original size:2 final size:2
Alignment explanation
Indices: 1027389--1027414 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1027379 TGAAAGGATG
1027389 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1027415 TGTACATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1031147 original size:22 final size:22
Alignment explanation
Indices: 1031116--1031173 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
1031106 ACCGTGGCAG
*
1031116 AGTATTGGTACCATAGTATAGT
1 AGTATCGGTACCATAGTATAGT
1031138 AGTATCGGTACCATAGTATAGT
1 AGTATCGGTACCATAGTATAGT
1031160 AGTATCGGTACCAT
1 AGTATCGGTACCAT
1031174 GGTAGGGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (22 bp):
AGTATCGGTACCATAGTATAGT
Found at i:1031185 original size:19 final size:19
Alignment explanation
Indices: 1031098--1031204 Score: 79
Period size: 22 Copynumber: 5.3 Consensus size: 19
1031088 TGCAAAAATG
* *
1031098 GTATCGGTACCGTGGCAGA
1 GTATCGGTACCATGGTAGA
* *
1031117 GTATTGGTACCATAGTATAGTA
1 GTATCGGTACCAT-G-GTAG-A
*
1031139 GTATCGGTACCATAGTATAGTA
1 GTATCGGTACCAT-G-GTAG-A
*
1031161 GTATCGGTACCATGGTAGG
1 GTATCGGTACCATGGTAGA
* * *
1031180 GTATCGATACTATGGTAGG
1 GTATCGGTACCATGGTAGA
1031199 GTATCG
1 GTATCG
1031205 ATACTATTGA
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
19 34 0.45
20 4 0.05
21 3 0.04
22 35 0.46
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (19 bp):
GTATCGGTACCATGGTAGA
Found at i:1031205 original size:19 final size:19
Alignment explanation
Indices: 1031161--1031211 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
1031151 TAGTATAGTA
* *
1031161 GTATCGGTACCATGGTAGG
1 GTATCGATACTATGGTAGG
1031180 GTATCGATACTATGGTAGG
1 GTATCGATACTATGGTAGG
1031199 GTATCGATACTAT
1 GTATCGATACTAT
1031212 TGACTCAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (19 bp):
GTATCGATACTATGGTAGG
Found at i:1031695 original size:20 final size:20
Alignment explanation
Indices: 1031670--1031723 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
1031660 AATTAAAAAT
1031670 GCATGAAAGGATGCAATAAG
1 GCATGAAAGGATGCAATAAG
1031690 GCATGAAAGGATGCAATAAG
1 GCATGAAAGGATGCAATAAG
1031710 GCATGAAAGGATGC
1 GCATGAAAGGATGC
1031724 CACAATTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.43, C:0.11, G:0.31, T:0.15
Consensus pattern (20 bp):
GCATGAAAGGATGCAATAAG
Found at i:1031736 original size:67 final size:67
Alignment explanation
Indices: 1031639--1031768 Score: 206
Period size: 67 Copynumber: 1.9 Consensus size: 67
1031629 AATGATGAAT
*
1031639 TAAGGCATGAAAGGATACCATAATTAAAAATGCATGAAAGGATGCAATAAGGCATGAAAGGATGC
1 TAAGGCATGAAAGGATACCACAATTAAAAATGCATGAAAGGATGCAATAAGGCATGAAAGGATGC
1031704 AA
66 AA
* * * * *
1031706 TAAGGCATGAAAGGATGCCACAATTTAAAATTCATGAATGGATGCATTAAGGCATGAAAGGAT
1 TAAGGCATGAAAGGATACCACAATTAAAAATGCATGAAAGGATGCAATAAGGCATGAAAGGAT
1031769 ACGATAACTA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.21
Consensus pattern (67 bp):
TAAGGCATGAAAGGATACCACAATTAAAAATGCATGAAAGGATGCAATAAGGCATGAAAGGATGC
AA
Found at i:1031742 original size:47 final size:47
Alignment explanation
Indices: 1031691--1031869 Score: 225
Period size: 47 Copynumber: 3.8 Consensus size: 47
1031681 TGCAATAAGG
* * * *
1031691 CATGAAAGGATGCAATAAGGCATGAAAGGATGCCACAATTTAAAATT
1 CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATT
* * *
1031738 CATGAATGGATGCATTAAGGCATGAAAGGATACGATAACTAAAAATT
1 CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATT
* * *
1031785 CATGAACA-TATGCATTAAGGCATGAAAGGATGTCATAACTAAAAATG
1 CATGAA-AGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATT
* * *
1031832 CATGAACGAATGCATTAAGGCATAAAAGGATGCCATAA
1 CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
1031870 ATGAAATTAA
Statistics
