Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 358 of 373
Found at i:118627255 original size:19 final size:19
Alignment explanation
Indices: 118627172--118627291 Score: 77
Period size: 19 Copynumber: 6.2 Consensus size: 19
118627162 AATAAAAAAT
*
118627172 TAAAATATTA-AAAATTTAA
1 TAAAA-ATTATAAAATTTTA
* **
118627191 TAAAATTTATAAAATAATA
1 TAAAAATTATAAAATTTTA
* *
118627210 GAAAAATCGTA-AAAATATATA
1 TAAAAAT--TATAAAAT-TTTA
118627231 TAAAAATTATAAAATTTTA
1 TAAAAATTATAAAATTTTA
* *
118627250 TAAAAATCGTAAAAAAATTTA
1 TAAAAAT--TATAAAATTTTA
*
118627271 T-AAAA-TATAAAATTCTA
1 TAAAAATTATAAAATTTTA
118627288 TAAA
1 TAAA
118627292 GTCATAGAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
17 10 0.13
18 5 0.06
19 28 0.35
20 14 0.18
21 22 0.28
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (19 bp):
TAAAAATTATAAAATTTTA
Found at i:118627440 original size:19 final size:19
Alignment explanation
Indices: 118627418--118627459 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
118627408 TTTCTATTTA
** *
118627418 TTTTATAATTTTTTATGAT
1 TTTTATAAAATTTTATAAT
118627437 TTTTATAAAATTTTATAAT
1 TTTTATAAAATTTTATAAT
118627456 TTTT
1 TTTT
118627460 TATATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTATAAAATTTTATAAT
Found at i:118627460 original size:10 final size:10
Alignment explanation
Indices: 118627418--118627463 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
118627408 TTTCTATTTA
118627418 TTTTATAATT
1 TTTTATAATT
*
118627428 TTTTATGA-T
1 TTTTATAATT
**
118627437 TTTTATAAAA
1 TTTTATAATT
118627447 TTTTATAATT
1 TTTTATAATT
118627457 TTTTATA
1 TTTTATA
118627464 TATATAAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTATAATT
Found at i:118627700 original size:27 final size:28
Alignment explanation
Indices: 118627670--118627733 Score: 103
Period size: 27 Copynumber: 2.3 Consensus size: 28
118627660 TTTATAAAAA
118627670 ATATTTTTAATAAAATTTAA-ATTTTTT
1 ATATTTTTAATAAAATTTAATATTTTTT
*
118627697 ATATTTTTATTAAAATTTAATATTTTTT
1 ATATTTTTAATAAAATTTAATATTTTTT
118627725 ATAGTTTTT
1 ATA-TTTTT
118627734 TTTCTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 19 0.56
28 10 0.29
29 5 0.15
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (28 bp):
ATATTTTTAATAAAATTTAATATTTTTT
Found at i:118636096 original size:26 final size:26
Alignment explanation
Indices: 118636040--118636096 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
118636030 TTTTTTATAT
* * *
118636040 AATTTTTTAATTTTAAATTCAAAATA
1 AATTTTTAAAATTGAAATTCAAAATA
* * *
118636066 CATTTTTAAAATTGAAATTGAAATTA
1 AATTTTTAAAATTGAAATTCAAAATA
118636092 AATTT
1 AATTT
118636097 ATTCAAACGT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (26 bp):
AATTTTTAAAATTGAAATTCAAAATA
Found at i:118636128 original size:155 final size:151
Alignment explanation
Indices: 118635837--118636132 Score: 328
Period size: 155 Copynumber: 1.9 Consensus size: 151
118635827 AAAAGACAGC
* *
118635837 TTTAAAATTTGATATGAAATTGGCTAGGTATATTGTCAGTTTTAAGATAATTTTTTTTAATTTTA
1 TTTAAAATTTGAAATAAAATTGGCTAGGTATATTGTCAGTTTTAAGATAA-TTTTTTTAATTTTA
** * * *
118635902 AATTTGAAATAATTTTTTAAAAATTAAAATTAAAATTTAAAGGTTAAATAAAGAGATGAGATTTT
65 AATTCAAAATAATTTTTAAAAAATTAAAATTAAAATTCAAACGTTAAATAAAGAGAT---ATTTT
118635967 ATTTTTAAATAAATCAAATGATCAT
127 ATTTTTAAATAAATCAAATGATCAT
* * * * * *
118635992 TTTAAAATTTGAAATAAAATTGGTTAGGTATATTTTGATTTTTTATATAA-TTTTTTAATTTTAA
1 TTTAAAATTTGAAATAAAATTGGCTAGGTATATTGTCAGTTTTAAGATAATTTTTTTAATTTTAA
*
118636056 ATTCAAAATACATTTTTAAAATTGAAATTGAAATTAAATTTATTCAAACGTTAAATAAAGAG-T-
66 ATTCAAAATA-ATTTTT-AAA---AAATTAAAATTAAA---ATTCAAACGTTAAATAAAGAGATA
*
118636119 TTTTATTTTAAAAT
123 TTTTATTTTTAAAT
118636133 GAAAATTTAT
Statistics
Matches: 118, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
153 22 0.19
154 6 0.05
155 44 0.37
156 13 0.11
158 13 0.11
160 1 0.01
161 19 0.16
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (151 bp):
TTTAAAATTTGAAATAAAATTGGCTAGGTATATTGTCAGTTTTAAGATAATTTTTTTAATTTTAA
ATTCAAAATAATTTTTAAAAAATTAAAATTAAAATTCAAACGTTAAATAAAGAGATATTTTATTT
TTAAATAAATCAAATGATCAT
Found at i:118636555 original size:18 final size:18
Alignment explanation
Indices: 118636534--118636569 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
118636524 ATTATGCATC
118636534 TTTACCTTATTTTATTAT
1 TTTACCTTATTTTATTAT
118636552 TTTACCTTATTTTATTAT
1 TTTACCTTATTTTATTAT
118636570 AATATTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTACCTTATTTTATTAT
Found at i:118636561 original size:10 final size:10
Alignment explanation
Indices: 118636534--118636565 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
118636524 ATTATGCATC
118636534 TTTACCTTAT
1 TTTACCTTAT
118636544 TTTA--TTAT
