Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_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: 5101972
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 26
Found at i:994797 original size:20 final size:19
Alignment explanation
Indices: 994774--994819 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
994764 GGAAACTGAT
* *
994774 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
994794 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
994813 TTGCGAT
1 TTGCGAT
994820 TTTGTTTGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:994809 original size:19 final size:19
Alignment explanation
Indices: 994785--994821 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
994775 TGCGATACTG
*
994785 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
994804 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
994822 TGTTTGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:997199 original size:20 final size:20
Alignment explanation
Indices: 997176--997229 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
997166 AACGCGATTT
* *
997176 AGAAAATCGCAACGTTGAAA
1 AGAAAATCGCAACGGTCAAA
997196 AGAAAATCGCAACGGTCAAA
1 AGAAAATCGCAACGGTCAAA
997216 AGAAAATCGCAACG
1 AGAAAATCGCAACG
997230 CGATCTTCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.50, C:0.19, G:0.20, T:0.11
Consensus pattern (20 bp):
AGAAAATCGCAACGGTCAAA
Found at i:997265 original size:20 final size:21
Alignment explanation
Indices: 997220--997310 Score: 125
Period size: 20 Copynumber: 4.4 Consensus size: 21
997210 GTCAAAAGAA
*
997220 AATCGCAACGCGATCTTCCAAAG
1 AATCGCAATGCGA--TTCCAAAG
997243 AATCGCAATGCGATTCC-AAG
1 AATCGCAATGCGATTCCAAAG
*
997263 AATCGCAATGCGA-GCCAAAG
1 AATCGCAATGCGATTCCAAAG
997283 AATCGCAATGCGATTCC-AAG
1 AATCGCAATGCGATTCCAAAG
997303 AATCGCAA
1 AATCGCAA
997311 AACGGCAAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
19 2 0.03
20 43 0.68
21 6 0.10
23 12 0.19
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.16
Consensus pattern (21 bp):
AATCGCAATGCGATTCCAAAG
Found at i:998187 original size:6 final size:6
Alignment explanation
Indices: 998176--998208 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
998166 TCTCGTCTCG
998176 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
998209 AATATGTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:998344 original size:20 final size:20
Alignment explanation
Indices: 998319--998530 Score: 180
Period size: 20 Copynumber: 10.4 Consensus size: 20
998309 TTTTGTCGTT
998319 TTGCGATTCTTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
** *
998339 TTGCGATT-TTCTCAATCGCA
1 TTGCGATTCTT-GGAATCGCG
*
998359 TTGCGATTCCTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
** *
998379 TTGCGATT-TTCTCAATCGCA
1 TTGCGATTCTT-GGAATCGCG
*
998399 TTGCGATTCCTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
** *
998419 TTGCGATT-TTCTCAATCGCA
1 TTGCGATTCTT-GGAATCGCG
*
998439 TTGCGATTCCTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
**
998459 TTGCGATT-TTCTCAATCGCGCG
1 TTGCGATTCTT-GGAAT--CGCG
* *
998481 TTGCGATTCTTTGAATCGCA
1 TTGCGATTCTTGGAATCGCG
998501 TTGCGATTCTTGGAAGATCGCG
1 TTGCGATTCTTGG-A-ATCGCG
998523 TTGCGATT
1 TTGCGATT
998531 TTCTTTTGAC
Statistics
Matches: 150, Mismatches: 30, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
19 5 0.03
20 110 0.73
21 4 0.03
22 29 0.19
23 2 0.01
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (20 bp):
TTGCGATTCTTGGAATCGCG
Found at i:998366 original size:40 final size:40
Alignment explanation
Indices: 998319--998508 Score: 317
Period size: 40 Copynumber: 4.7 Consensus size: 40
998309 TTTTGTCGTT
*
998319 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
1 TTGCGATTCCTGGAATCGCGTTGCGATTTTCTCAATCGCA
998359 TTGCGATTCCTGGAATCGCGTTGCGATTTTCTCAATCGCA
1 TTGCGATTCCTGGAATCGCGTTGCGATTTTCTCAATCGCA
998399 TTGCGATTCCTGGAATCGCGTTGCGATTTTCTCAATCGCA
1 TTGCGATTCCTGGAATCGCGTTGCGATTTTCTCAATCGCA
*
998439 TTGCGATTCCTGGAATCGCGTTGCGATTTTCTCAATCGCGCG
1 TTGCGATTCCTGGAATCGCGTTGCGATTTTCTCAAT--CGCA
* * *
998481 TTGCGATTCTTTGAATCGCATTGCGATT
1 TTGCGATTCCTGGAATCGCGTTGCGATT
998509 CTTGGAAGAT
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
40 115 0.80
42 28 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (40 bp):
TTGCGATTCCTGGAATCGCGTTGCGATTTTCTCAATCGCA
Found at i:998546 original size:20 final size:20
Alignment explanation
Indices: 998521--998574 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
998511 TGGAAGATCG
* *
998521 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTCAA
998541 CGTTGCGATTTTCTTTTCAA
1 CGTTGCGATTTTCTTTTCAA
*
998561 CATTGCGATTTTCT
1 CGTTGCGATTTTCT
998575 AAATCGCGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.13, C:0.20, G:0.17, T:0.50
Consensus pattern (20 bp):
CGTTGCGATTTTCTTTTCAA
Found at i:1006124 original size:29 final size:29
Alignment explanation
Indices: 1006082--1006170 Score: 124
Period size: 29 Copynumber: 3.1 Consensus size: 29
1006072 TACCGGGGGT
*
1006082 AGGTCGCCATGCACGCCCGGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
***
1006111 AGGTCGCCATGCACGCCCAGCGACCTGGT
1 AGGTCGCCATGCACGCCCAGCGACCTACC
* *
1006140 AGGTCGCCATGCATGCCCTGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
1006169 AG
1 AG
1006171 CCAACGACCT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.18, C:0.40, G:0.28, T:0.13
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCAGCGACCTACC
Found at i:1006448 original size:29 final size:29
Alignment explanation
Indices: 1006387--1006470 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 29
1006377 ATGAATCCTT
** * **
1006387 GGTCGCCCCGAGTGCATGGCGACCTCCTT
1 GGTCGCCGGGAGTGCATGGCGACCTACGA
* *
1006416 GGTCGCCGGGCGTGCATGGCGACCTAGGA
1 GGTCGCCGGGAGTGCATGGCGACCTACGA
*
1006445 GGTCGCTGGGAGTGCATGGCGACCTA
1 GGTCGCCGGGAGTGCATGGCGACCTA
1006471 TGGTTGGGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.13, C:0.30, G:0.39, T:0.18
Consensus pattern (29 bp):
GGTCGCCGGGAGTGCATGGCGACCTACGA
Found at i:1008526 original size:2 final size:2
Alignment explanation
Indices: 1008515--1008572 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
1008505 ATAATATAAA
1008515 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1008556 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
1008573 AATAAAAGAA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1009089 original size:43 final size:43
Alignment explanation
Indices: 1009012--1009097 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
1009002 CAAAATGATG
* * *
1009012 GCCCACTCCACGGCGAACGGAGGTATGTCTCAGTGAGTGGCTA
1 GCCCACTCCACGGCCAACGGAGGGATGTCCCAGTGAGTGGCTA
*
1009055 GCCCTCTCCACGGCCAACGGAGGCGA-GTCCCAGTGAGTGGCTA
1 GCCCACTCCACGGCCAACGGAGG-GATGTCCCAGTGAGTGGCTA
1009098 ACGGGTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 37 0.97
44 1 0.03
ACGTcount: A:0.20, C:0.31, G:0.33, T:0.16
Consensus pattern (43 bp):
GCCCACTCCACGGCCAACGGAGGGATGTCCCAGTGAGTGGCTA
Found at i:1012704 original size:11 final size:11
Alignment explanation
Indices: 1012688--1012713 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1012678 AATTTACCCT
1012688 TAAATTAATAA
1 TAAATTAATAA
1012699 TAAATTAATAA
1 TAAATTAATAA
1012710 TAAA
1 TAAA
1012714 ATAGTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAAATTAATAA
Found at i:1012735 original size:19 final size:18
Alignment explanation
Indices: 1012690--1012741 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
1012680 TTTACCCTTA
*
1012690 AATTAATAATAAATTAAT
1 AATTAATAGTAAATTAAT
* *
1012708 AATAAAATAGTAAATTATT
1 AAT-TAATAGTAAATTAAT
1012727 CAATTAATAGTAAAT
1 -AATTAATAGTAAAT
1012742 CAATTGAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 3 0.11
19 22 0.79
20 3 0.11
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (18 bp):
AATTAATAGTAAATTAAT
Found at i:1013099 original size:2 final size:2
Alignment explanation
Indices: 1013092--1013170 Score: 79
Period size: 2 Copynumber: 39.0 Consensus size: 2
1013082 CCTAAATCTT
* *
1013092 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * **
1013134 TA -A CTA CA AA CCC TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
1013171 AAGATAACTA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
1 1 0.02
2 63 0.97
3 1 0.02
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (2 bp):
TA
Found at i:1013163 original size:41 final size:41
Alignment explanation
Indices: 1013106--1013188 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
1013096 TATATATATA
1013106 TATATATATATATATATATATATAAAGATAACTACAAACCC
1 TATATATATATATATATATATATAAAGATAACTACAAACCC
1013147 TATATATATATATATATATATATAAAGATAACTACAAACCC
1 TATATATATATATATATATATATAAAGATAACTACAAACCC
1013188 T
1 T
1013189 TGTATCCCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.35
Consensus pattern (41 bp):
TATATATATATATATATATATATAAAGATAACTACAAACCC
Found at i:1013486 original size:29 final size:30
Alignment explanation
Indices: 1013422--1013497 Score: 111
Period size: 29 Copynumber: 2.6 Consensus size: 30
1013412 TTAAAAAGAT
* * *
1013422 AAGATAATAATAATATATATTTTTAATTTA
1 AAGATAAGAATAAAATATATTTTTAATGTA
1013452 AA-ATAAGAATAAAATATATTTTTAA-GTA
1 AAGATAAGAATAAAATATATTTTTAATGTA
1013480 AAGATAAGAATAAAATAT
1 AAGATAAGAATAAAATAT
1013498 TATATGTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 4 0.10
29 36 0.86
30 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (30 bp):
AAGATAAGAATAAAATATATTTTTAATGTA
Found at i:1013529 original size:64 final size:62
Alignment explanation
Indices: 1013400--1013541 Score: 180
Period size: 64 Copynumber: 2.2 Consensus size: 62
1013390 TCTTTACTTA
1013400 AAAATATATATTTTAAAAAGATAAGATAATAATAATATATATTTTTAATTTAAAATAAGAAT
1 AAAATATATATTTTAAAAAGATAAGATAATAATAATATATATTTTTAATTTAAAATAAGAAT
* * * *
1013462 AAAATATAT-TTTTAAGTAAAGATAAGAATAA-AATATTATATGTTTTTTAATTTCAAATAAGAG
1 AAAATATATATTTTAA--AAAGATAAG-ATAATAATAATATAT-ATTTTTAATTTAAAATAAGAA
1013525 T
62 T
*
1013526 AAAAAATATATATTTA
1 AAAATATATAT-TTTA
1013542 TATTAAATTA
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
61 6 0.09
62 9 0.13
63 18 0.26
64 31 0.45
65 1 0.01
66 4 0.06
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (62 bp):
AAAATATATATTTTAAAAAGATAAGATAATAATAATATATATTTTTAATTTAAAATAAGAAT
Found at i:1013674 original size:24 final size:25
Alignment explanation
Indices: 1013638--1013704 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 25
1013628 ATATTTTTAC
*
1013638 ATTAAAATAAAAAAATATTTAATAA
1 ATTAAAACAAAAAAATATTTAATAA
*
1013663 ATTAAGACAAAAATAAAAATATTTAATAA
1 ATT-A-A-AACAA-AAAAATATTTAATAA