Matches: 113, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
47 113 1.00
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.22
Consensus pattern (47 bp):
CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATT
Found at i:1032326 original size:81 final size:81
Alignment explanation
Indices: 1032221--1032389 Score: 232
Period size: 81 Copynumber: 2.1 Consensus size: 81
1032211 TAATTAAAAA
* * * *
1032221 TAAAAAATTAATAGCCTAGTTGTGCATTTGGCAGAAATGTGACAATTATGCCAGTTAGATGAAAG
1 TAAAAAATTAATAGCCTAGCTGTGCATTTGGCAGAAATGTGACAATTATGCAAGTCAGATAAAAG
1032286 G-TTAAATACCTTTGAG
66 GCTT-AATACCTTTGAG
* * * *
1032302 TAAAAGATTAATGGCCTAGCTGTGCATTTGGTAGAAATGTGTCAATTATGCAAGTCAGATAAAAG
1 TAAAAAATTAATAGCCTAGCTGTGCATTTGGCAGAAATGTGACAATTATGCAAGTCAGATAAAAG
* *
1032367 GCTTAATGCCTTTGGG
66 GCTTAATACCTTTGAG
1032383 TAAAAAA
1 TAAAAAA
1032390 CTAAAGGAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
81 74 0.97
82 2 0.03
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (81 bp):
TAAAAAATTAATAGCCTAGCTGTGCATTTGGCAGAAATGTGACAATTATGCAAGTCAGATAAAAG
GCTTAATACCTTTGAG
Found at i:1034720 original size:25 final size:25
Alignment explanation
Indices: 1034686--1034737 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
1034676 TCTTCGATAG
1034686 AAGAACTTTTATACCAAACTATTCC
1 AAGAACTTTTATACCAAACTATTCC
1034711 AAGAACTTTTATACCAAACTATTCC
1 AAGAACTTTTATACCAAACTATTCC
1034736 AA
1 AA
1034738 TGTGAGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.23, G:0.04, T:0.31
Consensus pattern (25 bp):
AAGAACTTTTATACCAAACTATTCC
Found at i:1037210 original size:27 final size:27
Alignment explanation
Indices: 1037179--1037552 Score: 175
Period size: 27 Copynumber: 15.3 Consensus size: 27
1037169 ATGCATTAAG
1037179 GCATGAAAGGATGCCATAATTAAAAAT
1 GCATGAAAGGATGCCATAATTAAAAAT
* *
1037206 GCATGAAAGGATGTCATAACTAAAAAT
1 GCATGAAAGGATGCCATAATTAAAAAT
* *
1037233 GCATAAAAGGATG-C---ATT---AAG
1 GCATGAAAGGATGCCATAATTAAAAAT
* *
1037253 GTATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAATTAAAAAT
** * *
1037280 AAATGAAAGGGTGCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAATTAAAAAT
* *
1037307 GAAAGGATGAAAGGATG-C---ATT---AAG
1 ----GCATGAAAGGATGCCATAATTAAAAAT
*
1037331 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAATTAAAAAT
*
1037358 GCATGAAAGGATG-C---ATT---AAG
1 GCATGAAAGGATGCCATAATTAAAAAT
* *
1037378 GCATGAAAGGATACCATAACTAAAAAT
1 GCATGAAAGGATGCCATAATTAAAAAT
*
1037405 GCATGAAAGGATG---T-ATT---AAG
1 GCATGAAAGGATGCCATAATTAAAAAT
*
1037425 GCATGAAAGGATGCCATAATTAAAGAT
1 GCATGAAAGGATGCCATAATTAAAAAT
* *
1037452 GCATGAATGGATG-C---ATT---AAG
1 GCATGAAAGGATGCCATAATTAAAAAT
* * *
1037472 GCATGAAAGGATTCCATGACTAAAAAT
1 GCATGAAAGGATGCCATAATTAAAAAT
* * *
1037499 GCATGAAAAGATG-C---AGT---AAG
1 GCATGAAAGGATGCCATAATTAAAAAT
1037519 GCATGAAAGGATGCCATAATTAAAAAT
1 GCATGAAAGGATGCCATAATTAAAAAT
*
1037546 TCATGAA
1 GCATGAA
1037553 CAGATGCATT
Statistics
Matches: 256, Mismatches: 45, Indels: 92
0.65 0.11 0.23
Matches are distributed among these distances:
20 80 0.31
21 5 0.02
23 12 0.05
24 16 0.06
26 4 0.02
27 128 0.50
30 1 0.00
31 10 0.04
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.21
Consensus pattern (27 bp):
GCATGAAAGGATGCCATAATTAAAAAT
Found at i:1037235 original size:74 final size:74
Alignment explanation
Indices: 1037146--1037371 Score: 328
Period size: 74 Copynumber: 3.0 Consensus size: 74
1037136 AAACCGAATA
*
1037146 CATAACTAAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAATGCATG
1 CATAACTAAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATG
*
1037211 AAAGGATGT
66 AAAGGATGC
* **
1037220 CATAACTAAAAATGCAT-AAAAGGATGCATTAAGGTATGAAAGGATGCCATAACTAAAAATAAAT
1 CATAACTAAAAATGCATGAAAA-GATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCAT
*
1037284 GAAAGGGTGC
65 GAAAGGATGC
* *
1037294 CATAACTAAAAATGAAAGGATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATG
1 CATAACTAAAAAT----GCATGAAAAGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATG
1037359 CATGAAAGGATGC
62 CATGAAAGGATGC
1037372 ATTAAGGCAT
Statistics
Matches: 134, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
73 4 0.03
74 76 0.57
78 51 0.38
79 3 0.02
ACGTcount: A:0.48, C:0.11, G:0.21, T:0.20
Consensus pattern (74 bp):
CATAACTAAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATG
AAAGGATGC
Found at i:1037338 original size:20 final size:20
Alignment explanation
Indices: 1037309--1037483 Score: 109
Period size: 20 Copynumber: 7.8 Consensus size: 20
1037299 CTAAAAATGA
1037309 AAGG-ATGAAAGGATGCATT
1 AAGGCATGAAAGGATGCATT
1037328 AAGGCATGAAAGGATGCCATAACT
1 AAGGCATGAAAGGATG-CAT---T
*
1037352 AAAAATGCATGAAAGGATGCATT
1 ---AAGGCATGAAAGGATGCATT
*
1037375 AAGGCATGAAAGGATACCATAACT
1 AAGGCATGAAAGGAT-GCAT---T
* *
1037399 AAAAATGCATGAAAGGATGTATT
1 ---AAGGCATGAAAGGATGCATT
1037422 AAGGCATGAAAGGATGCCATAATT
1 AAGGCATGAAAGGATG-C---ATT
*
1037446 AAAGATGCATGAATGGATGCATT
1 -AAG--GCATGAAAGGATGCATT
1037469 AAGGCATGAAAGGAT
1 AAGGCATGAAAGGAT
1037484 TCCATGACTA
Statistics
Matches: 124, Mismatches: 10, Indels: 43
0.70 0.06 0.24
Matches are distributed among these distances:
19 4 0.03
20 51 0.41
21 6 0.05
22 3 0.02
23 5 0.04
24 5 0.04
25 3 0.02
26 6 0.05
27 41 0.33
ACGTcount: A:0.44, C:0.10, G:0.25, T:0.21
Consensus pattern (20 bp):
AAGGCATGAAAGGATGCATT
Found at i:1037382 original size:47 final size:47
Alignment explanation
Indices: 1037282--1037684 Score: 529
Period size: 47 Copynumber: 8.5 Consensus size: 47
1037272 CTAAAAATAA
* *
1037282 ATGAAAGGGTGCCATAACTAAAAATGAAAGGATGAAAGGATGCATTAAGGC
1 ATGAAAGGATGCCATAACTAAAAAT----GCATGAAAGGATGCATTAAGGC
1037333 ATGAAAGGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGC
1 ATGAAAGGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGC
* *
1037380 ATGAAAGGATACCATAACTAAAAATGCATGAAAGGATGTATTAAGGC
1 ATGAAAGGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGC
* * *
1037427 ATGAAAGGATGCCATAATTAAAGATGCATGAATGGATGCATTAAGGC
1 ATGAAAGGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGC
* * * *
1037474 ATGAAAGGATTCCATGACTAAAAATGCATGAAAAGATGCAGTAAGGC
1 ATGAAAGGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGC
* *
1037521 ATGAAAGGATGCCATAATTAAAAATTCATGAACA-GATGCATTAAGGC
1 ATGAAAGGATGCCATAACTAAAAATGCATGAA-AGGATGCATTAAGGC
* * * * *
1037568 ATGACAGGATACGATAACTAAAAATGCATGAACGGATGCATTAAGGA
1 ATGAAAGGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGC
** * *
1037615 ATGAAAGGATGATATAACTAAAAATGCATGAACGGATGCATTAAGGA
1 ATGAAAGGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGC
* * *
1037662 ATAAAATGATGCCATAAATAAAA
1 ATGAAAGGATGCCATAACTAAAA
1037685 TTAACGAATA
Statistics
Matches: 313, Mismatches: 37, Indels: 8
0.87 0.10 0.02
Matches are distributed among these distances:
47 288 0.92
48 1 0.00
51 24 0.08
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.21
Consensus pattern (47 bp):
ATGAAAGGATGCCATAACTAAAAATGCATGAAAGGATGCATTAAGGC
Found at i:1037439 original size:94 final size:94
Alignment explanation
Indices: 1037146--1037684 Score: 545
Period size: 94 Copynumber: 5.6 Consensus size: 94
1037136 AAACCGAATA
* *
1037146 CATAACTAAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAATGCATG
1 CATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATG
* *
1037211 AAAGGATGTCATAACTAAAAATGCATAAAAGGATG-
66 AAAGGATG-CAT---T---AAGGCATGAAAGGATGC
* * *** *
1037246 CAT---T---AAGGTATGAAAGGATGCCATAACTAAAAATAAATGAAAGGGTGCCATAACTAAAA
1 CATAACTAAAAATGCATGAAAGGATG-CAT---T---AAGGCATGAAAGGATGCCATAACTAAAA