1 TTTACCTTAT
118636552 TTTACCTTAT
1 TTTACCTTAT
118636562 TTTA
1 TTTA
118636566 TTATAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.40
10 12 0.60
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTACCTTAT
Found at i:118638030 original size:12 final size:12
Alignment explanation
Indices: 118638013--118638044 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
118638003 ATTTTTTACC
118638013 TATTTACTCACT
1 TATTTACTCACT
*
118638025 TATTTATTCACT
1 TATTTACTCACT
118638037 TATTTACT
1 TATTTACT
118638045 TCAATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.25, C:0.19, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTTACTCACT
Found at i:118640114 original size:15 final size:16
Alignment explanation
Indices: 118640088--118640117 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
118640078 AAAATATAAT
118640088 TTTATCATTTTTATAG
1 TTTATCATTTTTATAG
118640104 TTTAT-ATTTTTATA
1 TTTATCATTTTTATA
118640118 ATTTGTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTATCATTTTTATAG
Found at i:118648474 original size:83 final size:83
Alignment explanation
Indices: 118648335--118648500 Score: 332
Period size: 83 Copynumber: 2.0 Consensus size: 83
118648325 TGGCTTTAGG
118648335 GCTCTATTTGCAATCATTGGTCACCTTACTCCTTGTTTCAATGGACATGAATTTAGTGGTTTAGG
1 GCTCTATTTGCAATCATTGGTCACCTTACTCCTTGTTTCAATGGACATGAATTTAGTGGTTTAGG
118648400 TTCAAAAAAGGGGGGAAA
66 TTCAAAAAAGGGGGGAAA
118648418 GCTCTATTTGCAATCATTGGTCACCTTACTCCTTGTTTCAATGGACATGAATTTAGTGGTTTAGG
1 GCTCTATTTGCAATCATTGGTCACCTTACTCCTTGTTTCAATGGACATGAATTTAGTGGTTTAGG
118648483 TTCAAAAAAGGGGGGAAA
66 TTCAAAAAAGGGGGGAAA
118648501 AAAGGATATC
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (83 bp):
GCTCTATTTGCAATCATTGGTCACCTTACTCCTTGTTTCAATGGACATGAATTTAGTGGTTTAGG
TTCAAAAAAGGGGGGAAA
Found at i:118662471 original size:192 final size:191
Alignment explanation
Indices: 118662142--118662521 Score: 645
Period size: 192 Copynumber: 2.0 Consensus size: 191
118662132 AGTTAAATTG
* *
118662142 ATAAAAAAAATCCGTTCCTCTCTTAATACGTATTTTGGGCCTCGAGGGTATTTTATAAAGACTTA
1 ATAAAAAAAATCCGTTCCACTCCTAATACGTATTTTGGGCCTCGAGGGTATTTTATAAAGACTTA
118662207 AAAGTTAAACTATGCTATGAATGTTATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCCG
66 AAAGTTAAACTATGCTATGAATGTTATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCCG
* **
118662272 ATAATGCTCCGTAACCCTGATCCGGCGACGGTTTAGGGTTAA-AGGGTGTTACATTTATATA
131 ATAATGCTCCGTAACCCTGATCCGACGACAATTTAGGGTTAAGA-GGTGTTACATTTATATA
** * *
118662333 ATAAAAAAAATTTTGTTCCACTCCTAATACGTATTTTGGGTCTCGAGGGTCTTTTATAAAGACTT
1 ATAAAAAAAA-TCCGTTCCACTCCTAATACGTATTTTGGGCCTCGAGGGTATTTTATAAAGACTT
118662398 AAAAGTTAAACTATGCTATGAATGTTATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCC
65 AAAAGTTAAACTATGCTATGAATGTTATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCC
*
118662463 GATAATGCTCCGTAACCCTGATCTGACGACAATTTAGGGTTAAGAGGTGTTACATTTAT
130 GATAATGCTCCGTAACCCTGATCCGACGACAATTTAGGGTTAAGAGGTGTTACATTTAT
118662522 TGGTATCAGA
Statistics
Matches: 177, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
191 10 0.06
192 166 0.94
193 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (191 bp):
ATAAAAAAAATCCGTTCCACTCCTAATACGTATTTTGGGCCTCGAGGGTATTTTATAAAGACTTA
AAAGTTAAACTATGCTATGAATGTTATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCCG
ATAATGCTCCGTAACCCTGATCCGACGACAATTTAGGGTTAAGAGGTGTTACATTTATATA
Found at i:118668491 original size:40 final size:35
Alignment explanation
Indices: 118668401--118668566 Score: 163
Period size: 35 Copynumber: 4.6 Consensus size: 35
118668391 CATGACAAAG
*
118668401 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
118668436 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
* *
118668471 TGTGAAATGTAGATATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
118668511 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
118668546 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
118668567 TTCAATGAGG
Statistics
Matches: 111, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
34 1 0.01
35 78 0.70
37 2 0.02
38 3 0.03
40 27 0.24
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:118668519 original size:75 final size:75
Alignment explanation
Indices: 118668401--118668571 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
118668391 CATGACAAAG
** *
118668401 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
118668460 CCATACTGAGC
65 CCATACCGAGC
*
118668471 TGTGAAATGTAGATATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
118668536 CATACCGAGT
66 CATACCGAGC
**
118668546 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
118668572 TGAGGAAAAC
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