1013692 ATTAAAACAAAAA
1 ATTAAAACAAAAA
1013705 TAAATATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
25 6 0.17
26 5 0.14
27 2 0.06
28 5 0.14
29 18 0.50
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (25 bp):
ATTAAAACAAAAAAATATTTAATAA
Found at i:1013723 original size:29 final size:29
Alignment explanation
Indices: 1013648--1013708 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
1013638 ATTAAAATAA
*
1013648 AAAAATATTTAATAAATTAAGACAAAAAT
1 AAAAATATTTAATAAATTAAAACAAAAAT
1013677 AAAAATATTTAATAAATTAAAACAAAAAT
1 AAAAATATTTAATAAATTAAAACAAAAAT
1013706 AAA
1 AAA
1013709 TATAATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (29 bp):
AAAAATATTTAATAAATTAAAACAAAAAT
Found at i:1015645 original size:15 final size:16
Alignment explanation
Indices: 1015627--1015659 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1015617 GTTATTGGTC
1015627 ATCGG-TAGAGGTACG
1 ATCGGTTAGAGGTACG
*
1015642 ATCGGTTAGAGGTTCG
1 ATCGGTTAGAGGTACG
1015658 AT
1 AT
1015660 TGAAAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.24, C:0.12, G:0.36, T:0.27
Consensus pattern (16 bp):
ATCGGTTAGAGGTACG
Found at i:1015994 original size:15 final size:15
Alignment explanation
Indices: 1015969--1016017 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
1015959 TAATTTGAAT
*
1015969 AATTATTTTTATATTA
1 AATT-TTTTTATATAA
1015985 AATTTTTTTAATATAA
1 AATTTTTTT-ATATAA
*
1016001 AATTTTATTATA-AA
1 AATTTTTTTATATAA
1016015 AAT
1 AAT
1016018 AACTCTCTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 5 0.17
15 8 0.27
16 17 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTTTATATAA
Found at i:1017345 original size:14 final size:13
Alignment explanation
Indices: 1017326--1017356 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
1017316 AAAATTTAAT
1017326 TAATATTATTATAA
1 TAATATTATTAT-A
1017340 TAATATTATTATA
1 TAATATTATTATA
1017353 TAAT
1 TAAT
1017357 TTTTAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAATATTATTATA
Found at i:1017366 original size:11 final size:13
Alignment explanation
Indices: 1017321--1017366 Score: 51
Period size: 14 Copynumber: 3.6 Consensus size: 13
1017311 GATTTAAAAT
*
1017321 TTAATTAATATTA
1 TTAAATAATATTA
1017334 TTATAATAATATTA
1 TTA-AATAATATTA
*
1017348 TTATATAAT-TT-
1 TTAAATAATATTA
1017359 TTAAATAA
1 TTAAATAA
1017367 AAATCGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 7 0.24
12 2 0.07
13 8 0.28
14 12 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTAAATAATATTA
Found at i:1019497 original size:60 final size:59
Alignment explanation
Indices: 1019382--1019498 Score: 130
Period size: 60 Copynumber: 1.9 Consensus size: 59
1019372 TAATATTTTA
* * *
1019382 ATTATTAAAAAGTTATAAAATAATTTTTAATTATAGATAGTTATTTTATTTATTTTTTCG
1 ATTATTAAAAAGTTATAAAATAATATTTAATTATAGATAG-TATTTTAATCATTTTTTCG
* **
1019442 ATTATTAAAAA-TTATATAATAATAATTTAATTATTTATA-TATTTTAAAATCATTTTT
1 ATTATTAAAAAGTTATAAAATAAT-ATTTAATTATAGATAGTATTTT--AATCATTTTT
1019499 ATTTAAAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
58 6 0.12
59 11 0.23
60 31 0.65
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (59 bp):
ATTATTAAAAAGTTATAAAATAATATTTAATTATAGATAGTATTTTAATCATTTTTTCG
Found at i:1020109 original size:2 final size:2
Alignment explanation
Indices: 1020102--1020127 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1020092 TTATAGTAGT
1020102 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1020128 AAATAACATA
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):
TA
Found at i:1020219 original size:43 final size:44
Alignment explanation
Indices: 1020170--1020258 Score: 171
Period size: 43 Copynumber: 2.0 Consensus size: 44
1020160 AGGAGATAAA
1020170 TATAAATTTTAAGGAGTAAAAACGTATTTTCAAT-AAAAAAATG
1 TATAAATTTTAAGGAGTAAAAACGTATTTTCAATAAAAAAAATG
1020213 TATAAATTTTAAGGAGTAAAAACGTATTTTCAATAAAAAAAATG
1 TATAAATTTTAAGGAGTAAAAACGTATTTTCAATAAAAAAAATG
1020257 TA
1 TA
1020259 ATTGTCTTCA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 34 0.76
44 11 0.24
ACGTcount: A:0.52, C:0.04, G:0.11, T:0.33
Consensus pattern (44 bp):
TATAAATTTTAAGGAGTAAAAACGTATTTTCAATAAAAAAAATG
Found at i:1020239 original size:24 final size:24
Alignment explanation
Indices: 1020170--1020239 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
1020160 AGGAGATAAA
1020170 TATAAATTTTAAGGAGTAAAAACG
1 TATAAATTTTAAGGAGTAAAAACG
* * * *
1020194 TAT---TTTCAA-TA-AAAAAATG
1 TATAAATTTTAAGGAGTAAAAACG
1020213 TATAAATTTTAAGGAGTAAAAACG
1 TATAAATTTTAAGGAGTAAAAACG
1020237 TAT
1 TAT
1020240 TTTCAATAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 10
0.65 0.16 0.20
Matches are distributed among these distances:
19 9 0.27
20 1 0.03
21 5 0.15
22 5 0.15
23 1 0.03
24 12 0.36
ACGTcount: A:0.50, C:0.04, G:0.13, T:0.33
Consensus pattern (24 bp):
TATAAATTTTAAGGAGTAAAAACG
Found at i:1020296 original size:2 final size:2
Alignment explanation
Indices: 1020285--1020318 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1020275 ATCTCAATCC
1020285 AT AT -T 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 A
1020319 CATACATACA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1021126 original size:2 final size:2
Alignment explanation
Indices: 1021119--1021150 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1021109 AATTTTGAGT
1021119 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1021151 ATTAGGGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1025216 original size:40 final size:40
Alignment explanation
Indices: 1025161--1025239 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
1025151 TGAATTACTA
*
1025161 AAACCTTTGTCCAAAGCTTGATCTTGACAAGTCTAACTTG
1 AAACCTTTGTCCAAAGCCTGATCTTGACAAGTCTAACTTG
1025201 AAACCTTTGTCCAAAGCCTGATCTTGACAAGTCTAACTT
1 AAACCTTTGTCCAAAGCCTGATCTTGACAAGTCTAACTT
1025240 ACCAGATCAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (40 bp):
AAACCTTTGTCCAAAGCCTGATCTTGACAAGTCTAACTTG
Found at i:1027762 original size:2 final size:2
Alignment explanation
Indices: 1027755--1027803 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
1027745 ATTTAAAATG
1027755 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1027797 AT AT AT A
1 AT AT AT A
1027804 GAATAACTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1034317 original size:17 final size:18
Alignment explanation
Indices: 1034295--1034328 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1034285 ATCCATCGAG
1034295 GCTGATC-CTACTCCTCT
1 GCTGATCTCTACTCCTCT
*
1034312 GCTGATCTCTCCTCCTC
1 GCTGATCTCTACTCCTC
1034329 CTCTCGCCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.09, C:0.44, G:0.12, T:0.35
Consensus pattern (18 bp):
GCTGATCTCTACTCCTCT
Found at i:1036634 original size:17 final size:17
Alignment explanation
Indices: 1036612--1036654 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
1036602 TGCAAGCATT
*
1036612 GAAGAACTTCTCAGTCA
1 GAAGAACTTCACAGTCA
1036629 GAAGAACTTCACAGTCA
1 GAAGAACTTCACAGTCA
1036646 GAAGAACTT
1 GAAGAACTT
1036655 GGAGCCAACG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (17 bp):
GAAGAACTTCACAGTCA
Found at i:1038093 original size:21 final size:21
Alignment explanation
Indices: 1038055--1038095 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1038045 TGATTCAAAT
*
1038055 CATATGTGAAGTATATATGAA
1 CATATGTGAAGTAGATATGAA
1038076 CATATGTGAA-TAAGATATGA
1 CATATGTGAAGT-AGATATGA
1038096 TATACATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.32
Consensus pattern (21 bp):
CATATGTGAAGTAGATATGAA
Found at i:1038310 original size:21 final size:21
Alignment explanation
Indices: 1038280--1038337 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
1038270 AGGGTTTCAT
1038280 AGGTCATTCGGGACAATACAG
1 AGGTCATTCGGGACAATACAG
* * *
1038301 TGGTCCTTCGGGATAATACAG
1 AGGTCATTCGGGACAATACAG
*
1038322 AGGTCTTTCGGGACAA
1 AGGTCATTCGGGACAA
1038338 ATTTCATATG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (21 bp):
AGGTCATTCGGGACAATACAG
Found at i:1042040 original size:25 final size:25
Alignment explanation
Indices: 1042006--1042053 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1041996 TTTTTAATAT
*
1042006 TTTATTTTAA-AAAATAAAAATAAAA
1 TTTAATTTAACAAAA-AAAAATAAAA
*
1042031 TTTAATTTAACAAGAAAAAATAA
1 TTTAATTTAACAAAAAAAAATAA
1042054 CCTCAGTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (25 bp):
TTTAATTTAACAAAAAAAAATAAAA
Found at i:1042270 original size:19 final size:19
Alignment explanation
Indices: 1042186--1042274 Score: 81
Period size: 20 Copynumber: 4.6 Consensus size: 19
1042176 GCGATTTTCC
*
1042186 AAATTCGCAACGCGATAGTT
1 AAATTCGCAACGCGA-ATTT
* * *
1042206 AAATTCTCAACGCGATAGTC
1 AAATTCGCAACGCGA-ATTT
**
1042226 AAATTCGCAA-TTGAATTT
1 AAATTCGCAACGCGAATTT
1042244 CAAATTCGCAACGCGAATTT
1 -AAATTCGCAACGCGAATTT
*
1042264 AATTTCGCAAC
1 AAATTCGCAAC
1042275 AGGTTTTAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
18 2 0.04
19 22 0.39
20 33 0.58
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (19 bp):
AAATTCGCAACGCGAATTT
Found at i:1043232 original size:24 final size:24
Alignment explanation
Indices: 1043174--1043220 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
1043164 AGTTAGTATT
* *
1043174 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGATCAATACC
1043198 CGAACTTTGATCTTGATCAATAC
1 CGAACTTTGATCTTGATCAATAC
1043221 TCGGATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (24 bp):
CGAACTTTGATCTTGATCAATACC
Found at i:1043787 original size:273 final size:276
Alignment explanation
Indices: 1043300--1043849 Score: 1052
Period size: 273 Copynumber: 2.0 Consensus size: 276
1043290 CCGAATTTTG
*
1043300 ATGATGAAACAGCCACTGTCGAGGAATATGTTGTTAATGATAATGAGGAGGAAGTTACGACTGTG
1 ATGATGAAACAGCCACTATCGAGGAATATGTTGTTAATGATAATGAGGAGGAAGTTACGACTGTG
1043365 AATGAACATGTTGAACATCCATTATGTAATTCATATAACCCTGAAGAAAAAGAAGAAGTCCCTGA
66 AATGAACATGTTGAACATCCATTATGTAATTCATATAACCCTGAAGAAAAAGAAGAAGTCCCTGA
*
1043430 AGAAAGGAAAAAGAAGAAAATGCCACGAGAGTATAACTTGAATATGCCAGAATTACTTCAGATAC
131 AGAAAGGAAAAAGAAGAAAATGCCACGAGAGTATAACTGGAATATGCCAGAATTACTTCAGATAC
1043495 CGGAAGAAGAGTTGGTAAAGATATCAGTTGATTATTACACAAAAG-TATTCGTATCAAG-A-ATG
196 CGGAAGAAGAGTTGGTAAAGATATCAGTTGATTATTACACAAAAGTTATTCGTATCAAGAAGATG
1043557 ATTGTTTTGATACAAA
261 ATTGTTTTGATACAAA
1043573 ATGATGAAACAGCCACTATCGAGGAATATGTTGTTAATGATAATGAGGAGGAAGTTACGACTGTG
1 ATGATGAAACAGCCACTATCGAGGAATATGTTGTTAATGATAATGAGGAGGAAGTTACGACTGTG
1043638 AATGAACATGTTGAACATCCATTATGTAATTCATATAACCCTGAAGAAAAAGAAGAAGTCCCTGA
66 AATGAACATGTTGAACATCCATTATGTAATTCATATAACCCTGAAGAAAAAGAAGAAGTCCCTGA