*
1037305 ATGAAAGGATGAAAGGATGCATTAAGGCATGAAAGGATGC
59 AT----GCATGAAAGGATGCATTAAGGCATGAAAGGATGC
*
1037345 CATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATACCATAACTAAAAATGCATG
1 CATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATG
*
1037410 AAAGGATGTATTAAGGCATGAAAGGATGC
66 AAAGGATGCATTAAGGCATGAAAGGATGC
* * * * *
1037439 CATAATTAAAGATGCATGAATGGATGCATTAAGGCATGAAAGGATTCCATGACTAAAAATGCATG
1 CATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATG
* *
1037504 AAAAGATGCAGTAAGGCATGAAAGGATGC
66 AAAGGATGCATTAAGGCATGAAAGGATGC
* * * * *
1037533 CATAATTAAAAATTCATGAACA-GATGCATTAAGGCATGACAGGATACGATAACTAAAAATGCAT
1 CATAACTAAAAATGCATGAA-AGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCAT
* * *
1037597 GAACGGATGCATTAAGGAATGAAAGGATGA
65 GAAAGGATGCATTAAGGCATGAAAGGATGC
* * * * * *
1037627 TATAACTAAAAATGCATGAACGGATGCATTAAGGAATAAAATGATGCCATAAATAAAA
1 CATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAA
1037685 TTAACGAATA
Statistics
Matches: 368, Mismatches: 51, Indels: 46
0.79 0.11 0.10
Matches are distributed among these distances:
94 258 0.70
95 3 0.01
97 1 0.00
98 40 0.11
99 3 0.01
100 3 0.01
101 27 0.07
102 1 0.00
104 6 0.02
105 26 0.07
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.21
Consensus pattern (94 bp):
CATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATG
AAAGGATGCATTAAGGCATGAAAGGATGC
Found at i:1037496 original size:141 final size:141
Alignment explanation
Indices: 1037146--1037684 Score: 538
Period size: 141 Copynumber: 3.7 Consensus size: 141
1037136 AAACCGAATA
* *
1037146 CATAACTAAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATGCCATAATTAAAAATGCATG
1 CATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATG
* * *
1037211 AAAGGATGTCATAACTAAAAATGCATAAAAGGATG-CATTAAGGTATGAAAGGATGCCAT-AACT
66 AAAGGATG-CAT---T---AAGGCATGAAAGGATGCCA-TAA---AT-AAA-AATG-CATGAAC-
* * * *
1037274 A-A--AAATAA---ATGAAAGGGTGC
116 AGATGCATTAAGGCATGAAAGGATAC
*
1037294 CATAACTAAAAATGAAAGGATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATG
1 CATAACTAAAAAT----GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATG
* * *
1037359 CATGAAAGGATGCATTAAGGCATGAAAGGATACCATAACTAAAAATGCATGAA-AGGATGTATTA
62 CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATAAAAATGCATGAACA-GATGCATTA
*
1037423 AGGCATGAAAGGATGC
126 AGGCATGAAAGGATAC
* * * * *
1037439 CATAATTAAAGATGCATGAATGGATGCATTAAGGCATGAAAGGATTCCATGACTAAAAATGCATG
1 CATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATG
* * * *
1037504 AAAAGATGCAGTAAGGCATGAAAGGATGCCATAATTAAAAATTCATGAACAGATGCATTAAGGCA
66 AAAGGATGCATTAAGGCATGAAAGGATGCCATAAATAAAAATGCATGAACAGATGCATTAAGGCA
*
1037569 TGACAGGATAC
131 TGAAAGGATAC
* * * **
1037580 GATAACTAAAAATGCATGAACGGATGCATTAAGGAATGAAAGGATGATATAACTAAAAATGCATG
1 CATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATG
* * * *
1037645 AACGGATGCATTAAGGAATAAAATGATGCCATAAATAAAA
66 AAAGGATGCATTAAGGCATGAAAGGATGCCATAAATAAAA
1037685 TTAACGAATA
Statistics
Matches: 336, Mismatches: 41, Indels: 35
0.82 0.10 0.08
Matches are distributed among these distances:
138 1 0.00
139 3 0.01
140 6 0.02
141 206 0.61
142 6 0.02
145 38 0.11
146 2 0.01
148 14 0.04
151 3 0.01
152 57 0.17
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.21
Consensus pattern (141 bp):
CATAACTAAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATG
AAAGGATGCATTAAGGCATGAAAGGATGCCATAAATAAAAATGCATGAACAGATGCATTAAGGCA
TGAAAGGATAC
Found at i:1038152 original size:81 final size:81
Alignment explanation
Indices: 1038017--1038181 Score: 249
Period size: 81 Copynumber: 2.0 Consensus size: 81
1038007 GTTTAAAAAT
** * * * *
1038017 AAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGT
1 AAAGATTAATGGCCTAACTGTGCATTTAGCAGAAAGGTGTCAATTATGCAAGTTAGATGAAAGGC
1038082 TAAATACCTTTGAGTA
66 TAAATACCTTTGAGTA
*
1038098 AAAGATTAATGGCCTAACTGTGCATTTAGCATAAAGGTGTCAATTATGCAAGTTAGATGAAAGGC
1 AAAGATTAATGGCCTAACTGTGCATTTAGCAGAAAGGTGTCAATTATGCAAGTTAGATGAAAGGC
* *
1038163 TAAATGCCTTTGGGTA
66 TAAATACCTTTGAGTA
1038179 AAA
1 AAA
1038182 AACTAAAGGA
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (81 bp):
AAAGATTAATGGCCTAACTGTGCATTTAGCAGAAAGGTGTCAATTATGCAAGTTAGATGAAAGGC
TAAATACCTTTGAGTA
Found at i:1039099 original size:45 final size:45
Alignment explanation
Indices: 1039050--1039396 Score: 487
Period size: 45 Copynumber: 7.7 Consensus size: 45
1039040 ATTATGCACC
* * * * * *
1039050 ATTATGCATTTCAATCATGACATCCTTTCATGCCAATAATACAGT
1 ATTATACATTTCATTTATGGCATCCTTTCATGCCGATAATACACT
* *
1039095 ATTATACATTTCATTTAGGGCATCCTTTCATGTCGATAATACACT
1 ATTATACATTTCATTTATGGCATCCTTTCATGCCGATAATACACT
* *
1039140 ATTATACATTTCATTTATGGCAACCTTTCATGCCTATAATACACT
1 ATTATACATTTCATTTATGGCATCCTTTCATGCCGATAATACACT
* * * *
1039185 ATTATACATATCATTTATGGCATCATTTCATGCCGATATTACACC
1 ATTATACATTTCATTTATGGCATCCTTTCATGCCGATAATACACT
* *
1039230 ATTATACATTTTATTTATGGCATCCTTTCATGCTGATAATACACT
1 ATTATACATTTCATTTATGGCATCCTTTCATGCCGATAATACACT
* * * *
1039275 ATTATACATATCATTTATGGCATCCTTTTATGCCAATATTACACT
1 ATTATACATTTCATTTATGGCATCCTTTCATGCCGATAATACACT
* *
1039320 ATTATGCATTTCATTTATGGCATCCTTTCATGCCGATATTACACT
1 ATTATACATTTCATTTATGGCATCCTTTCATGCCGATAATACACT
*
1039365 ATTATACTTTTCATTTATGGCATCCTTTCATG
1 ATTATACATTTCATTTATGGCATCCTTTCATG
1039397 TCATTTATAC
Statistics
Matches: 266, Mismatches: 36, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 266 1.00
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (45 bp):
ATTATACATTTCATTTATGGCATCCTTTCATGCCGATAATACACT
Found at i:1039548 original size:81 final size:81
Alignment explanation
Indices: 1039433--1039668 Score: 384
Period size: 81 Copynumber: 2.9 Consensus size: 81
1039423 ATACATCTAG
* * * *
1039433 TCTTTTACTCAAAGGCATTTAACCGTTCATCTAACTAACATGATTAACACCTTTTTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTTTGTCAAATGC
1039498 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
*
1039514 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACATTTTCT-TCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTT-TGTCAAATG
1039578 CACAGCTAGGCCATTAA
65 CACAGCTAGGCCATTAA
* * *
1039595 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTTTGTCAAATGC
1039660 ACAGCTAGG
66 ACAGCTAGG
1039669 TCTCAAAGAC
Statistics
Matches: 144, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
80 1 0.01
81 142 0.99
82 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATGATTGACACCTTTTTGTCAAATGC
ACAGCTAGGCCATTAA
Found at i:1039776 original size:67 final size:67
Alignment explanation
Indices: 1039602--1040073 Score: 647
Period size: 67 Copynumber: 7.0 Consensus size: 67
1039592 TAATCTTTTA
* * * * *
1039602 CTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTATGTC-AATGCACAGTTA
*
1039667 GGT
65 GGC
* * * * ** *
1039670 CTCAAAGACACTAAGCCTTTCATCTAACTAGCATGATTGACACCTTCCTGTCAATGCACAATTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAATGCACAGTTAG
1039735 GC
66 GC
* * * *
1039737 CTCAAAGGCACTTAGCCTTTCATATAAATGCCATAATTGAAACCTTTATGTCAATGCACAGTTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAATGCACAGTTAG
1039802 GC
66 GC
* * ** * * *
1039804 CTCAAAGGAACTTAGCCTTTAATCTAACTACCATAATTGACATCTTTATGTCAATACACAATTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAATGCACAGTTAG
1039869 GC
66 GC
* *
1039871 CTCAAAGGCACTTAGCCTTTCATCTAACTGGAATAGTTGACACCTTTATGTCAATGCACAGTTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAATGCACAGTTAG
*
1039936 AC
66 GC
* * * *