70 17 0.20
73 4 0.05
74 5 0.06
75 60 0.70
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:118670537 original size:7 final size:7
Alignment explanation
Indices: 118670525--118670571 Score: 55
Period size: 7 Copynumber: 7.1 Consensus size: 7
118670515 GATATTTTTG
118670525 ATATATA
1 ATATATA
*
118670532 ATATATT
1 ATATATA
118670539 ATAT-TA
1 ATATATA
*
118670545 TTATATA
1 ATATATA
118670552 ATATAT-
1 ATATATA
118670558 A-ATATA
1 ATATATA
118670564 ATATATA
1 ATATATA
118670571 A
1 A
118670572 AACATAAAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 4 0.12
6 6 0.18
7 23 0.70
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
ATATATA
Found at i:118670564 original size:12 final size:12
Alignment explanation
Indices: 118670525--118670571 Score: 58
Period size: 12 Copynumber: 3.7 Consensus size: 12
118670515 GATATTTTTG
118670525 ATATATAATATA
1 ATATATAATATA
*
118670537 TTATATTATTATATA
1 --ATA-TATAATATA
118670552 ATATATAATATA
1 ATATATAATATA
118670564 ATATATAA
1 ATATATAA
118670572 AACATAAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 16 0.53
13 3 0.10
14 3 0.10
15 8 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATATAATATA
Found at i:118671462 original size:14 final size:16
Alignment explanation
Indices: 118671439--118671472 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
118671429 GACAAGAAAC
118671439 AAAACGAAAAT-ACAA
1 AAAACGAAAATCACAA
118671454 AAAAC-AAAATCACAA
1 AAAACGAAAATCACAA
118671469 AAAA
1 AAAA
118671473 AAATATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.76, C:0.15, G:0.03, T:0.06
Consensus pattern (16 bp):
AAAACGAAAATCACAA
Found at i:118674016 original size:131 final size:132
Alignment explanation
Indices: 118673864--118674117 Score: 368
Period size: 131 Copynumber: 1.9 Consensus size: 132
118673854 GGCGAGATTT
* * **
118673864 GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGTTTGCAATTTCGTGTTTGCTCAAAA
1 GATATTTGGCAACTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGCTCAAAA
* * *
118673929 TAATCGAATA-TCACTTCAAAATATCACTCATATCTTTTAAAAATCCCTT-AAACGAAGGCGGTA
66 TAATCAAATATTC-CTTCAAAATATCACTCAGATCTTTTAAAAATCCATTAAAACGAAGGCGGTA
118673992 TGC
130 TGC
* * * *
118673995 GATATTTGGCAACTCGTGGAATTGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTTAAAA
1 GATATTTGGCAACTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGCTCAAAA
* *
118674060 TAATCAAATATTCCTTCAAAATTTCACTCAGGTCTTTTAAAAATCCATTAAAACGAAG
66 TAATCAAATATTCCTTCAAAATATCACTCAGATCTTTTAAAAATCCATTAAAACGAAG
118674118 ATAATACTCG
Statistics
Matches: 108, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
131 98 0.91
132 10 0.09
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (132 bp):
GATATTTGGCAACTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGCTCAAAA
TAATCAAATATTCCTTCAAAATATCACTCAGATCTTTTAAAAATCCATTAAAACGAAGGCGGTAT
GC
Found at i:118674154 original size:131 final size:131
Alignment explanation
Indices: 118673864--118674205 Score: 341
Period size: 131 Copynumber: 2.6 Consensus size: 131
118673854 GGCGAGATTT
* * ** * ** *
118673864 GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGTTTGCAATTTCGTGTTTGCTCAAAA
1 GATATTTGACAACTCGTAGAATCGTGCCCTAACGTGTTGGATTGCAATTTCCCGTTTGTTCAAAA
* * * **
118673929 TAATCGAATA-TCACTTCAAAATATCACTCATATCTTTTAAAAATCCCTTAAACGAAGGCGGTAT
66 TAATCGAATATTC-CTTCAAAATATCACTCAGATCTTTTAAAAATCCATTAAACGAAGACAATAT
118673993 GC
130 GC
* * * * *
118673995 GATATTTGGCAACTCGTGGAATTGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTTAAAA
1 GATATTTGACAACTCGTAGAATCGTGCCCTAACGTGTTGGATTGCAATTTCCCGTTTGTTCAAAA
* * * *
118674060 TAATCAAATATTCCTTCAAAATTTCACTCAGGTCTTTTAAAAATCCATTAAAACGAAGATAATAC
66 TAATCGAATATTCCTTCAAAATATCACTCAGATCTTTTAAAAATCCATT-AAACGAAGACAATA-
118674125 T-C
129 TGC
* * * * ** * *
118674127 GGTGTTTGACAA-TCCG-AGAATCATGCCCTATCGTGTTGGATTGTGATTTCTCGCTTGTTCAAA
1 GATATTTGACAACT-CGTAGAATCGTGCCCTAACGTGTTGGATTGCAATTTCCCGTTTGTTCAAA
*
118674190 ACAATCGAATATTCCT
65 ATAATCGAATATTCCT
118674206 CTAGGCTTTC
Statistics
Matches: 175, Mismatches: 32, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
131 150 0.86
132 24 0.14
133 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (131 bp):
GATATTTGACAACTCGTAGAATCGTGCCCTAACGTGTTGGATTGCAATTTCCCGTTTGTTCAAAA
TAATCGAATATTCCTTCAAAATATCACTCAGATCTTTTAAAAATCCATTAAACGAAGACAATATG
C
Found at i:118685805 original size:65 final size:65
Alignment explanation
Indices: 118685728--118685852 Score: 205
Period size: 65 Copynumber: 1.9 Consensus size: 65
118685718 CATATAATGA
*
118685728 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAACATCCTAATTATTTGACATAAATCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATTATTTGACATAAATCAT
* * * *
118685793 CACATTTAGTTAGGAGCATTTGATTTATTTCAATCATAGCATCCTAATTATTTGGCATAA
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATTATTTGACATAA
118685853 GCATAGATAC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (65 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATTATTTGACATAAATCAT
Found at i:118686202 original size:133 final size:133
Alignment explanation
Indices: 118685964--118686370 Score: 573
Period size: 133 Copynumber: 3.1 Consensus size: 133
118685954 CAAGCTAAAA
* * * * *
118685964 ATTGTAAATCTTGTTTCCCTAAGATTGTAGTGGAGCAGATCGAAGATGGCGAATATAGGTTTCCT
1 ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACGGCGAATCTAGGTTTCCT
* * *
118686029 GATGTTGCAGCGAAGCAGATTTAAGCCACCATCTTAGCTCCCTAAAGTTGTAATGGAGTAGGTTG
66 GATGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGAGTAGGCTG
118686094 AAG
131 AAG
* * * *
118686097 ATTGTAGATCTTGTTTCCTTGAGATTGCAGTGGAGCAGGTCGAAGACAGCGAATCTAGGCTTCCT
1 ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACGGCGAATCTAGGTTTCCT
* * *
118686162 GATATTACAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAGGTTGTAATGGAGTAGGCTG
66 GATGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGAGTAGGCTG
118686227 AAG
131 AAG
*
118686230 ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACGGC-AGATCTAAGTTTCC
1 ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACGGCGA-ATCTAGGTTTCC
* * * * * * * *
118686294 TGATGTTGCAATAAAGCAGATTTAAGTCACCACCCTAGCTCCCTAAAATTGTAGTGGAGTAGACC
65 TGATGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGAGTAGGCT
*
118686359 CAAG
130 GAAG
118686363 ATTGTAGA
1 ATTGTAGA
118686371 CCTCGTCTCC
Statistics
Matches: 241, Mismatches: 32, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
132 1 0.00
133 240 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (133 bp):
ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACGGCGAATCTAGGTTTCCT
GATGTTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGAGTAGGCTG
AAG
Found at i:118689311 original size:131 final size:132
Alignment explanation
Indices: 118689159--118689412 Score: 341
Period size: 131 Copynumber: 1.9 Consensus size: 132
118689149 GGCGAGATTT
* * * *
118689159 GATAGTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGTTTGCAATTTCGTGTTTGCTCAAAA
1 GATAGTTGGCAACTCGCGGAATCGTGCCCTAACGTATTGGGTTGCAATTTCCTGTTTGCTCAAAA
* * *
118689224 TAATCGAACA-TCACTTCAAAATATCACTCATATCTTTTAAAAATCCCTT-AAACGAAGGCGGTA
66 TAATCAAACATTC-CTTCAAAATATCACTCAGATCTTTTAAAAATCCATTAAAACGAAGGCGGTA
118689287 TGC
130 TGC
* * * * *
118689290 GATATTTGGCAACTCGTGGAATTGTGCCCTAACGTATTGGGTTGCAATTTCCTGTTTGTTTAAAA
1 GATAGTTGGCAACTCGCGGAATCGTGCCCTAACGTATTGGGTTGCAATTTCCTGTTTGCTCAAAA
* * * *
118689355 TAATCAAATATTCCTTCAAAATTTCACTTAGGTCTTTTAAAAATCCATTAAAACGAAG
66 TAATCAAACATTCCTTCAAAATATCACTCAGATCTTTTAAAAATCCATTAAAACGAAG
118689413 ATAATACTCG
Statistics
Matches: 105, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
131 95 0.90
132 10 0.10
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (132 bp):
GATAGTTGGCAACTCGCGGAATCGTGCCCTAACGTATTGGGTTGCAATTTCCTGTTTGCTCAAAA
TAATCAAACATTCCTTCAAAATATCACTCAGATCTTTTAAAAATCCATTAAAACGAAGGCGGTAT
GC
Found at i:118689442 original size:131 final size:131
Alignment explanation
Indices: 118689176--118689501 Score: 327
Period size: 131 Copynumber: 2.5 Consensus size: 131
118689166 GGCAATTCGC
* * * *
118689176 GGAATCGTGCCCTAACGTGTTGGTTTGCAATTTCGTGTTTGCTCAAAATAATCGAACA-TCACTT
1 GGAATCGTGCCCTAACGTGTTGGATTGCAATTTCCTGTTTGTTCAAAATAATCGAATATTC-CTT
* * * ** *
118689240 CAAAATATCACTCATATCTTTTAAAAATCCCTTAAACGAAGGCGGTATGCGATATTTGGCAACTC
65 CAAAATATCACTCAGATCTTTTAAAAATCCATTAAACGAAGACAATATGCGATATTTGACAACTC
**
118689305 GT
130 CA
* * * * *
118689307 GGAATTGTGCCCTAACGTATTGGGTTGCAATTTCCTGTTTGTTTAAAATAATCAAATATTCCTTC
1 GGAATCGTGCCCTAACGTGTTGGATTGCAATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTC
* * * * * *
118689372 AAAATTTCACTTAGGTCTTTTAAAAATCCATTAAAACGAAGATAATACT-CGGTGTTTGACAA-T
66 AAAATATCACTCAGATCTTTTAAAAATCCATT-AAACGAAGACAATA-TGCGATATTTGACAACT
118689435 CCA
129 CCA
* * ** * *
118689438 GGAATCATGCCCTATCGTGTTGGATTGTGATTT-CTCGCTTGTTCAAAACAATCGAATATTCCTT
1 GGAATCGTGCCCTAACGTGTTGGATTGCAATTTCCT-GTTTGTTCAAAATAATCGAATATTCCTT
118689502 TAGGCTTTCG
Statistics
Matches: 158, Mismatches: 33, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
130 2 0.01
131 133 0.84
132 22 0.14
133 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (131 bp):
GGAATCGTGCCCTAACGTGTTGGATTGCAATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTC
AAAATATCACTCAGATCTTTTAAAAATCCATTAAACGAAGACAATATGCGATATTTGACAACTCC
A
Found at i:118690487 original size:29 final size:31
Alignment explanation