1043703 AGAAAGGAAAAAGAAGAAAATGCCACGAGAGTATAACTGGAATATGCCAGAATTACTTCAGATAC
131 AGAAAGGAAAAAGAAGAAAATGCCACGAGAGTATAACTGGAATATGCCAGAATTACTTCAGATAC
1043768 CGGAAGAAGAGTTGGTAAAGATATCAGTTGATTATTACACAAAAGTTATTCGTATCAAGAAAGAT
196 CGGAAGAAGAGTTGGTAAAGATATCAGTTGATTATTACACAAAAGTTATTCGTATCAAG-AAGAT
1043833 GATTGTTTTGATACAAA
260 GATTGTTTTGATACAAA
1043850 GGAAGACTTG
Statistics
Matches: 271, Mismatches: 2, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
273 238 0.88
274 13 0.05
276 1 0.00
277 19 0.07
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.25
Consensus pattern (276 bp):
ATGATGAAACAGCCACTATCGAGGAATATGTTGTTAATGATAATGAGGAGGAAGTTACGACTGTG
AATGAACATGTTGAACATCCATTATGTAATTCATATAACCCTGAAGAAAAAGAAGAAGTCCCTGA
AGAAAGGAAAAAGAAGAAAATGCCACGAGAGTATAACTGGAATATGCCAGAATTACTTCAGATAC
CGGAAGAAGAGTTGGTAAAGATATCAGTTGATTATTACACAAAAGTTATTCGTATCAAGAAGATG
ATTGTTTTGATACAAA
Found at i:1046114 original size:20 final size:20
Alignment explanation
Indices: 1046089--1046127 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1046079 AAATAAGCGA
1046089 TGCGAATTTGACTATCGCAT
1 TGCGAATTTGACTATCGCAT
1046109 TGCGAATTTGACTATCGCA
1 TGCGAATTTGACTATCGCA
1046128 ACGCTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (20 bp):
TGCGAATTTGACTATCGCAT
Found at i:1046242 original size:24 final size:25
Alignment explanation
Indices: 1046215--1046263 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
1046205 AAATTAATTA
1046215 AACATTGTT-GGGGTACATTATTTG
1 AACATTGTTAGGGGTACATTATTTG
*
1046239 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTAGGGGTACATTATTTG
1046264 GAAAAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (25 bp):
AACATTGTTAGGGGTACATTATTTG
Found at i:1046671 original size:18 final size:18
Alignment explanation
Indices: 1046650--1046686 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1046640 GTAATTGGAG
1046650 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
1046668 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
1046686 T
1 T
1046687 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:1046693 original size:24 final size:24
Alignment explanation
Indices: 1046642--1046694 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
1046632 TTTCATATGT
* * *
1046642 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
1046666 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
1046690 AATTT
1 AATTT
1046695 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:1047460 original size:61 final size:63
Alignment explanation
Indices: 1047329--1047469 Score: 171
Period size: 61 Copynumber: 2.2 Consensus size: 63
1047319 TTTTAGAAAC
*
1047329 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACAAATCAAATT
1 AACAAATCAACTTTTACAAATCAATT--A-AAGCAAAAAAATAAATCTTATTTACAAATCAAATT
1047394 A
63 A
* * ** *
1047395 AACAAATCAACTTTTACAAATCAATT-AATC-AAAAAATAAATCTTATTTCCTCATC-AATTGT
1 AACAAATCAACTTTTACAAATCAATTAAAGCAAAAAAATAAATCTTATTTACAAATCAAATT-A
1047456 AACAAATCAACTTT
1 AACAAATCAACTTT
1047470 CAATGTAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
60 4 0.06
61 35 0.51
62 3 0.04
66 26 0.38
ACGTcount: A:0.50, C:0.17, G:0.01, T:0.31
Consensus pattern (63 bp):
AACAAATCAACTTTTACAAATCAATTAAAGCAAAAAAATAAATCTTATTTACAAATCAAATTA
Found at i:1048917 original size:21 final size:21
Alignment explanation
Indices: 1048883--1048936 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
1048873 CTTCTTTGAT
*
1048883 GATGATAGGGGCCTCTTGAAC
1 GATGATAGGTGCCTCTTGAAC
*
1048904 GAT-ATGAGGTGCCTCTTGAAT
1 GATGAT-AGGTGCCTCTTGAAC
1048925 GATGATAGGTGC
1 GATGATAGGTGC
1048937 ATCAGGATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 2 0.07
21 25 0.86
22 2 0.07
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.28
Consensus pattern (21 bp):
GATGATAGGTGCCTCTTGAAC
Found at i:1051579 original size:20 final size:20
Alignment explanation
Indices: 1051554--1051598 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
1051544 GCGTAAAAAC
1051554 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
1051574 ATTTGATTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
1051594 ATTTG
1 ATTTG
1051599 GAATATCGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:1051614 original size:21 final size:21
Alignment explanation
Indices: 1051590--1051635 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
1051580 TTTTCGCGTT
*
1051590 GCGAATTTGGAATATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
*
1051611 GCGAATTTGGAAAATCGCAAT
1 GCGAATTTGGAAAATCGCAAC
1051632 GCGA
1 GCGA
1051636 TTTACATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (21 bp):
GCGAATTTGGAAAATCGCAAC
Found at i:1058860 original size:21 final size:21
Alignment explanation
Indices: 1058831--1058883 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1058821 ATTCTGACTA
1058831 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
1058852 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
1058873 TCGCAATGCGA
1 TCGCATTGCGA
1058884 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:1058898 original size:20 final size:20
Alignment explanation
Indices: 1058873--1058986 Score: 156
Period size: 20 Copynumber: 5.7 Consensus size: 20
1058863 TTTTCCTAAT
1058873 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
1058893 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
1058914 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
1058934 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
1058954 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
1058974 TCGCAATGCGAAT
1 TCGCAATGCGAAT
1058987 CTGACTATCG
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
20 68 0.82
21 15 0.18
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:1058965 original size:40 final size:40
Alignment explanation
Indices: 1058873--1059006 Score: 171
Period size: 40 Copynumber: 3.3 Consensus size: 40
1058863 TTTTCCTAAT
* * **
1058873 TCGCAATGCGAATACGTAAATCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGATTACGTAAATCGCAATGCG-ATTACGAAAA
*
1058914 TCGCAATGCGATTACGTAAATCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAATCGCAATGCGATTACGAAAA
* **
1058954 TCGCAATGCGATTACGTAAATCGCAATGCGAAT-CTGACTA
1 TCGCAATGCGATTACGTAAATCGCAATGCGATTAC-GAAAA
1058994 TCGCAATGCGATT
1 TCGCAATGCGATT
1059007 TACATAGCGC
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 54 0.65
41 28 0.34
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (40 bp):
TCGCAATGCGATTACGTAAATCGCAATGCGATTACGAAAA
Found at i:1059207 original size:22 final size:21
Alignment explanation
Indices: 1059181--1059242 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
1059171 GGCGACATCC
1059181 GTCCCCATCTCTGACGAAATCA
1 GTCCCCATCTC-GACGAAATCA
*
1059203 GTCCCCA---CGACGATATCA
1 GTCCCCATCTCGACGAAATCA
* *
1059221 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCT-CGACGAAATCA
1059243 TTCACGTCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 15 0.47
19 1 0.03
22 16 0.50
ACGTcount: A:0.26, C:0.37, G:0.16, T:0.21
Consensus pattern (21 bp):
GTCCCCATCTCGACGAAATCA
Found at i:1059611 original size:20 final size:20
Alignment explanation
Indices: 1059569--1059637 Score: 104
Period size: 20 Copynumber: 3.5 Consensus size: 20
1059559 CGATTCTGTC
*
1059569 GTTGCGATTTTCA-TTTCGC
1 GTTGCGATTTTCATTTTCGT
**
1059588 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
1059608 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
1059628 GTTGCGATTT
1 GTTGCGATTT
1059638 AAAGTTTCAG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 11 0.25
20 33 0.75
ACGTcount: A:0.12, C:0.16, G:0.23, T:0.49
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:1059645 original size:20 final size:20
Alignment explanation
Indices: 1059602--1059645 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1059592 CGATAGTCAT
** *
1059602 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
1059622 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
1059642 TTTC
1 TTTC
1059646 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:1061516 original size:20 final size:20
Alignment explanation
Indices: 1061491--1061633 Score: 192
Period size: 20 Copynumber: 7.5 Consensus size: 20
1061481 GAAGATAGTT
1061491 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
1061511 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
1061531 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
1061547 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
1061565 ACTATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
*
1061584 ACTATCGCAATACGAAAATG
1 ACTATCGCAATGCGAAAATG
**
1061604 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
1061624 ACTATCGCAA
1 ACTATCGCAA
1061634 CGAGAGAATC
Statistics
Matches: 109, Mismatches: 7, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
14 7 0.06
16 4 0.04
17 4 0.04
18 4 0.04
19 18 0.17
20 72 0.66
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:1061560 original size:34 final size:37
Alignment explanation
Indices: 1061491--1061633 Score: 157
Period size: 39 Copynumber: 3.7 Consensus size: 37
1061481 GAAGATAGTT
*
1061491 ACTATCGCAATGCGAAAATGACTATCGCAACGCGAAAATG
1 ACTATCGCAA-GCG-AAATGAC-ATCGCAATGCGAAAATG
*
1061531 ACTATCGCAA-CGAGA-GA-ATCGCAATGCGAAAATG
1 ACTATCGCAAGCGAAATGACATCGCAATGCGAAAATG
*
1061565 ACTATCGCAATGCGAAATGACTATCGCAATACGAAAATG
1 ACTATCGCAA-GCGAAATGAC-ATCGCAATGCGAAAATG
*
1061604 ACTATCGCAATGCGAATTTGACTATCGCAA
1 ACTATCGCAA-GCGAA-ATGAC-ATCGCAA
1061634 CGAGAGAATC
Statistics
Matches: 92, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
34 26 0.28
36 6 0.07
37 4 0.04
38 2 0.02
39 32 0.35
40 22 0.24
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (37 bp):
ACTATCGCAAGCGAAATGACATCGCAATGCGAAAATG
Found at i:1061650 original size:93 final size:92
Alignment explanation
Indices: 1061491--1061671 Score: 290
Period size: 93 Copynumber: 2.0 Consensus size: 92
1061481 GAAGATAGTT
*
1061491 ACTATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAGAGAATCGCAAT
1 ACTATCGCAATACGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAGAGAATCGCAAT
**
1061556 GCGAAAATGACTATCGCAATGCGAAATG
66 GCG-AAATGAAAATCGCAATGCGAAATG
* **
1061584 ACTATCGCAATACGAAAATGACTATCGCAATGCGAATTTGACTATCGCAACGAGAGAATCGCAAT
1 ACTATCGCAATACGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAGAGAATCGCAAT
*
1061649 GCGAAATGAAAATCGCATTGCGA
66 GCGAAATGAAAATCGCAATGCGA
1061672 TTCTCTCGTT
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 17 0.21
93 64 0.79
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (92 bp):
ACTATCGCAATACGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAGAGAATCGCAAT
GCGAAATGAAAATCGCAATGCGAAATG
Found at i:1062219 original size:21 final size:21
Alignment explanation
Indices: 1062151--1062231 Score: 72
Period size: 21 Copynumber: 3.9 Consensus size: 21
1062141 TGTCTCCCCT
1062151 ATCGTTCAAGAGGCCCCTATC
1 ATCGTTCAAGAGGCCCCTATC
** * **
1062172 ATCCCTCAAGAGTCCCCTCCC
1 ATCGTTCAAGAGGCCCCTATC
* * *
1062193 ACCGTTCAAGAGGCCACTTTC
1 ATCGTTCAAGAGGCCCCTATC
* *
1062214 ATCGTTGAAGAGGTCCCT
1 ATCGTTCAAGAGGCCCCT
1062232 CCCAACATTC
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.23
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCCTATC
Found at i:1062225 original size:42 final size:42
Alignment explanation
Indices: 1062153--1062235 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
1062143 TCTCCCCTAT
*
1062153 CGTTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCAC
* ** *
1062195 CGTTCAAGAGGCCACTTTCATCGTTGAAGAGGTCCCTCCCA
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCA
1062236 ACATTCTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.22, C:0.39, G:0.18, T:0.22
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAC
Found at i:1063706 original size:20 final size:19
Alignment explanation
Indices: 1063680--1063881 Score: 127
Period size: 20 Copynumber: 10.9 Consensus size: 19
1063670 ATCGCAACGA
1063680 ATTTCGCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
*
1063699 ATTTTCGCATTGCGA--TTC
1 A-TTTCGCGTTGCGATTTTC
*
1063717 A---CTCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
*
1063733 ATTTCGCATTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
* * *
1063752 ATTTCTCATTACGATTTTC
1 ATTTCGCGTTGCGATTTTC
*
1063771 ATTTCGCATTGCGA--TTC
1 ATTTCGCGTTGCGATTTTC
* **
1063788 ---TCTCGTTGCGATAGTC
1 ATTTCGCGTTGCGATTTTC
**
1063804 ATTTCCGCGTTGCGATAGTC
1 ATTT-CGCGTTGCGATTTTC
* **
1063824 AATTCCGCGTTGCGATAGTC
1 -ATTTCGCGTTGCGATTTTC
* **
1063844 ATTTCCGTGTTGCGATAGTC
1 ATTT-CGCGTTGCGATTTTC
1063864 ATATTCGCGTTGCGATTT
1 AT-TTCGCGTTGCGATTT
1063882 CTGCGTTGCG
Statistics
Matches: 149, Mismatches: 19, Indels: 29
0.76 0.10 0.15
Matches are distributed among these distances:
14 17 0.11
16 6 0.04
17 3 0.02
18 4 0.03
19 47 0.32
20 67 0.45
21 5 0.03
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (19 bp):
ATTTCGCGTTGCGATTTTC
Found at i:1063746 original size:19 final size:19
Alignment explanation
Indices: 1063680--1063786 Score: 134
Period size: 19 Copynumber: 5.8 Consensus size: 19
1063670 ATCGCAACGA
*
1063680 ATTTCGCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
1063699 ATTTTCGCATTGCGA--TTC
1 A-TTTCGCATTGCGATTTTC
*
1063717 A-CTCG--TTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
1063733 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
* *
1063752 ATTTCTCATTACGATTTTC
1 ATTTCGCATTGCGATTTTC
1063771 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
1063787 CTCTCGTTGC
Statistics
Matches: 75, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 3 0.04
18 4 0.05
19 43 0.57
20 12 0.16
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (19 bp):
ATTTCGCATTGCGATTTTC
Found at i:1063846 original size:40 final size:40
Alignment explanation
Indices: 1063791--1063879 Score: 153
Period size: 40 Copynumber: 2.2 Consensus size: 40
1063781 GCGATTCTCT
1063791 CGTTGCGATAGTCATTTCCGCGTTGCGATAGTCA-ATTCCG
1 CGTTGCGATAGTCATTTCCGCGTTGCGATAGTCATATT-CG
*
1063831 CGTTGCGATAGTCATTTCCGTGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTCG
1063871 CGTTGCGAT
1 CGTTGCGAT
1063880 TTCTGCGTTG
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 44 0.94
41 3 0.06
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (40 bp):
CGTTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTCG
Found at i:1066340 original size:24 final size:24
Alignment explanation
Indices: 1066306--1066359 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1066296 CTGAAAAATC
1066306 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
1066330 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1066354 ATCAAA
1 ATCAAA
1066360 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1066373 original size:24 final size:24
Alignment explanation
Indices: 1066306--1066373 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
1066296 CTGAAAAATC
* * *
1066306 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
1066330 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
1066354 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
1066374 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:1067228 original size:20 final size:20
Alignment explanation
Indices: 1067205--1067320 Score: 105
Period size: 20 Copynumber: 5.8 Consensus size: 20
1067195 TTGCGATAGT
* *
1067205 CAGAATCTCGTTGCGATTTA
1 CAGAATCGCATTGCGATTTA
*
1067225 CAGATTCGCATTGCGATTTA
1 CAGAATCGCATTGCGATTTA
1067245 C-GTAATCGCATTGCGATTTA
1 CAG-AATCGCATTGCGATTTA
*
1067265 C-GTATTCGCATTGCGATTTA
1 CAG-AATCGCATTGCGATTTA
* *
1067285 C-GTAATCACATTACGATTTA
1 CAG-AATCGCATTGCGATTTA
*
1067305 C-GTATTCGCATTGCGA
1 CAG-AATCGCATTGCGA
1067321 ATTAGGAAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
19 1 0.01
20 83 0.99
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (20 bp):
CAGAATCGCATTGCGATTTA
Found at i:1067240 original size:40 final size:40
Alignment explanation
Indices: 1067215--1067320 Score: 160
Period size: 40 Copynumber: 2.6 Consensus size: 40
1067205 CAGAATCTCG
*
1067215 TTGCGATTTACAG-ATTCGCATTGCGATTTACGTAATCGCA
1 TTGCGATTTAC-GTATTCGCATTGCGATTCACGTAATCGCA
* *
1067255 TTGCGATTTACGTATTCGCATTGCGATTTACGTAATCACA
1 TTGCGATTTACGTATTCGCATTGCGATTCACGTAATCGCA
*
1067295 TTACGATTTACGTATTCGCATTGCGA
1 TTGCGATTTACGTATTCGCATTGCGA
1067321 ATTAGGAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
39 1 0.02
40 62 0.98
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (40 bp):
TTGCGATTTACGTATTCGCATTGCGATTCACGTAATCGCA
Found at i:1067334 original size:21 final size:21
Alignment explanation
Indices: 1067310--1067362 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1067300 ATTTACGTAT
*
1067310 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* * *
1067331 TCGCAACGCGAATTTGGGAAA
1 TCGCAATGCGAATTAGGAAAA
1067352 TCGCAATGCGA
1 TCGCAATGCGA
1067363 TAGTCAGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:1073311 original size:37 final size:37
Alignment explanation
Indices: 1073270--1073340 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
1073260 TATATATCAC
* *
1073270 ATCATTAAATT-GAATGATGTGATATATATTATGTTAT
1 ATCA-TAAATTGGAACGATGTAATATATATTATGTTAT
* *
1073307 ATCATCAATTGGGACGATGTAATATATATTATGT
1 ATCATAAATTGGAACGATGTAATATATATTATGT
1073341 CATCATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 5 0.17
37 24 0.83
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.42
Consensus pattern (37 bp):
ATCATAAATTGGAACGATGTAATATATATTATGTTAT
Found at i:1080789 original size:16 final size:16
Alignment explanation
Indices: 1080766--1080820 Score: 76
Period size: 15 Copynumber: 3.4 Consensus size: 16
1080756 GTTGTGCAAA
1080766 TCCGGGTACCCGGATT
1 TCCGGGTACCCGGATT
*
1080782 TTCGGGTACCC-GATT
1 TCCGGGTACCCGGATT
*
1080797 TCCGGGTACCCGGAACT
1 TCCGGGTACCCGG-ATT
1080814 TCCGGGT
1 TCCGGGT
1080821 CGACGATTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.41
16 11 0.32
17 9 0.26
ACGTcount: A:0.13, C:0.31, G:0.31, T:0.25
Consensus pattern (16 bp):
TCCGGGTACCCGGATT
Found at i:1080878 original size:15 final size:15
Alignment explanation
Indices: 1080858--1080911 Score: 72
Period size: 15 Copynumber: 3.5 Consensus size: 15
1080848 CCTGATGTTA
1080858 CGGGTACCCGGTAAT
1 CGGGTACCCGGTAAT
**
1080873 CGGGTACCCGGATTTT
1 CGGGTACCCGG-TAAT
1080889 GCGGGTACCCGGTAAT
1 -CGGGTACCCGGTAAT
1080905 CGGGTAC
1 CGGGTAC
1080912 TCGATACCCG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 18 0.55
16 4 0.12
17 11 0.33
ACGTcount: A:0.17, C:0.26, G:0.35, T:0.22
Consensus pattern (15 bp):
CGGGTACCCGGTAAT
Found at i:1086697 original size:7 final size:7
Alignment explanation
Indices: 1086674--1086706 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
1086664 TTAACACCTC
1086674 TTGCA-T
1 TTGCATT
1086680 TTGCA-T
1 TTGCATT
1086686 TTGCATT
1 TTGCATT
1086693 TTGCATT
1 TTGCATT
1086700 TTGCATT
1 TTGCATT
1086707 GCATGTAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 11 0.42
7 15 0.58
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.55
Consensus pattern (7 bp):
TTGCATT
Found at i:1086698 original size:19 final size:19
Alignment explanation
Indices: 1086674--1086710 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1086664 TTAACACCTC
1086674 TTGCA-TTTGCATTTGCATT
1 TTGCATTTTGCA-TTGCATT
1086693 TTGCATTTTGCATTGCAT
1 TTGCATTTTGCATTGCAT
1086711 GTAGTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (19 bp):
TTGCATTTTGCATTGCATT
Found at i:1089864 original size:124 final size:125
Alignment explanation
Indices: 1089639--1089891 Score: 368
Period size: 124 Copynumber: 2.0 Consensus size: 125
1089629 AAGTTAGGAT
* * * *
1089639 ATGTTGGGGCACGACTGAACCCGCATCATGTTGAGATGACAAGATTCAGACCAAGGAGGCATGAA
1 ATGTCGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGACTCAGACCAAGAAGGCATGAA
* *
1089704 GAATGAGCCTTACAATTTGAGGTGATGGGGTATTTTGAAGG-CTC-TACCAGTATAAGATA
66 GAATGAGCCTTACAACTTGAGGTGATGGGGAATTTTGAAGGTC-CGTACCAGTATAAGATA
*
1089763 ATGTCGGGGCATGACTGAACCCACATCATGTTGAGATGACAAGACTCAGACCAAGAAGGCATTG-
1 ATGTCGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGACTCAGACCAAGAAGGCA-TGA
* * * *
1089827 AGAGTGAGCCTTACAACTTGGGGTGTTGGGGAATTTTGAAGGTCCGTACCAGTATAAGATG
65 AGAATGAGCCTTACAACTTGAGGTGATGGGGAATTTTGAAGGTCCGTACCAGTATAAGATA
1089888 ATGT
1 ATGT
1089892 TGCAGCACTA
Statistics
Matches: 115, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
124 94 0.82
125 21 0.18
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (125 bp):
ATGTCGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGACTCAGACCAAGAAGGCATGAA
GAATGAGCCTTACAACTTGAGGTGATGGGGAATTTTGAAGGTCCGTACCAGTATAAGATA
Found at i:1091847 original size:105 final size:105
Alignment explanation
Indices: 1091528--1092759 Score: 1282
Period size: 105 Copynumber: 11.7 Consensus size: 105
1091518 GTGAAGCAAG
* * * *
1091528 TGAAGATGTTCGAGTTCTATATTCCCTAGAGAAAGAGGGAGCGAACCCATTTGAAGAAGATATAT
1 TGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGT-T
* * ** *
1091593 -GAGTTCCATACTCCATAAGGAAAGAATGAGGGAACCCGTT
65 CGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
* * * *
1091633 TAAAGAGATGTTCGAGTTCTATACTCCCTAGAGAAAGA-GAATGTGAACCCGTTT---GAAGATG