1039938 CTCAAAGGCACTTAGCCTTTCATATAACTGGAATAATTGACACCTTTCTGTCAATTCACAGTTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAATGCACAGTTAG
1040003 GC
66 GC
*
1040005 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTTTGTCAATGCACAGTTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAATGCACAGTTAG
1040070 GC
66 GC
1040072 CT
1 CT
1040074 TTAATCTTTT
Statistics
Matches: 354, Mismatches: 50, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
67 310 0.88
68 44 0.12
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (67 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTATGTCAATGCACAGTTAG
GC
Found at i:1046617 original size:32 final size:32
Alignment explanation
Indices: 1046526--1046618 Score: 96
Period size: 32 Copynumber: 2.9 Consensus size: 32
1046516 TCAAGCATGA
* * *
1046526 GAGGCACATTCCGTACGACGCGCCATTCAAAG
1 GAGGCACGTTCCATACGACGCACCATTCAAAG
* * * *
1046558 GAGGCGCGTTCCATATGATGCACCATTCAAGG
1 GAGGCACGTTCCATACGACGCACCATTCAAAG
* * *
1046590 GAGGCACGTTCCCTAGGACGCATCATTCA
1 GAGGCACGTTCCATACGACGCACCATTCA
1046619 TAAAACCCAT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.19
Consensus pattern (32 bp):
GAGGCACGTTCCATACGACGCACCATTCAAAG
Found at i:1047667 original size:85 final size:84
Alignment explanation
Indices: 1047557--1047734 Score: 261
Period size: 85 Copynumber: 2.1 Consensus size: 84
1047547 GACGCGCAAC
* *
1047557 TGTGCGTCATAAATTTATGACACGCATTTATGA-TGCT-CATTGCGCGTCATTGAAGCCCCCGTC
1 TGTGTGTCATAAATTTATAACACGCATTTATGACT--TACATTGCGCGTCATTGAAGCCCCCGTC
1047620 ATAAATCAAGACGACACACATT
64 ATAAATCAAGACGACACACA-T
* *
1047642 TGTGTGTCATAAATTTATAACACGCATTTATGACTTACATTGCGTGTCATTGAAGTCCCCGTCAT
1 TGTGTGTCATAAATTTATAACACGCATTTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCAT
* *
1047707 AAATGAAGATGACACACAT
66 AAATCAAGACGACACACAT
1047726 TGTGTGTCA
1 TGTGTGTCA
1047735 AAGAGTATAT
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
84 11 0.13
85 73 0.86
86 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (84 bp):
TGTGTGTCATAAATTTATAACACGCATTTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCAT
AAATCAAGACGACACACAT
Found at i:1054298 original size:6 final size:6
Alignment explanation
Indices: 1054287--1054328 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
1054277 CGGTTAACTT
1054287 CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC
1 CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC
1054329 TACTTGAAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
CTTCTC
Found at i:1055715 original size:3 final size:3
Alignment explanation
Indices: 1055698--1055834 Score: 204
Period size: 3 Copynumber: 45.7 Consensus size: 3
1055688 TTTTTACCCA
* * * *
1055698 TAT TAT T-T TATT TAT TAT TAT AAT TAT AAT TAT TAT TTT TAT AAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
1055743 TAT TAT AAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1055791 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1055835 AATACATATA
Statistics
Matches: 120, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
2 2 0.02
3 115 0.96
4 3 0.03
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1058753 original size:29 final size:29
Alignment explanation
Indices: 1058720--1058810 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
1058710 ATAAAATTTA
1058720 AAAATAGAGACCTTTAATAATTAAGGTAG
1 AAAATAGAGACCTTTAATAATTAAGGTAG
* * *
1058749 AAAATGGGGACCATTTTATAAAATTAA---A-
1 AAAATAGAGACC--TTTA-ATAATTAAGGTAG
* *
1058777 AAAATAGAAACCCTTAATAATTAAGGTAG
1 AAAATAGAGACCTTTAATAATTAAGGTAG
1058806 AAAAT
1 AAAAT
1058811 GAGGACTATT
Statistics
Matches: 47, Mismatches: 8, Indels: 14
0.68 0.12 0.20
Matches are distributed among these distances:
25 7 0.15
26 3 0.06
28 10 0.21
29 16 0.34