Indices: 118690450--118690507 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 31
118690440 CTAGCGCGCT
118690450 TTCTAATTATTAGCACATT-AGTGCTCTCCG
1 TTCTAATTATTAGCACATTAAGTGCTCTCCG
*
118690480 TTCT-ATTATTAGCACGTTAAGTGCTCTC
1 TTCTAATTATTAGCACATTAAGTGCTCTC
118690508 TGTTTAGCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.41
Consensus pattern (31 bp):
TTCTAATTATTAGCACATTAAGTGCTCTCCG
Found at i:118690528 original size:22 final size:22
Alignment explanation
Indices: 118690499--118690555 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
118690489 TAGCACGTTA
118690499 AGTGCTCTCTGTTTAGCACATCT
1 AGTGCTCTCTGTTTAGCAC-TCT
* *
118690522 -GTGCTCTCTGTATAGCACTTT
1 AGTGCTCTCTGTTTAGCACTCT
118690543 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
118690556 CGTTTGTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAGCACTCT
Found at i:118691469 original size:157 final size:157
Alignment explanation
Indices: 118691183--118691493 Score: 543
Period size: 157 Copynumber: 2.0 Consensus size: 157
118691173 ATTCCGTTCC
* *
118691183 ACTCCTTATATGTATTTTGGGCCTCGAGGGTCTTTTATAAAGACTTAAAAGTTAAACTATGCTAT
1 ACTCCTAATACGTATTTTGGGCCTCGAGGGTCTTTTATAAAGACTTAAAAGTTAAACTATGCTAT
* *
118691248 GAATGTTATTTATTTATGAATTATTTTTAAGTTGTTCAATATGTCCGATAATGCTCCGTAACCCT
66 GAATGTGATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCCGATAATGCTCCGTAACCCT
*
118691313 AATCCGGCGACGGTTTAGGGTTAAGGG
131 AATCCGACGACGGTTTAGGGTTAAGGG
*
118691340 ACTCCTAATACGTATTTTGGGCCTCGAGGGTCTTTTATAAAGACTTCAAAGTTAAACTATGCTAT
1 ACTCCTAATACGTATTTTGGGCCTCGAGGGTCTTTTATAAAGACTTAAAAGTTAAACTATGCTAT
118691405 -AATTGTGATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCCGATAATGCTCCGTAACCC
66 GAA-TGTGATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCCGATAATGCTCCGTAACCC
*
118691469 TAATCCGACGATGGTTTAGGGTTAA
130 TAATCCGACGACGGTTTAGGGTTAA
118691494 AGGGGTGTTA
Statistics
Matches: 146, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
156 2 0.01
157 144 0.99
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (157 bp):
ACTCCTAATACGTATTTTGGGCCTCGAGGGTCTTTTATAAAGACTTAAAAGTTAAACTATGCTAT
GAATGTGATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCCGATAATGCTCCGTAACCCT
AATCCGACGACGGTTTAGGGTTAAGGG
Found at i:118692403 original size:17 final size:17
Alignment explanation
Indices: 118692381--118692414 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
118692371 GTTAAAAAGG
118692381 TAAACGATTTTCATTAT
1 TAAACGATTTTCATTAT
118692398 TAAACGATTTTCATTAT
1 TAAACGATTTTCATTAT
118692415 AAGGTAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (17 bp):
TAAACGATTTTCATTAT
Found at i:118694270 original size:21 final size:20
Alignment explanation
Indices: 118694230--118694271 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
118694220 AAGATTCGAA
118694230 AGAGAATTGAAGAATGAATTG
1 AGAGAATTGAAGAA-GAATTG
118694251 AGAGAATTTGAACGAA-AATTG
1 AGAGAA-TTGAA-GAAGAATTG
118694272 TTTCGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 11 0.58
22 5 0.26
23 3 0.16
ACGTcount: A:0.48, C:0.02, G:0.26, T:0.24
Consensus pattern (20 bp):
AGAGAATTGAAGAAGAATTG
Found at i:118714146 original size:15 final size:15
Alignment explanation
Indices: 118714094--118714149 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
118714084 ACCATTAAAA
*
118714094 TAAATTTTAAAT-TT
1 TAAATATTAAATATT
* * * *
118714108 TAAAAAATAAAAAAT
1 TAAATATTAAATATT
118714123 TATAATATTAAATATT
1 TA-AATATTAAATATT
118714139 TAAATATTAAA
1 TAAATATTAAA
118714150 AAGTATCTTT
Statistics
Matches: 31, Mismatches: 9, Indels: 3
0.72 0.21 0.07
Matches are distributed among these distances:
14 8 0.26
15 12 0.39
16 11 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAAATATTAAATATT
Found at i:118714383 original size:8 final size:8
Alignment explanation
Indices: 118714370--118714414 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
118714360 AAATATTTTT
118714370 TTATAAAA
1 TTATAAAA
118714378 TTATAAAA
1 TTATAAAA
*
118714386 -TATATAA
1 TTATAAAA
*
118714393 TTATAAAT
1 TTATAAAA
118714401 TTA-AAAA
1 TTATAAAA
118714408 TTATAAA
1 TTATAAA
118714415 TAATATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
7 12 0.39
8 19 0.61
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TTATAAAA
Found at i:118714384 original size:23 final size:23
Alignment explanation
Indices: 118714345--118714388 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
118714335 ATAAAAAAAA
*
118714345 TTTTAAAAAGTTTTAAAATATTT
1 TTTTAAAAAGTTATAAAATATTT
118714368 TTTTATAAAA-TTATAAAATAT
1 TTTTA-AAAAGTTATAAAATAT
118714389 ATAATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TTTTAAAAAGTTATAAAATATTT
Found at i:118714396 original size:23 final size:21