1 T-GA-AGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGA-GCGAACCCGTTTGAAGAAGATG
* * *
1091694 TTCGAGTTCCATACTCCTTAAAGAAAGAGGTAGCGAAACCGTT
63 TTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
* * *
1091737 TGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCAAACCCGTTTGAAGAAGATATTC
1 TGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* *
1091802 GAGTTCCATACTCCCTAAAGAAAGAGTGAGCGAACCCATT
66 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
* * * **
1091842 TGAAGAAGATATCCGAGTTCCATACACCTTA-AGGAAAGAAAGAGCGAACCCGTTTGAAG-AGAT
1 TGAAGATG-T-T-CGAGTTCCATACTCCCTAGA-GAAAGAGGGAGCGAACCCGTTTGAAGAAGAT
* * * ** *
1091905 GTTCGAGTTCCATGCTCCATAAATAAAGAGATAGCGAACCCGTAAGA
62 GTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGT---T
* * * *
1091952 AGAAGATGTTCAAGTTCTATACTCCCTAGAGAAAGAGGGGGCGAACCCG-TTG--GAAGATGTTC
1 TGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* *
1092014 GAGTTCCATACTCCCTAAAGAAAGAGGGAACGAACCCATT
66 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
* * * * *
1092054 TGCAAAGGATTATTCAAGTTCTATACT-TCTTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
1 TG--AA-GA-TGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
*
1092118 TATTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
61 TGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
* * * * *
1092163 TGAAGAAGATATCCAAGTTCCATACTCCTTA-AGGAAAGAAGGAGCGAACCCATTTGAAG-AGAT
1 TGAAGATG-T-T-CGAGTTCCATACTCCCTAGA-GAAAGAGGGAGCGAACCCGTTTGAAGAAGAT
* *
1092226 GTTCGAGTTCTATACT-CCTAGAGAAAGAGGGAGCGAA-CCGTT
62 GTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
1092268 TGAAGATGTTCGAGTTCCATACTCCCTA-AGAAAGAGGGAGCGAACCCGTTT---GAAGATGTTC
1 TGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* * *
1092329 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCATT
66 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
* ** * *
1092369 TAAAGAAGATATTCGAGTTCCATACTCCCTAGAGAAAGAGTAAGTGAACCCGTTTGAAGAAGATA
1 T---GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG
* *
1092434 TTCAAGTTCCATACTCCCTAAAGAAAGAGGGAACGAACCCGTT
63 TTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
* * * **
1092477 GGAAGATGTTCGAGTTCCATACTCCATAGATAAAGAGGGAGCGAACCCGTAAGAAGAAGATGTTC
1 TGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
* ** * *
1092542 AAGTTTTATACTCCCTAGAGAAAGAGCGG-GCGAACCCATT
66 GAGTTCCATACTCCCTAAAGAAAGAG-GGAGCGAACCCGTT
* * * * * *
1092582 GGAAGATGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAACGAACCCATTT-ACAGAGGATTAT
1 TGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGA-AGAAGA-TGT
* * * *
1092646 TCAAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTT
64 TCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
* ** * *
1092688 TGAAGAATATGTCCGAGTTATATACTCCCTAGAGAAAGAGGGAACGAACTCGTTTGAAGAAGATG
1 TGAAG---ATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATG
1092753 TTCGAGT
63 TTCGAGT
1092760 CTTATACTCT
Statistics
Matches: 950, Mismatches: 129, Indels: 93
0.81 0.11 0.08
Matches are distributed among these distances:
98 1 0.00
99 20 0.02
100 21 0.02
101 25 0.03
102 61 0.06
103 5 0.01
104 72 0.08
105 268 0.28
106 107 0.11
107 139 0.15
108 127 0.13
109 97 0.10
110 7 0.01
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (105 bp):
TGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTC
GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTT
Found at i:1092644 original size:579 final size:584
Alignment explanation
Indices: 1091529--1092751 Score: 1954
Period size: 579 Copynumber: 2.1 Consensus size: 584
1091519 TGAAGCAAGT
* * **
1091529 GAAGATGTTCGAGTTCTATATTCCCTAGAGAAAGAGGGAGCGAACCCATTTGAAGAAGATATATG
1 GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATACA
* * *
1091594 AGTTCCATACTCCATAAGGAAAGAATGAGGGAACCCGTTTAAAGAGATGTTCGAGTTCTATACTC
66 AGTTCCATACTCCATAAGGAAAGAAGGAGCGAACCCATTTAAAGAGATGTTCGAGTTCTATACTC
* *
1091659 CCTAGAGAAAGAGAATGTGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCTTAAAGAAAGAGG
131 CCTAGAGAAAGAGAATGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCCTAAAGAAAGAGG
* *
1091724 TAGCGAAACCGTTTGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCAAACCCGTTT
196 GAGCGAAACCGTTTGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCAAACCCATTT
* *
1091789 GAAGAAGATATTCGAGTTCCATACTCCCTAAAGAAAGAGTGAGCGAACCCATTTGAAGAAGATAT
261 AAAGAAGATATTCGAGTTCCATACTCCCTAAAGAAAGAGTAAGCGAACCCATTTGAAGAAGATAT
* * * * *
1091854 CCGAGTTCCATACACCTTAAGGAAAGAAAGAGCGAACCCGTTTGAAGAGATGTTCGAGTTCCATG
326 CCAAGTTCCATACACCCTAAAGAAAGAAAGAACGAACCCGTTTGAAGAGATGTTCGAGTTCCATA
*
1091919 CTCCATAAATAAAGAGATAGCGAACCCGTAAGAAGAAGATGTTCAAGTTCTATACTCCCTAGAGA
391 CTCCATAAATAAAGAGAGAGCGAACCCGTAAGAAGAAGATGTTCAAGTTCTATACTCCCTAGAGA
* *
1091984 AAGAGGGGGCGAACCCGTTGGAAGATGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAACGAAC
456 AAGAGCGGGCGAACCCATTGGAAGATGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAACGAAC
* *
1092049 CCATTTGCAAAGGATTATTCAAGTTCTATACTTCTTGAAGAAAGAGGGAGCGAACCCGTTTGAA
521 CCATTTACAAAGGATTATTCAAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
* * * *
1092113 GAAGATATTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATCCA
1 GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATACA
* *
1092178 AGTTCCATACTCCTTAAGGAAAGAAGGAGCGAACCCATTTGAAGAGATGTTCGAGTTCTATACT-
66 AGTTCCATACTCCATAAGGAAAGAAGGAGCGAACCCATTTAAAGAGATGTTCGAGTTCTATACTC
*
1092242 CCTAGAGAAAGAGGGA-GCGAA-CCGTTTGAAGATGTTCGAGTTCCATACTCCCT-AAGAAAGAG
131 CCTAGAGAAAGA-GAATGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCCTAAAGAAAGAG
* *
1092304 GGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCATT
195 GGAGCGAAACCGTTTGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCAAACCCATT
* * *
1092369 TAAAGAAGATATTCGAGTTCCATACTCCCTAGAGAAAGAGTAAGTGAACCCGTTTGAAGAAGATA
260 TAAAGAAGATATTCGAGTTCCATACTCCCTAAAGAAAGAGTAAGCGAACCCATTTGAAGAAGATA
* * ** *
1092434 TTCAAGTTCCATACTCCCTAAAGAAAGAGGGAACGAACCCG-TTGGA-AGATGTTCGAGTTCCAT
325 TCCAAGTTCCATACACCCTAAAGAAAGAAAGAACGAACCCGTTTGAAGAGATGTTCGAGTTCCAT
* * *
1092497 ACTCCATAGATAAAGAGGGAGCGAACCCGTAAGAAGAAGATGTTCAAGTTTTATACTCCCTAGAG
390 ACTCCATAAATAAAGAGAGAGCGAACCCGTAAGAAGAAGATGTTCAAGTTCTATACTCCCTAGAG
1092562 AAAGAGCGGGCGAACCCATTGGAAGATGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAACGAA
455 AAAGAGCGGGCGAACCCATTGGAAGATGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAACGAA
*
1092627 CCCATTTACAGAGGATTATTCAAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
520 CCCATTTACAAAGGATTATTCAAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
* * * * *
1092692 GAATATGTCCGAGTTATATACTCCCTAGAGAAAGAGGGAACGAACTCGTTTGAAGAAGAT
1 GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGAT
1092752 GTTCGAGTCT
Statistics
Matches: 586, Mismatches: 52, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
579 254 0.43
580 4 0.01
581 163 0.28
582 31 0.05
583 16 0.03
584 118 0.20
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (584 bp):
GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATACA
AGTTCCATACTCCATAAGGAAAGAAGGAGCGAACCCATTTAAAGAGATGTTCGAGTTCTATACTC
CCTAGAGAAAGAGAATGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCCTAAAGAAAGAGG
GAGCGAAACCGTTTGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCAAACCCATTT
AAAGAAGATATTCGAGTTCCATACTCCCTAAAGAAAGAGTAAGCGAACCCATTTGAAGAAGATAT
CCAAGTTCCATACACCCTAAAGAAAGAAAGAACGAACCCGTTTGAAGAGATGTTCGAGTTCCATA
CTCCATAAATAAAGAGAGAGCGAACCCGTAAGAAGAAGATGTTCAAGTTCTATACTCCCTAGAGA
AAGAGCGGGCGAACCCATTGGAAGATGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAACGAAC
CCATTTACAAAGGATTATTCAAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
Found at i:1092768 original size:54 final size:54
Alignment explanation
Indices: 1091529--1092759 Score: 1285
Period size: 54 Copynumber: 23.3 Consensus size: 54
1091519 TGAAGCAAGT
* * *
1091529 GAAGATGTTCGAGTTCTATATTCCCTAGAGAAAGAGGGAGCGAACCCATTTGAA
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA
* * ** * *
1091583 GAAGATATAT-GAGTTCCATACTCCATA-AGGAAAGAATGAGGGAACCCGTTTAAA
1 GAAGATGT-TCGAGTTCCATACTCCCTAGA-GAAAGAGGGAGCGAACCCGTTTGAA
* * *
1091637 G-AGATGTTCGAGTTCTATACTCCCTAGAGAAAGA-GAATGTGAACCCGTTT---
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGA-GCGAACCCGTTTGAA
* * * *
1091687 GAAGATGTTCGAGTTCCATACTCCTTAAAGAAAGAGGTAGCGAAACCGTTT---
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA
* *
1091738 GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCAAACCCGTTTGAA
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA
* * * *
1091792 GAAGATATTCGAGTTCCATACTCCCTAAAGAAAGAGTGAGCGAACCCATTTGAA
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA
* * * * **
1091846 GAAGATATCCGAGTTCCATACACCTTA-AGGAAAGAAAGAGCGAACCCGTTTGAA
1 GAAGATGTTCGAGTTCCATACTCCCTAGA-GAAAGAGGGAGCGAACCCGTTTGAA
* * * * ** **
1091900 G-AGATGTTCGAGTTCCATGCTCCATAAATAAAGAGATAGCGAACCCGTAAGAA
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA
* * *
1091953 GAAGATGTTCAAGTTCTATACTCCCTAGAGAAAGAGGGGGCGAACCCG-TTG--
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA
* * *
1092004 GAAGATGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAACGAACCCATTTGCAA
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTG-AA
* * * * * *
1092059 -AGGATTATTCAAGTTCTATACT-TCTTGAAGAAAGAGGGAGCGAACCCGTTTGAA
1 GAAGA-TGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAA
* *
1092113 GAAGATATTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAA
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA
* * * * * *
1092167 GAAGATATCCAAGTTCCATACTCCTTA-AGGAAAGAAGGAGCGAACCCATTTGAA
1 GAAGATGTTCGAGTTCCATACTCCCTAGA-GAAAGAGGGAGCGAACCCGTTTGAA
*
1092221 G-AGATGTTCGAGTTCTATACT-CCTAGAGAAAGAGGGAGCGAA-CCGTTT---
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA
1092269 GAAGATGTTCGAGTTCCATACTCCCTA-AGAAAGAGGGAGCGAACCCGTTT---
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA
* * *
1092319 GAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCATTTAAA
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA
* ** *
1092373 GAAGATATTCGAGTTCCATACTCCCTAGAGAAAGAGTAAGTGAACCCGTTTGAA
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA
* * * *
1092427 GAAGATATTCAAGTTCCATACTCCCTAAAGAAAGAGGGAACGAACCCG-TTG--
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA
* * **
1092478 GAAGATGTTCGAGTTCCATACTCCATAGATAAAGAGGGAGCGAACCCGTAAGAA
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA
* ** *
1092532 GAAGATGTTCAAGTTTTATACTCCCTAGAGAAAGAGCGG-GCGAACCC-ATTG--
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAG-GGAGCGAACCCGTTTGAA
* * *