31 4 0.09
32 7 0.15
ACGTcount: A:0.52, C:0.08, G:0.14, T:0.26
Consensus pattern (29 bp):
AAAATAGAGACCTTTAATAATTAAGGTAG
Found at i:1058802 original size:57 final size:56
Alignment explanation
Indices: 1058632--1058872 Score: 254
Period size: 57 Copynumber: 4.3 Consensus size: 56
1058622 CCTATATATA
* * * * * * *
1058632 AAGGTAGAAAGT-GAGACAATTTTATAAAATTAAAAAATAGGGA-TCTTCAATTATA
1 AAGGTAGAAAATGGGGACTATTTTATAAAATTAAAAAATAGAGACCCTT-AATAATT
** * *
1058687 AAGGTAGAAAAT-GGGACTACGTTATAAAATTTAAAAATAGAGACCTTTAATAATT
1 AAGGTAGAAAATGGGGACTATTTTATAAAATTAAAAAATAGAGACCCTTAATAATT
* *
1058742 AAGGTAGAAAATGGGGACCATTTTATAAAATTAAAAAAATAGAAACCCTTAATAATT
1 AAGGTAGAAAATGGGGACTATTTTATAAAATT-AAAAAATAGAGACCCTTAATAATT
* * * *
1058799 AAGGTAGAAAATGAGGACTATTTTATAAAATTGAAAAAAAATGGGACCCTTATTAATT
1 AAGGTAGAAAATGGGGACTATTTTATAAAATT-AAAAAATA-GAGACCCTTAATAATT
* *
1058857 AAAGTAGAAAGTGGGG
1 AAGGTAGAAAATGGGG
1058873 GGCCTAAGCT
Statistics
Matches: 155, Mismatches: 27, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
55 53 0.34
56 18 0.12
57 58 0.37
58 26 0.17
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (56 bp):
AAGGTAGAAAATGGGGACTATTTTATAAAATTAAAAAATAGAGACCCTTAATAATT
Found at i:1058864 original size:58 final size:56
Alignment explanation
Indices: 1058630--1058866 Score: 230
Period size: 55 Copynumber: 4.2 Consensus size: 56
1058620 GCCCTATATA
* * * * * *
1058630 TAAAGGTAGAAAGTGA-GACAATTTTATAAAATTAAAAAATAGGGA-TCTTCAATTA-
1 TAAA-GTAGAAAATGAGGACTATTTTATAAAATTAAAAAAAAGAGACCCTT-AATAAT
** * * *
1058685 TAAAGGTAGAAAATG-GGACTACGTTATAAAATTTAAAAATAGAGACCTTTAATAAT
1 TAAA-GTAGAAAATGAGGACTATTTTATAAAATTAAAAAAAAGAGACCCTTAATAAT
* * * *
1058741 TAAGGTAGAAAATGGGGACCATTTTATAAAATTAAAAAAATAGAAACCCTTAATAAT
1 TAAAGTAGAAAATGAGGACTATTTTATAAAATTAAAAAAA-AGAGACCCTTAATAAT
* * *
1058798 TAAGGTAGAAAATGAGGACTATTTTATAAAATTGAAAAAAAATGGGACCCTTATTAAT
1 TAAAGTAGAAAATGAGGACTATTTTATAAAATT-AAAAAAAA-GAGACCCTTAATAAT
1058856 TAAAGTAGAAA
1 TAAAGTAGAAA
1058867 GTGGGGGGCC
Statistics
Matches: 152, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
55 52 0.34
56 25 0.16
57 46 0.30
58 29 0.19
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.28
Consensus pattern (56 bp):
TAAAGTAGAAAATGAGGACTATTTTATAAAATTAAAAAAAAGAGACCCTTAATAAT
Found at i:1060240 original size:201 final size:197
Alignment explanation
Indices: 1059872--1060240 Score: 435
Period size: 199 Copynumber: 1.8 Consensus size: 197
1059862 TCTAAAAAAA
** * * *
1059872 TTGTAATTTATAAGATTAAAGGTGTAGTATTGAATTTATCTTTTACTTGAGGTCAATATCGACAC
1 TTGTAATTTATAAGATTAAAGGCATAGTATTGAACTTATCTTTCAATTGAGGTCAATATCGACAC
** * * * *
1059937 ATATGAGATATTGTAAGGGGATAAAAATTGCATTGGAAAAGGTTCCAATGTTTGTTTTGTGAATG
66 ATACAAGACATTGTAAGGGGATAAAAATTGCATTGCAAAAGGTTCCAAAGTTTGTTTTCT-AATG
* * *
1060002 CCCAAAAAGCTAAAATGGTTTGATAGGTATATTCGAGGGGGGTTTTCAGGTAATTAATTTGAAAC
130 CCAAAAAAGCTAAAATGGCTTGATAGGCATATTCGAGGGGGGTTTTCAGGTAATTAATTTGAAAC
1060067 TTT
195 TTT
1060070 TTGTAATTTATAAGATTATAA-GCATAGTATTGTAACTTATCTTTCAATTGAGGGT-AATATC-A
1 TTGTAATTTATAAGATTA-AAGGCATAGTATTG-AACTTATCTTTCAATTGA-GGTCAATATCGA
*
1060132 GCACATACAAGACATTGTAAGTGGGATAAAAA-T-CATGTTCAAAATGGTTCCAAAGTTTGGTTT
63 -CACATACAAGACATTGTAAG-GGGATAAAAATTGCAT-TGCAAAA-GGTTCCAAAGTTT-GTTT
** *
1060195 TCT-ATGTGAATAAGAAGCTAAAATGGCTTGATAGGCATGTTCGAGG
123 TCTAATGCCAA-AA-AAGCTAAAATGGCTTGATAGGCATATTCGAGG
1060241 AGTATTTTTA
Statistics
Matches: 143, Mismatches: 18, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
198 31 0.22
199 50 0.35
200 27 0.19
201 35 0.24
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (197 bp):
TTGTAATTTATAAGATTAAAGGCATAGTATTGAACTTATCTTTCAATTGAGGTCAATATCGACAC
ATACAAGACATTGTAAGGGGATAAAAATTGCATTGCAAAAGGTTCCAAAGTTTGTTTTCTAATGC