Alignment explanation
Indices: 118714370--118714430 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 21
118714360 AAATATTTTT
118714370 TTATAAAATTATAAAATATATAA
1 TTATAAAATTA-AAAAT-TATAA
*
118714393 TTATAAATTTAAAAATTATAA
1 TTATAAAATTAAAAATTATAA
*
118714414 --ATAATATATAAAAATTA
1 TTATAAAAT-TAAAAATTA
118714431 GAAAAGGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 5 0.15
20 9 0.26
21 5 0.15
22 5 0.15
23 10 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TTATAAAATTAAAAATTATAA
Found at i:118714415 original size:15 final size:16
Alignment explanation
Indices: 118714369--118714415 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 16
118714359 AAAATATTTT
118714369 TTTATAAAATTATAAA
1 TTTATAAAATTATAAA
* *
118714385 -ATATATAATTATAAA
1 TTTATAAAATTATAAA
118714400 TTTA-AAAATTATAAA
1 TTTATAAAATTATAAA
118714415 T
1 T
118714416 AATATATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 24 0.92
16 2 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTTATAAAATTATAAA
Found at i:118715453 original size:43 final size:43
Alignment explanation
Indices: 118715405--118715491 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
118715395 TAAAAATACT
118715405 AAAAATTTAAAATAAAATTGATTTGTCATTTTTCCTCCTCTAC
1 AAAAATTTAAAATAAAATTGATTTGTCATTTTTCCTCCTCTAC
118715448 AAAAATTTAAAATAAAATTGATTTGTCATTTTTCCTCCTCTAC
1 AAAAATTTAAAATAAAATTGATTTGTCATTTTTCCTCCTCTAC
118715491 A
1 A
118715492 TATACCTAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (43 bp):
AAAAATTTAAAATAAAATTGATTTGTCATTTTTCCTCCTCTAC
Found at i:118723101 original size:35 final size:36
Alignment explanation
Indices: 118723038--118723108 Score: 135
Period size: 35 Copynumber: 2.0 Consensus size: 36
118723028 CAATGATATG
118723038 CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
118723074 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
118723109 TGCAAACTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 19 0.54
36 16 0.46
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:118723127 original size:17 final size:19
Alignment explanation
Indices: 118723030--118723120 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
118723020 ATAATCTTCA
118723030 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
118723049 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
118723068 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
118723085 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
118723103 ATGATATGCAAACTTAGA
1 ATGATATGCAATCTTAGA
118723121 AGATATGATT
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 36 0.53
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:118733116 original size:220 final size:220
Alignment explanation
Indices: 118732734--118733323 Score: 966
Period size: 220 Copynumber: 2.7 Consensus size: 220
118732724 CAGGCTAAAG
* * * * * * **
118732734 CATAGCAGATTTGACCTTCAGGTATTTACGCTGAAGCGGATCCAAGATGATTTAACATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
* * * *
118732799 TTATCAGAGAACAAATCAAAGAAACAGATTTGGCATTTCCATATTCGACAGAGAGCAGATCGAAG
66 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAG
*
118732864 ACATAGCAGATCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTT
*
118732929 GCGTTGACAAGGAGCAGATCGAAGA
196 GCGTTAACAAGGAGCAGATCGAAGA
* * *
118732954 CATAGCAGATTTGGCTTTCATGTGTTTACGTTGAAGCAGATCTAAGATGATTTGGTATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
* * *
118733019 CTGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCAACAGAGAGTAGATCGAAG
66 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAG
*
118733084 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTT
118733149 GCGTTAACAAGGAGCAGATCGAAGA
196 GCGTTAACAAGGAGCAGATCGAAGA
*
118733174 CATAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
118733239 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCT-CATATTCGACAGAGAGCAGATCGAAG
66 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAG
*
118733303 ACATAGCAGATCTGACCTTCA
131 ACATAGCAGATCTAACCTTCA
118733324 TTGAAGCAGA
Statistics
Matches: 342, Mismatches: 28, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
219 44 0.13
220 298 0.87
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (220 bp):
CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAG
ACATAGCAGATCTAACCTTCAGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTT
GCGTTAACAAGGAGCAGATCGAAGA
Found at i:118733393 original size:78 final size:78
Alignment explanation
Indices: 118733265--118733558 Score: 466
Period size: 78 Copynumber: 3.8 Consensus size: 78
118733255 CGAAGAAACA
* * * *
118733265 GATTTGGCATCTC-ATATTCGACAGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