1092583 GAAGATGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAACGAACCCATTT-ACA
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGA-A
* * * * *
1092637 GAGGATTATTCAAGTTCTATACTTCCT-GAAGAAAGAGGGAGCGAACCCGTTTGAA
1 GAAGA-TGTTCGAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAA
* * ** * *
1092692 GAATATGTCCGAGTTATATACTCCCTAGAGAAAGAGGGAACGAACTCGTTTGAA
1 GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA
1092746 GAAGATGTTCGAGT
1 GAAGATGTTCGAGT
1092760 CTTATACTCT
Statistics
Matches: 984, Mismatches: 150, Indels: 86
0.81 0.12 0.07
Matches are distributed among these distances:
48 1 0.00
49 35 0.04
50 39 0.04
51 235 0.24
52 27 0.03
53 103 0.10
54 456 0.46
55 87 0.09
56 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (54 bp):
GAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAA
Found at i:1092886 original size:109 final size:109
Alignment explanation
Indices: 1092746--1093114 Score: 530
Period size: 109 Copynumber: 3.4 Consensus size: 109
1092736 CTCGTTTGAA
* * *
1092746 GAAGA-TGTTCGAGTCTTATACTCTCTGAAGAAATAAGGAGCAAACACGATTGTTAAGATTGTTT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACACGATTGTTAAGATTGTTC
*
1092810 GAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACACAATTGTT
66 GAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACACGATTGTT
* * **
1092854 GAAAATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCATACACGATTGTTATTATTGTTC
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACACGATTGTTAAGATTGTTC
* *
1092919 GAGTCTCATACTCTCTGAAAAAATAGGGAGCAGACACGATTGTT
66 GAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACACGATTGTT
**
1092963 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGCCACGATTGTTGAAGATTGTT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACACGATTGTT-AAGATTGTT
* *
1093028 CGAGTCTCATACTCTCTGAAGAAATAGAGAGCATAA-ACGATTATT
65 CGAGTCTCATACTCTCTGAAGAAATAGGGAGCA-AACACGATTGTT
*
1093073 GAAGATTATTCGAGT-TCTATACTAC-CTGAAAGAAATAGGGAG
1 GAAGATTGTTCGAGTCTC-ATACT-CTCTG-AAGAAATAGGGAG
1093115 TGAACCCGTT
Statistics
Matches: 235, Mismatches: 20, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
108 4 0.02
109 148 0.63
110 68 0.29
111 15 0.06
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (109 bp):
GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACACGATTGTTAAGATTGTTC
GAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACACGATTGTT
Found at i:1092887 original size:55 final size:55
Alignment explanation
Indices: 1092746--1093114 Score: 525
Period size: 55 Copynumber: 6.7 Consensus size: 55
1092736 CTCGTTTGAA
* *
1092746 GAAGA-TGTTCGAGTCTTATACTCTCTGAAGAAATAAGGAGCAAACACGATTGTT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACACGATTGTT
* *
1092800 -AAGATTGTTTGAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACACAATTGTT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACACGATTGTT
* *
1092854 GAAAATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCATACACGATTGTT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACACGATTGTT
** * *
1092909 -ATTATTGTTCGAGTCTCATACTCTCTGAAAAAATAGGGAGCAGACACGATTGTT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACACGATTGTT
**
1092963 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGCCACGATTGTT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACACGATTGTT
* *
1093018 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGAGAGCATAA-ACGATTATT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCA-AACACGATTGTT
*
1093073 GAAGATTATTCGAGT-TCTATACTAC-CTGAAAGAAATAGGGAG
1 GAAGATTGTTCGAGTCTC-ATACT-CTCTG-AAGAAATAGGGAG
1093115 TGAACCCGTT
Statistics
Matches: 286, Mismatches: 22, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
53 4 0.01
54 97 0.34
55 172 0.60
56 13 0.05
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (55 bp):
GAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACACGATTGTT
Found at i:1093028 original size:164 final size:164
Alignment explanation
Indices: 1092746--1093114 Score: 539
Period size: 164 Copynumber: 2.2 Consensus size: 164
1092736 CTCGTTTGAA
* * * *
1092746 GAAGA-TGTTCGAGTCTTATACTCTCTGAAGAAATAAGGAGCAAACACGATTGTTAAGATTGTTT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAAAAATAGGGAGCAAACACGATTGTTAAGATTGTTC
1092810 GAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACACAATTGTTGAAAATTGTTCGAGTCTCATA
66 GAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACACAATTGTTGAAAATTGTTCGAGTCTCATA
* * *
1092875 CTCTCTGAAGAAATAGGGAGCATACACGATTGTT
131 CTCTCTGAAGAAATAGAGAGCATAAACGATTATT
** *
1092909 -ATTATTGTTCGAGTCTCATACTCTCTGAAAAAATAGGGAGCAGACACGATTGTTGAAGATTGTT
1 GAAGATTGTTCGAGTCTCATACTCTCTGAAAAAATAGGGAGCAAACACGATTGTT-AAGATTGTT
** * *
1092973 CGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGCCACGATTGTTGAAGATTGTTCGAGTCTCAT
65 CGAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACACAATTGTTGAAAATTGTTCGAGTCTCAT
1093038 ACTCTCTGAAGAAATAGAGAGCATAAACGATTATT
130 ACTCTCTGAAGAAATAGAGAGCATAAACGATTATT
*
1093073 GAAGATTATTCGAGT-TCTATACTAC-CTGAAAGAAATAGGGAG
1 GAAGATTGTTCGAGTCTC-ATACT-CTCTGAAA-AAATAGGGAG
1093115 TGAACCCGTT
Statistics
Matches: 183, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
162 2 0.01
163 45 0.25
164 103 0.56
165 22 0.12
166 11 0.06
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (164 bp):
GAAGATTGTTCGAGTCTCATACTCTCTGAAAAAATAGGGAGCAAACACGATTGTTAAGATTGTTC
GAGTCTCATACTCTCTGAAGAAATAGGGAGCAAACACAATTGTTGAAAATTGTTCGAGTCTCATA
CTCTCTGAAGAAATAGAGAGCATAAACGATTATT
Found at i:1097916 original size:22 final size:22
Alignment explanation
Indices: 1097891--1097950 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 22
1097881 TCGATTCCCT
*
1097891 AAGGGGAATCGGTTCCCCTTCA
1 AAGGGGAATCGATTCCCCTTCA
*
1097913 AAGGGGGAATCGATTCCCTTTCA
1 AA-GGGGAATCGATTCCCCTTCA
* *
1097936 AGGGGGTATCGATTC
1 AAGGGGAATCGATTC
1097951 TCTCTGTCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 14 0.42
23 19 0.58
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (22 bp):
AAGGGGAATCGATTCCCCTTCA
Found at i:1097921 original size:23 final size:22
Alignment explanation
Indices: 1097874--1097950 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
1097864 CAGAACCCGT
*
1097874 GGGGGTATCGATT-CCC-T-AA
1 GGGGGAATCGATTCCCCTTCAA
*
1097893 -GGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGATTCCCCTTC-AA
*
1097915 GGGGGAATCGATTCCCTTTCAA
1 GGGGGAATCGATTCCCCTTCAA
*
1097937 GGGGGTATCGATTC
1 GGGGGAATCGATTC
1097951 TCTCTGTCCT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
18 10 0.21
19 3 0.06
20 1 0.02
22 17 0.35
23 17 0.35
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (22 bp):
GGGGGAATCGATTCCCCTTCAA
Found at i:1101562 original size:17 final size:16
Alignment explanation
Indices: 1101540--1101573 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1101530 TAAAAACAGT
1101540 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
1101557 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
1101573 A
1 A
1101574 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:1105412 original size:19 final size:19
Alignment explanation
Indices: 1105385--1105440 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
1105375 GAATGAAAGA
*
1105385 AAAAGAAAAGGTAAAAGTT
1 AAAATAAAAGGTAAAAGTT
*
1105404 AAAATAAAAGAG-AAAAATT
1 AAAATAAAAG-GTAAAAGTT
*
1105423 AATAATAAAAGATAAAAG
1 AA-AATAAAAGGTAAAAG
1105441 AAAAAGTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (19 bp):
AAAATAAAAGGTAAAAGTT
Found at i:1105420 original size:20 final size:20
Alignment explanation
Indices: 1105397--1105439 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1105387 AAGAAAAGGT
*
1105397 AAAAGTTAA-AATAAAAGAG
1 AAAAATTAATAATAAAAGAG
*
1105416 AAAAATTAATAATAAAAGAT
1 AAAAATTAATAATAAAAGAG
1105436 AAAA
1 AAAA
1105440 GAAAAAGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (20 bp):
AAAAATTAATAATAAAAGAG
Found at i:1106269 original size:18 final size:18
Alignment explanation
Indices: 1106246--1106291 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 18
1106236 CAAAGAGGAG
1106246 GATTCTGCCAAGGTACCA
1 GATTCTGCCAAGGTACCA
1106264 GATTCTGATGCCAAGGTACCA
1 GATTC---TGCCAAGGTACCA
1106285 GATTCTG
1 GATTCTG
1106292 ATGCCAAGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 7 0.28
21 18 0.72
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (18 bp):
GATTCTGCCAAGGTACCA
Found at i:1106277 original size:21 final size:21
Alignment explanation
Indices: 1106251--1106300 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
1106241 AGGAGGATTC
1106251 TGCCAAGGTACCAGATTCTGA
1 TGCCAAGGTACCAGATTCTGA
1106272 TGCCAAGGTACCAGATTCTGA
1 TGCCAAGGTACCAGATTCTGA
1106293 TGCCAAGG
1 TGCCAAGG
1106301 CAAAAGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (21 bp):
TGCCAAGGTACCAGATTCTGA
Found at i:1110400 original size:17 final size:16
Alignment explanation
Indices: 1110378--1110411 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1110368 TAAAAACAGT
1110378 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
1110395 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
1110411 A
1 A
1110412 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:1119255 original size:60 final size:60
Alignment explanation
Indices: 1119122--1119255 Score: 146
Period size: 60 Copynumber: 2.2 Consensus size: 60
1119112 GTCGGGTGAA
* * *
1119122 CATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGCAATACCCTATAGTCGAAGGAT
1 CATTTTGTAACTTTTAATAGTCAAAGGACTCAACAAAGCAATACCCTATAGTCGAAGGAC
* * * * * * *
1119182 TATTTTATAACTTTTAATAGTCAAATGACTCAATAAAGTAGTACCCTATAGT-TAAGGGAC
1 CATTTTGTAACTTTTAATAGTCAAAGGACTCAACAAAGCAATACCCTATAGTCGAA-GGAC
1119242 CATTTGTGT-ACTTT
1 CATTT-TGTAACTTT
1119256 ATCCCAAAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
59 2 0.03
60 56 0.93
61 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (60 bp):
CATTTTGTAACTTTTAATAGTCAAAGGACTCAACAAAGCAATACCCTATAGTCGAAGGAC
Found at i:1126946 original size:89 final size:91
Alignment explanation
Indices: 1126780--1126976 Score: 319
Period size: 89 Copynumber: 2.2 Consensus size: 91
1126770 TGATCCAGCT
*
1126780 GGTAAGTCCTTACGGACCTAAGGATACCCTTGGGTAGGCCCATAGGCCCCAAGGCATATCCTTAG
1 GGTAAG-CCTTACGGACCTAAGGATACCCTTGGGTAGGCCCATAGGCCCCAAGGAATATCCTTAG
1126845 GTTGGTTACC-TTTGTTGTGTGCTTAG
65 GTTGGTTACCTTTTGTTGTGTGCTTAG
*
1126871 GGTAA-CCTTACGGACCTAAGGATATCCTTGGGTAGGCCCATAGGCCCCAAGGAATATCCTTAGG
1 GGTAAGCCTTACGGACCTAAGGATACCCTTGGGTAGGCCCATAGGCCCCAAGGAATATCCTTAGG
*
1126935 TT-GTCTCCCTTTTGTTGTGTGCTTAG
66 TTGGT-TACCTTTTGTTGTGTGCTTAG
*
1126961 GGTAAGCCCTACGGAC