CAAAAAAGCTAAAATGGCTTGATAGGCATATTCGAGGGGGGTTTTCAGGTAATTAATTTGAAACT
TT
Found at i:1060279 original size:201 final size:195
Alignment explanation
Indices: 1059831--1060288 Score: 444
Period size: 201 Copynumber: 2.3 Consensus size: 195
1059821 GTGTTTATAC
* * * * * **
1059831 GCATGTTCGAGGGGTATTTTCGGGTAGTTAATCTAAAAAAATTGTAATTTATAAGATTAAAGGTG
1 GCATGTTCGAGGGGTATTTTCAGGAAGTTAATAT-GAAAATTTGTAATTTATAAGATTAAAGGCA
* * * ** *
1059896 TAGTATTGAATTTATCTTTTACTTGAGGTCAATATCGACACATATGAGATATTGTAAGGGGATAA
65 TAGTATTGAACTTATCTTTCAATTGAGGTCAATATCGACACATACAAGACATTGTAAGGGGATAA
* * * * *
1059961 AAATTGCATTGGAAAAGGTTCCAATGTTTGTTTTGTGAATGCCCAAAAAGCTAAAATGGTTTGAT
130 AAATTGCATTGCAAAAGGTTCCAAAGTTTGTTTTCT-AATGCCAAAAAAGCTAAAATGGCTTGAT
1060026 AG
194 AG
* * ** * *
1060028 GTATATTCGAGGGGGGTTTTCAGGTAA-TTAATTTGAAACTTTTTGTAATTTATAAGATTATAA-
1 GCATGTTCGAGGGGTATTTTCAGG-AAGTTAATATGAAA--ATTTGTAATTTATAAGATTA-AAG
1060091 GCATAGTATTGTAACTTATCTTTCAATTGAGGGT-AATATC-AGCACATACAAGACATTGTAAGT
62 GCATAGTATTG-AACTTATCTTTCAATTGA-GGTCAATATCGA-CACATACAAGACATTGTAAG-
* **
1060154 GGGATAAAAA-T-CATGTTCAAAATGGTTCCAAAGTTTGGTTTTCT-ATGTGAATAAGAAGCTAA
123 GGGATAAAAATTGCAT-TGCAAAA-GGTTCCAAAGTTT-GTTTTCTAATGCCAA-AA-AAGCTAA
1060216 AATGGCTTGATAG
183 AATGGCTTGATAG
* * *
1060229 GCATGTTCGAGGAGTATTTTTAGGAAGTTAATATGAAAATTTACGTAATTTATAATATTA
1 GCATGTTCGAGGGGTATTTTCAGGAAGTTAATATGAAAATTT--GTAATTTATAAGATTA
1060289 GAGGTGTGGT
Statistics
Matches: 210, Mismatches: 35, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
196 3 0.01
197 25 0.12
198 32 0.15
199 53 0.25
200 29 0.14
201 68 0.32
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (195 bp):
GCATGTTCGAGGGGTATTTTCAGGAAGTTAATATGAAAATTTGTAATTTATAAGATTAAAGGCAT
AGTATTGAACTTATCTTTCAATTGAGGTCAATATCGACACATACAAGACATTGTAAGGGGATAAA
AATTGCATTGCAAAAGGTTCCAAAGTTTGTTTTCTAATGCCAAAAAAGCTAAAATGGCTTGATAG
Found at i:1064203 original size:18 final size:18
Alignment explanation
Indices: 1064182--1064260 Score: 63
Period size: 19 Copynumber: 4.1 Consensus size: 18
1064172 TGAAAAATAA
1064182 AAAAATATATCATAAATT
1 AAAAATATATCATAAATT
* *
1064200 AAAAAAAATATCAAAACATTT
1 -AAAAATATATCATAA-A-TT
1064221 ACAATAACTA-ATCATAAATT
1 A-AA-AA-TATATCATAAATT
1064241 AAAAA-ATAATCATAAATT
1 AAAAATAT-ATCATAAATT
1064259 AA
1 AA
1064261 TAATCTTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
16 1 0.02
18 14 0.29
19 15 0.31
20 5 0.10
21 5 0.10
22 8 0.16
23 1 0.02
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAATATATCATAAATT
Found at i:1064264 original size:14 final size:14
Alignment explanation
Indices: 1064245--1064274 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1064235 TAAATTAAAA
1064245 AATAATCATAAATT
1 AATAATCATAAATT
*
1064259 AATAATCTTAAATT
1 AATAATCATAAATT
1064273 AA
1 AA
1064275 AACTAACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
AATAATCATAAATT
Found at i:1064271 original size:32 final size:34
Alignment explanation
Indices: 1064229--1064295 Score: 93
Period size: 32 Copynumber: 2.0 Consensus size: 34
1064219 TTACAATAAC
*
1064229 TAATCATAAATTAAAA-AA-TAATCATAAATTAA
1 TAATCATAAATTAAAACAACAAATCATAAATTAA
*
1064261 TAATCTTAAATTAAAACTAACAAATCATAAATTAA
1 TAATCATAAATTAAAAC-AACAAATCATAAATTAA
1064296 AAAATTATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 15 0.50
34 2 0.07
35 13 0.43
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (34 bp):
TAATCATAAATTAAAACAACAAATCATAAATTAA
Found at i:1064817 original size:2 final size:2
Alignment explanation
Indices: 1064812--1064848 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1064802 AAAAAATTAA
1064812 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1064849 ATTACCTCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.