118733329 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * * *
118733342 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCAAAGACACAGTAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
118733407 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
118733420 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
118733484 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
*
118733498 GATTTGGCATCTCTGTAATAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
118733559 GTGTTTACAT
Statistics
Matches: 197, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
77 14 0.07
78 182 0.92
79 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:118733696 original size:44 final size:45
Alignment explanation
Indices: 118733498--118733771 Score: 295
Period size: 45 Copynumber: 6.1 Consensus size: 45
118733488 GATCCAAGAT
* *
118733498 GATTTGGCATCTCTGTAATAGACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * *
118733545 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
* *
118733590 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
118733635 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
*
118733679 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * * *
118733724 GATTTGGCGTCTCTGTATTAGACGGTGAGTAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
118733769 GAT
1 GAT
118733772 ATCGCTTTCC
Statistics
Matches: 189, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
43 1 0.01
44 45 0.24
45 113 0.60
46 4 0.02
47 22 0.12
48 3 0.02
49 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.25
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:118733698 original size:89 final size:90
Alignment explanation
Indices: 118733498--118733771 Score: 297
Period size: 89 Copynumber: 3.0 Consensus size: 90
118733488 GATCCAAGAT
* * * * * *
118733498 GATTTGGCATCTCTGTAATAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCT-TCATGTG
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAG--ATAACAGATTTGGCATCTC-TGT-
* * * *
118733562 TTTACATC--GAAGCAGATCCAAGAT-GACA
62 ATTAGA-CGGGGAGCAGATCAAAGATAG-CA
*
118733590 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACAGATTTGGCATCTCTGTATTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTA
**
118733655 GACGGGGAGCAGATTGAAGA-AGCA
66 GACGGGGAGCAGATCAAAGATAGCA
* * *
118733679 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTA
* *
118733744 GACGGTGAGTAGATCAAAGATAGCA
66 GACGGGGAGCAGATCAAAGATAGCA
118733769 GAT
1 GAT
118733772 ATCGCTTTCC
Statistics
Matches: 157, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
88 1 0.01
89 83 0.53
90 35 0.22
91 2 0.01
92 36 0.23
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.25
Consensus pattern (90 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTA
GACGGGGAGCAGATCAAAGATAGCA
Found at i:118733741 original size:134 final size:136
Alignment explanation
Indices: 118733498--118733748 Score: 332
Period size: 134 Copynumber: 1.9 Consensus size: 136
118733488 GATCCAAGAT
*
118733498 GATTTGGCATCTCTGTAATAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTAATAGACGGGGAGCAGATCGAAGA-ATAGCAGATCTGACCTTCATGTGA
*
118733563 TTACATCGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGA
65 TTACATCGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGA
118733628 GATAACA
130 GATAACA
* * * * *
118733635 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAG-A-AGCAGATTTGGCGTCTC-TGT-A
1 GATTTGGCATCTCTGTAATAGACGGGGAGCAGATCGAAGAATAGCAGATCTGACCT-TCATGTGA
* * * *
118733696 TTAGA-CGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGG
65 TTACATC--GAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGG
118733749 TGAGTAGATC
Statistics
Matches: 100, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
132 1 0.01
133 4 0.04
134 55 0.55
135 3 0.03
137 37 0.37
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (136 bp):
GATTTGGCATCTCTGTAATAGACGGGGAGCAGATCGAAGAATAGCAGATCTGACCTTCATGTGAT
TACATCGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAG
ATAACA
Found at i:118734148 original size:17 final size:17
Alignment explanation
Indices: 118734128--118734191 Score: 74
Period size: 17 Copynumber: 3.6 Consensus size: 17
118734118 CAATGATATG
118734128 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
* *
118734145 CAATCTTAAATATGATTG
1 CAATCTTAGATATGA-TA
*
118734163 CCATCTTAGATATGATA
1 CAATCTTAGATATGATA
118734180 TGCAATCTTAGA
1 --CAATCTTAGA
118734192 AGATATGATT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
17 15 0.39
18 14 0.37
19 9 0.24
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:118734170 original size:35 final size:37
Alignment explanation
Indices: 118734120--118734189 Score: 108