1 GGTAAGCCTTACGGAC
1126977 GCAGTTCTAG
Statistics
Matches: 99, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
88 2 0.02
89 62 0.63
90 21 0.21
91 14 0.14
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (91 bp):
GGTAAGCCTTACGGACCTAAGGATACCCTTGGGTAGGCCCATAGGCCCCAAGGAATATCCTTAGG
TTGGTTACCTTTTGTTGTGTGCTTAG
Found at i:1136570 original size:9 final size:9
Alignment explanation
Indices: 1136556--1136593 Score: 60
Period size: 9 Copynumber: 4.2 Consensus size: 9
1136546 GATTTCGTTA
1136556 TCCTCCATC
1 TCCTCCATC
1136565 TCCTCCAT-
1 TCCTCCATC
1136573 TCTCTCCATC
1 TC-CTCCATC
1136583 TCCTCCATC
1 TCCTCCATC
1136592 TC
1 TC
1136594 TTTAACAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.07
9 23 0.85
10 2 0.07
ACGTcount: A:0.11, C:0.53, G:0.00, T:0.37
Consensus pattern (9 bp):
TCCTCCATC
Found at i:1137481 original size:136 final size:137
Alignment explanation
Indices: 1137289--1137543 Score: 363
Period size: 136 Copynumber: 1.9 Consensus size: 137
1137279 CAGCCATGAA
* *
1137289 AAAAGAGTACATAGCTAAAATAACAATGGAAAAAGGGTAAGAAGTTGGAGTAAGCATTATACTGG
1 AAAAGAGTACAAAGCTAAAATAACAATGGAAAAAGAGT-A-AAGTTGGAGTAAGCATTATACTGG
* * * * *
1137354 TTAAAGGCAATAAATGTCGTACCTTTTCTCTTACG-GTCTCAGTGCAAACCCCCTTGTCTTCTGG
64 TTAAAGACAACAAATCTCATACCTTATCTCTTA-GTGTCTCAGTGCAAACCCCCTTGTCTTCTGG
1137418 TGACTTGTTT
128 TGACTTGTTT
* *
1137428 AAAAGAGTACAAAGTTAAAATAACAAT-GAAAGAAGAGT-AAGTTGGAGTAAGCATTATACTTGT
1 AAAAGAGTACAAAGCTAAAATAACAATGGAAA-AAGAGTAAAGTTGGAGTAAGCATTATACTGGT
*
1137491 TAAAGACAACAAATCTCATACCTTATCTCTTAGTGTCTCTGTGCAAACCCCCT
65 TAAAGACAACAAATCTCATACCTTATCTCTTAGTGTCTCAGTGCAAACCCCCT
1137544 GAAACTTGTG
Statistics
Matches: 104, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
135 1 0.01
136 69 0.66
138 4 0.04
139 30 0.29
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (137 bp):
AAAAGAGTACAAAGCTAAAATAACAATGGAAAAAGAGTAAAGTTGGAGTAAGCATTATACTGGTT
AAAGACAACAAATCTCATACCTTATCTCTTAGTGTCTCAGTGCAAACCCCCTTGTCTTCTGGTGA
CTTGTTT
Found at i:1138142 original size:43 final size:42
Alignment explanation
Indices: 1138093--1138227 Score: 164
Period size: 43 Copynumber: 3.2 Consensus size: 42
1138083 TTATAATATA
* *
1138093 TTTAGTGGCATTTCTGGCTACAAACGCCGCTAATTCTCTTGTC
1 TTTAGTGGCATTT-TGGCCACAAACGCCGCTAATTATCTTGTC
* * *
1138136 TGTAGTGGCATTTTTAGCCACAAACGCCGTTAATTATCTTGTC
1 TTTAGTGGCA-TTTTGGCCACAAACGCCGCTAATTATCTTGTC
* **
1138179 TTTAGTGGCCTTTTGGCCACAAATC-CTACTAATTATCTTGTC
1 TTTAGTGGCATTTTGGCCACAAA-CGCCGCTAATTATCTTGTC
1138221 TTTAGTG
1 TTTAGTG
1138228 TCTCCAAGTG
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.42
43 43 0.54
44 3 0.04
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (42 bp):
TTTAGTGGCATTTTGGCCACAAACGCCGCTAATTATCTTGTC
Found at i:1139759 original size:22 final size:21
Alignment explanation
Indices: 1139723--1139770 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
1139713 ATACCAAATC
* * *
1139723 AAGAATCTAAAACAAGAATAT
1 AAGAATCAAAAACAACAATAG
1139744 AAGAACTCAAAAACAACAATAG
1 AAGAA-TCAAAAACAACAATAG
1139766 AAGAA
1 AAGAA
1139771 GTTGGAGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.65, C:0.12, G:0.10, T:0.12
Consensus pattern (21 bp):
AAGAATCAAAAACAACAATAG
Found at i:1141840 original size:33 final size:33
Alignment explanation
Indices: 1141798--1141860 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
1141788 ACGAAAGAAA
* *
1141798 ATAAACGAACATAATAAATAAACATAAACGGAC
1 ATAAACGAACACAACAAATAAACATAAACGGAC
*
1141831 ATAAACGAACACAACAAATGAACATAAACG
1 ATAAACGAACACAACAAATAAACATAAACG
1141861 AACACCACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.60, C:0.17, G:0.10, T:0.13
Consensus pattern (33 bp):
ATAAACGAACACAACAAATAAACATAAACGGAC
Found at i:1146769 original size:13 final size:13
Alignment explanation
Indices: 1146751--1146776 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1146741 TCTCTCTCTC
1146751 TATATATATATAT
1 TATATATATATAT
1146764 TATATATATATAT
1 TATATATATATAT
1146777 AATTCTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATATATAT
Found at i:1153390 original size:178 final size:183
Alignment explanation
Indices: 1153079--1153410 Score: 586
Period size: 178 Copynumber: 1.8 Consensus size: 183
1153069 CAATGTGAGC
1153079 ATTTTGCCATTATTGAACTAAATGAATTATTTAAAATGATTTCTTTTTCTTTGTTAAGAATTCAA
1 ATTTTGCCATTATTGAACTAAATGAATTATTTAAAATGA-TTCTTTTTCTTTGTTAAGAATTCAA
1153144 GCTTAATTTTAAATCAAAATTTTCTTTTTCAAAACTTTCAATTTTTATTTTTGAAAGCTCTAATC
65 GCTTAATTTTAAATCAAAATTTTCTTTTTCAAAACTTTCAATTTTTATTTTTGAAAGCTCTAATC
1153209 CTTTTTAAATTTCATTTTGGCTTTAAATCAATTGTTTTAAAGAAATGGATTTTA
130 CTTTTTAAATTTCATTTTGGCTTTAAATCAATTGTTTTAAAGAAATGGATTTTA
**
1153263 ATTTTG-CATTATTGAACTAAATGAATTATTTAAAA-GA-TCTTTTTC-TTGTTAA-AATTTGAG
1 ATTTTGCCATTATTGAACTAAATGAATTATTTAAAATGATTCTTTTTCTTTGTTAAGAATTCAAG
1153323 -TTAATTTTTAAATCAAAATTTTCTTTTTCAAAACTTTCAATTTTTATTTTTGAAAGCTCTAATC
66 CTTAA-TTTTAAATCAAAATTTTCTTTTTCAAAACTTTCAATTTTTATTTTTGAAAGCTCTAATC
1153387 CTTTTTAAATTTCATTTTGGCTTT
130 CTTTTTAAATTTCATTTTGGCTTT
1153411 CAAAATCTAA
Statistics
Matches: 145, Mismatches: 2, Indels: 8
0.94 0.01 0.05
Matches are distributed among these distances:
177 4 0.03
178 89 0.61
179 7 0.05
180 8 0.06
182 2 0.01
183 29 0.20
184 6 0.04
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.50
Consensus pattern (183 bp):
ATTTTGCCATTATTGAACTAAATGAATTATTTAAAATGATTCTTTTTCTTTGTTAAGAATTCAAG
CTTAATTTTAAATCAAAATTTTCTTTTTCAAAACTTTCAATTTTTATTTTTGAAAGCTCTAATCC
TTTTTAAATTTCATTTTGGCTTTAAATCAATTGTTTTAAAGAAATGGATTTTA
Found at i:1154662 original size:21 final size:21
Alignment explanation
Indices: 1154637--1154678 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1154627 CCCGTACAGG
1154637 GGGTATCGGTAC-CTCTTCATA
1 GGGTATCGGTACTC-CTTCATA
1154658 GGGTATCGGTACTCCTTCATA
1 GGGTATCGGTACTCCTTCATA
1154679 AAATTCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (21 bp):
GGGTATCGGTACTCCTTCATA
Found at i:1154748 original size:15 final size:16
Alignment explanation
Indices: 1154710--1154774 Score: 78
Period size: 17 Copynumber: 4.0 Consensus size: 16
1154700 TTGCAGCCAG
* *
1154710 GGGGTATAGATACACTT
1 GGGGTATCGATAC-CAT
1154727 GGGGTATCGATACCAT
1 GGGGTATCGATACCAT
1154743 -GGGTATCGATACCAT
1 GGGGTATCGATACCAT
*
1154758 GGGGGTATAGATACCAT
1 -GGGGTATCGATACCAT
1154775 CCGAGCAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
15 15 0.35
16 2 0.05
17 26 0.60
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (16 bp):
GGGGTATCGATACCAT
Found at i:1154754 original size:32 final size:32
Alignment explanation
Indices: 1154711--1154774 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
1154701 TGCAGCCAGG
* *
1154711 GGGTATAGATA-CACTTGGGGTATCGATACCAT
1 GGGTATAGATACCA-TGGGGGTATAGATACCAT
*
1154743 GGGTATCGATACCATGGGGGTATAGATACCAT
1 GGGTATAGATACCATGGGGGTATAGATACCAT
1154775 CCGAGCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 26 0.93
33 2 0.07
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.27
Consensus pattern (32 bp):
GGGTATAGATACCATGGGGGTATAGATACCAT
Found at i:1154910 original size:29 final size:30
Alignment explanation
Indices: 1154878--1154946 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
1154868 GAAACCTTCT
1154878 AAAAC-TTTGAATAAATTCAATT-AAGTCCA
1 AAAACATTT-AATAAATTCAATTCAAGTCCA
**
1154907 AAAACATTTTTTAAATTCAATTCAAGTCCA
1 AAAACATTTAATAAATTCAATTCAAGTCCA
1154937 AAAACCATTT
1 AAAA-CATTT
1154947 TGCCTTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 16 0.46
30 14 0.40
31 5 0.14
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.33
Consensus pattern (30 bp):
AAAACATTTAATAAATTCAATTCAAGTCCA
Found at i:1154936 original size:30 final size:30
Alignment explanation
Indices: 1154889--1154947 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
1154879 AAACTTTGAA
1154889 TAAATTCAATTAAGTCCAAAAA-CATTTTT
1 TAAATTCAATTAAGTCCAAAAACCATTTTT
1154918 TAAATTCAATTCAAGTCCAAAAACCATTTT
1 TAAATTCAATT-AAGTCCAAAAACCATTTT
1154948 GCCTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.36
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTT
Found at i:1154947 original size:29 final size:28
Alignment explanation
Indices: 1154889--1154947 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 28
1154879 AAACTTTGAA
1154889 TAAATTCAATTAAGTCCAAAAACATTTTT
1 TAAATTCAATTAAGTCCAAAAACA-TTTT
1154918 TAAATTCAATTCAAGTCCAAAAACCATTTT
1 TAAATTCAATT-AAGTCCAAAAA-CATTTT
1154948 GCCTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.39
30 15 0.54
31 2 0.07
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.36
Consensus pattern (28 bp):
TAAATTCAATTAAGTCCAAAAACATTTT
Found at i:1164140 original size:123 final size:123
Alignment explanation
Indices: 1163921--1164169 Score: 498
Period size: 123 Copynumber: 2.0 Consensus size: 123
1163911 TTTTAGGCAT
1163921 TTTAGGATCATGTAGTGACAGTTGCATTTGTGGTGGTAGTGCTATTTTATTTCTTAATAGTGCTG
1 TTTAGGATCATGTAGTGACAGTTGCATTTGTGGTGGTAGTGCTATTTTATTTCTTAATAGTGCTG
1163986 CTTGAGGGAAAGGTGCAGTTTGTCTGTGGTGTGCATGGAATAGCTAGCAAAATGACTC
66 CTTGAGGGAAAGGTGCAGTTTGTCTGTGGTGTGCATGGAATAGCTAGCAAAATGACTC
1164044 TTTAGGATCATGTAGTGACAGTTGCATTTGTGGTGGTAGTGCTATTTTATTTCTTAATAGTGCTG
1 TTTAGGATCATGTAGTGACAGTTGCATTTGTGGTGGTAGTGCTATTTTATTTCTTAATAGTGCTG
1164109 CTTGAGGGAAAGGTGCAGTTTGTCTGTGGTGTGCATGGAATAGCTAGCAAAATGACTC
66 CTTGAGGGAAAGGTGCAGTTTGTCTGTGGTGTGCATGGAATAGCTAGCAAAATGACTC
1164167 TTT
1 TTT
1164170 GGGAAGTAAT
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 126 1.00
ACGTcount: A:0.22, C:0.11, G:0.29, T:0.37
Consensus pattern (123 bp):
TTTAGGATCATGTAGTGACAGTTGCATTTGTGGTGGTAGTGCTATTTTATTTCTTAATAGTGCTG
CTTGAGGGAAAGGTGCAGTTTGTCTGTGGTGTGCATGGAATAGCTAGCAAAATGACTC
Found at i:1164406 original size:10 final size:10
Alignment explanation
Indices: 1164391--1164419 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
1164381 GGGTATTTTG
1164391 CACCCAACAT
1 CACCCAACAT
1164401 CACCCAACAT
1 CACCCAACAT
1164411 CACCCAACA
1 CACCCAACA
1164420 ACCTCATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.52, G:0.00, T:0.07
Consensus pattern (10 bp):
CACCCAACAT
Found at i:1164808 original size:23 final size:23
Alignment explanation
Indices: 1164778--1164826 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
1164768 TGGTGGTTGG
*
1164778 TTTAATGG-ATGTTTAAACTTTAT
1 TTTAATGGTATATTT-AACTTTAT
*
1164801 TTTAATGGTATATTTAAGTTTAT
1 TTTAATGGTATATTTAACTTTAT
1164824 TTT
1 TTT
1164827 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (23 bp):
TTTAATGGTATATTTAACTTTAT
Found at i:1165326 original size:16 final size:16
Alignment explanation
Indices: 1165302--1165343 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
1165292 CACGTGAGGA
1165302 TTATCTTTTT-TTTATT
1 TTAT-TTTTTATTTATT
1165318 TTATTTTTTATTTATT
1 TTATTTTTTATTTATT
*
1165334 TTCTTTTTTA
1 TTATTTTTTA
1165344 CCACTTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (16 bp):
TTATTTTTTATTTATT
Found at i:1171661 original size:26 final size:26
Alignment explanation
Indices: 1171632--1171683 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
1171622 TTCATCCTTA
*
1171632 ACTTTTCTATTTCATTT-TTCACTTTT
1 ACTTTTCTATCTCATTTCTTCA-TTTT
*
1171658 ACTTTTCTCTCTCATTTCTTCATTTT
1 ACTTTTCTATCTCATTTCTTCATTTT
1171684 CTTCCTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.13, C:0.23, G:0.00, T:0.63
Consensus pattern (26 bp):
ACTTTTCTATCTCATTTCTTCATTTT
Found at i:1174796 original size:23 final size:23
Alignment explanation
Indices: 1174766--1174814 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
1174756 TGGTGGTTAG
*
1174766 TTTAATGG-ATGTTTAAACTTTAT
1 TTTAATGGTATATTT-AACTTTAT
*
1174789 TTTAATGGTATATTTAAGTTTAT
1 TTTAATGGTATATTTAACTTTAT
1174812 TTT
1 TTT
1174815 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (23 bp):
TTTAATGGTATATTTAACTTTAT
Found at i:1180252 original size:23 final size:23
Alignment explanation
Indices: 1180226--1180271 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1180216 CACCACAGCT
*
1180226 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
1180249 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
1180272 TATAATAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:1180488 original size:149 final size:149
Alignment explanation
Indices: 1180251--1180552 Score: 559
Period size: 149 Copynumber: 2.0 Consensus size: 149
1180241 AAGTGCCACG
1180251 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAATCA
* *
1180316 TATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCACAGAATATATA
66 TATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATACA
1180381 TATATCCCGAAGGACCGCA
131 TATATCCCGAAGGACCGCA
*
1180400 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCTTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAATCA
1180465 TATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATACA
66 TATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATACA
* *
1180530 TATGTCCCGAAGGACCGCG
131 TATATCCCGAAGGACCGCA
1180549 TAGA
1 TAGA
1180553 CCCTCGACTC
Statistics
Matches: 148, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 148 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (149 bp):
TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAATCA
TATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATATACA
TATATCCCGAAGGACCGCA
Found at i:1182018 original size:21 final size:21
Alignment explanation
Indices: 1181994--1182038 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
1181984 TTTTGTTCGT
*
1181994 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
1182015 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
1182036 TTG
1 TTG
1182039 CCCAGAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:1184946 original size:23 final size:23
Alignment explanation
Indices: 1184920--1184963 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1184910 CACCACAGCT
*
1184920 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
1184943 CGTAGAATTGCACCGTAGTGC
1 CGTAGAATTGCACCGAAGTGC
1184964 ATATAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:1185183 original size:137 final size:142
Alignment explanation
Indices: 1184932--1185232 Score: 454
Period size: 139 Copynumber: 2.1 Consensus size: 142
1184922 TATAATTGCA
1184932 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCATATAATAATGTCCATAAGGACCACATATTAT
1 CCGAAG-GACCGCGTAGAATTGCACCGTAG-G-ATATAATAA-GTCCATAAGGACCACA-ATTAT
1184996 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTCAAGACTT-CACATGTTCCA
61 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTCAAGACTTACACATGTTCCA
* *
1185060 CAGAATATATATATATC
126 AAGAATATACATATATC
1185077 CCGAAGGACCGCGTAGAATTGCACCGTA-G-TATAATAA-TCCATAAGGACCAC-ATTATTCCTT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGGATATAATAAGTCCATAAGGACCACAATTATTCCTT
1185138 AAGAATCATATACATA-ACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAG
66 AAGAATCATATACATATACTAGGGATCAAGTATGTGTC-TTCAAGACTT-ACACATGTTCCAAAG
*
1185202 AATATACATATGTC
129 AATATACATATATC
*
1185216 CCGAAGGACCGTGTAGA
1 CCGAAGGACCGCGTAGA
1185233 CCCTCGACTT
Statistics
Matches: 148, Mismatches: 4, Indels: 14
0.89 0.02 0.08
Matches are distributed among these distances:
136 21 0.14
137 36 0.24
139 55 0.37
141 8 0.05
143 1 0.01
144 1 0.01
145 26 0.18
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (142 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGGATATAATAAGTCCATAAGGACCACAATTATTCCTT
AAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTCAAGACTTACACATGTTCCAAAGAA
TATACATATATC
Found at i:1186682 original size:21 final size:21
Alignment explanation
Indices: 1186658--1186702 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
1186648 TTTTGTTCGT
*
1186658 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
1186679 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
1186700 TTG
1 TTG
1186703 CCCAGAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:1192481 original size:334 final size:332
Alignment explanation
Indices: 1192029--1192708 Score: 1109
Period size: 333 Copynumber: 2.0 Consensus size: 332
1192019 AACTCGATAA
1192029 ATTTTTATTTTTACATGAAATTACACAATACGTATAATCTAGTATAGAAAACTTTAAGAGTAAGT
1 ATTTTTATTTTTACATGAAATTACACAATACGTATAATCTAGTATAGAAAACTTTAAGAGTAAGT
* *
1192094 ATTTTAAAATATGAATAGTTTTATAAAAGTTTTATAACTAATATTTCTTTTACAAAATGTTGATG
66 ATTTTAAAATATGAATAATTTTATAAAAGTTTTATAAATAATATTTCTTTTAC-AAA-----ATG
1192159 ATGATGATGATAAATATTTTATAATTTAAAAAATTATAAATTTCATATA-TTTTG-AAAATTTAT
125 ATGATGATGATAAATATTTTATAATTTAAAAAATTATAAATTTCATATATTTTTGAAAAATTTAT
*
1192222 TGACTTTTAAAATTAATTGTTTAAAAATAT-AAAAATATCAAAATAAA-TTTTAATTACAATTGA
190 TGACTTTTAAAATTAATTGTTTAAAAATATAAAAAATATCAAAATAAACTTTTAATTACAACTGA
1192285 GGAAACAAATGAATTATTATTCATTAATTATTATTTTTTAACAACAGTTGATAATGTTTATTCAT
255 GGAAACAAATGAATTATTATTCATTAATTATTATTTTTTAACAACAGTTGATAATGTTTATTCAT
1192350 TTTTAATAAAATT
320 TTTTAATAAAATT
* * * *
1192363 ATTTTGATTTTTGCATGAAATTACACAATATGTATAATCTAGTATAGAAAAACTTTGAGAGTAAG
1 ATTTTTATTTTTACATGAAATTACACAATACGTATAATCTAGTATAG-AAAACTTTAAGAGTAAG
*
1192428 TATTTTAAAATATGAATAATTTTATAAAAGTTTTATAAATAGTATTT-TTTTACAAAATGATGAT
65 TATTTTAAAATATGAATAATTTTATAAAAGTTTTATAAATAATATTTCTTTTACAAAATGATGAT
*
1192492 GATGATAAATATTTTATTATTTAAAAAATTATAAATTTCATATATTTTTGAAAAAATTTATTGAC
130 GATGATAAATATTTTATAATTTAAAAAATTATAAATTTCATATATTTTTG-AAAAATTTATTGAC
* * *
1192557 TTTTAAAATTAATTGTTTAGAAATATAAAAAATATTAAAATAAACTTTTAATTACAACTGAGGGA
194 TTTTAAAATTAATTGTTTAAAAATATAAAAAATATCAAAATAAACTTTTAATTACAACTGAGGAA
** * *
1192622 TTAAATGAATTATTATTCATTAATTATTATTTTTTAATAATAGTTGATAATGTTTATTCATTTTT
259 ACAAATGAATTATTATTCATTAATTATTATTTTTTAACAACAGTTGATAATGTTTATTCATTTTT
1192687 AATAAAATT
324 AATAAAATT
1192696 ATTTTTATTTTTA
1 ATTTTTATTTTTA
1192709 TTTTATATTT
Statistics
Matches: 322, Mismatches: 18, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
328 51 0.16
329 5 0.02
331 38 0.12
332 16 0.05
333 102 0.32
334 50 0.16
335 60 0.19
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.45
Consensus pattern (332 bp):
ATTTTTATTTTTACATGAAATTACACAATACGTATAATCTAGTATAGAAAACTTTAAGAGTAAGT
ATTTTAAAATATGAATAATTTTATAAAAGTTTTATAAATAATATTTCTTTTACAAAATGATGATG
ATGATAAATATTTTATAATTTAAAAAATTATAAATTTCATATATTTTTGAAAAATTTATTGACTT
TTAAAATTAATTGTTTAAAAATATAAAAAATATCAAAATAAACTTTTAATTACAACTGAGGAAAC
AAATGAATTATTATTCATTAATTATTATTTTTTAACAACAGTTGATAATGTTTATTCATTTTTAA
TAAAATT
Found at i:1192828 original size:11 final size:10
Alignment explanation
Indices: 1192783--1192839 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
1192773 TTGCATTCTT
1192783 TTTTTATTGA
1 TTTTTATTGA
* *
1192793 ATTTTATTCA
1 TTTTTATTGA
*
1192803 CTTTTAATT-A
1 -TTTTTATTGA
1192813 TTTTTTATTGTA
1 -TTTTTATTG-A
1192825 TTTTTATTGA
1 TTTTTATTGA
1192835 TTTTT
1 TTTTT
1192840 TAAAAAAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 22 0.58
11 15 0.39
12 1 0.03
ACGTcount: A:0.21, C:0.04, G:0.05, T:0.70
Consensus pattern (10 bp):
TTTTTATTGA
Found at i:1192840 original size:11 final size:11
Alignment explanation
Indices: 1192782--1192841 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 11
1192772 TTTGCATTCT
1192782 TTTTTTATTGA
1 TTTTTTATTGA
* *
1192793 -ATTTTATTCA
1 TTTTTTATTGA
* *
1192803 CTTTTAATT-A
1 TTTTTTATTGA
1192813 TTTTTTATTG-
1 TTTTTTATTGA
1192823 TATTTTTATTGA
1 T-TTTTTATTGA
1192835 TTTTTTA
1 TTTTTTA
1192842 AAAAAATGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
10 17 0.44
11 21 0.54
12 1 0.03
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (11 bp):
TTTTTTATTGA
Found at i:1193118 original size:11 final size:10
Alignment explanation
Indices: 1193073--1193129 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
1193063 TTGCATTCTT
1193073 TTTTTATTGA
1 TTTTTATTGA
* *
1193083 ATTTTATTCA
1 TTTTTATTGA
*
1193093 CTTTTAATT-A
1 -TTTTTATTGA
1193103 TTTTTTATTGTA
1 -TTTTTATTG-A
1193115 TTTTTATTGA
1 TTTTTATTGA
1193125 TTTTT
1 TTTTT
1193130 TAAAAAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 22 0.58
11 15 0.39
12 1 0.03
ACGTcount: A:0.21, C:0.04, G:0.05, T:0.70
Consensus pattern (10 bp):
TTTTTATTGA
Found at i:1193130 original size:11 final size:11
Alignment explanation
Indices: 1193072--1193131 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 11
1193062 TTTGCATTCT
1193072 TTTTTTATTGA
1 TTTTTTATTGA
* *
1193083 -ATTTTATTCA
1 TTTTTTATTGA
* *
1193093 CTTTTAATT-A
1 TTTTTTATTGA
1193103 TTTTTTATTG-
1 TTTTTTATTGA
1193113 TATTTTTATTGA
1 T-TTTTTATTGA
1193125 TTTTTTA
1 TTTTTTA
1193132 AAAAAAAATG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
10 17 0.44
11 21 0.54
12 1 0.03
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (11 bp):
TTTTTTATTGA
Found at i:1193204 original size:11 final size:10
Alignment explanation
Indices: 1193159--1193214 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
1193149 TTGCATTCTT
1193159 TTTTTATTGA
1 TTTTTATTGA
* *
1193169 ATTTTATTCA
1 TTTTTATTGA
*
1193179 CTTTTAATT-A
1 -TTTTTATTGA
1193189 TTTTTTATTGTA
1 -TTTTTATTG-A
1193201 TTTTTATTGA
1 TTTTTATTGA
1193211 TTTT
1 TTTT
1193215 AAAAATGAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 21 0.57
11 15 0.41
12 1 0.03
ACGTcount: A:0.21, C:0.04, G:0.05, T:0.70
Consensus pattern (10 bp):
TTTTTATTGA
Done.