Period size: 35 Copynumber: 1.9 Consensus size: 37
118734110 ATAATCTTCA
118734120 ATGATATGCAATCTTAGATATGATA-CAATCTTAAAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAAAT
*
118734156 ATGAT-TGCCATCTTAGATATGATATGCAATCTTA
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTA
118734190 GAAGATATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
35 18 0.58
36 5 0.16
37 8 0.26
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAAAT
Found at i:118734198 original size:17 final size:19
Alignment explanation
Indices: 118734120--118734191 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
118734110 ATAATCTTCA
118734120 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
118734139 ATGATA--CAATCTTAAAT
1 ATGATATGCAATCTTAGAT
*
118734156 ATGAT-TGCCATCTTAGAT
1 ATGATATGCAATCTTAGAT
118734174 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
118734192 AGATATGATT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
17 15 0.33
18 14 0.30
19 17 0.37
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:118734217 original size:22 final size:22
Alignment explanation
Indices: 118734120--118734214 Score: 70
Period size: 17 Copynumber: 4.8 Consensus size: 22
118734110 ATAATCTTCA
118734120 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
118734139 ATGATA--CAATCTT--AA-AT
1 ATGATATGCAATCTTAGAAGAT
*
118734156 ATGAT-TGCCATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
118734174 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
118734196 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
118734215 GATTTAATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
17 15 0.24
18 14 0.22
19 14 0.22
22 8 0.13
23 12 0.19
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:118734506 original size:18 final size:18
Alignment explanation
Indices: 118734481--118734517 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
118734471 TGTTTCCCTG
*
118734481 ATTTTTTTTATATATTTTA
1 ATTTTTTTAATA-ATTTTA
118734500 ATTTTTTTAATAATTTTA
1 ATTTTTTTAATAATTTTA
118734518 GTATCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTTTTTTAATAATTTTA
Found at i:118736232 original size:15 final size:15
Alignment explanation
Indices: 118736212--118736242 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
118736202 ACTTGAAAAG
118736212 AAAATATATACATAA
1 AAAATATATACATAA
*
118736227 AAAATATTTACATAA
1 AAAATATATACATAA
118736242 A
1 A
118736243 GTTATATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATATATACATAA
Found at i:118738427 original size:176 final size:177
Alignment explanation
Indices: 118738122--118738744 Score: 823
Period size: 176 Copynumber: 3.5 Consensus size: 177
118738112 TTACTTGAGA
* *
118738122 AAATAAGATCTTC-AGTCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCCA-TCTTT
1 AAATAAGATCTTCAAATC-TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CATTCTTC
* * * * * *
118738185 AACCTGCTCTTTTGCTACCTCAGAGAAATAAGGCTAGTGGTAAAATCTACTCCATCACCGATACA
64 AACCTGCTCTATTGCTACCTCAGAGAGATAAGGCTGGTGATAAAATCTGCTCCATTACCGATACA
* * *
118738250 TGGAGAT-AGAATTCACCATT-TTAGATCTGCTCCACTGCAATCTTAGGG
129 TGAAGATAAG-ATTCACCATTCTTAGATCTGCTCCACTGCAATCTCAGAG
* * * * *
118738298 AGATAAAATCTTCAAAACTCAATCTGCTTCCTTGCTACCTCAGGAAGATAAGATTCATTCTTCAA
1 AAATAAGATCTTCAAATCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAA
* * * *
118738363 CCTGGTCTATTGCTATCTCAGAGAGATAAGGCTGGTGATAAAATCTGCTCCATTGCCAATACATG
66 CCTGCTCTATTGCTACCTCAGAGAGATAAGGCTGGTGATAAAATCTGCTCCATTACCGATACATG
*
118738428 AAGATAAGATTCACCATTCTT-GATCTGCTCCACTGCAATCTCAGTG
131 AAGATAAGATTCACCATTCTTAGATCTGCTCCACTGCAATCTCAGAG
118738474 AAATAAGATCTTCAAATCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAA
1 AAATAAGATCTTCAAATCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAA
* * *
118738539 CCTGCTCTCTTGCTACCTTAGAGAGATGAGGCTGGTGATAAAATCTGCTCCATTACCGATACATG
66 CCTGCTCTATTGCTACCTCAGAGAGATAAGGCTGGTGATAAAATCTGCTCCATTACCGATACATG
* ** * **
118738604 AAGATAAGATTCACTATCTGCAAAAATCTGCTCTGCTGCAA-CTCAGAG
131 AAGATAAGATTCACCAT-T-CTTAGATCTGCTCCACTGCAATCTCAGAG
* *
118738652 ATATAAGATCTTCAAATCTCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACTCATTCTTCAA
1 AAATAAGATCTTCAAATCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAA
* *
118738717 CCT-TTC-CTTGCTACCTCA-AGAAGATAAG
66 CCTGCTCTATTGCTACCTCAGAG-AGATAAG
118738745 ACTCATTCTT
Statistics
Matches: 395, Mismatches: 44, Indels: 16
0.87 0.10 0.04
Matches are distributed among these distances:
175 4 0.01
176 295 0.75
177 9 0.02
178 73 0.18
179 14 0.04
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (177 bp):
AAATAAGATCTTCAAATCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAA
CCTGCTCTATTGCTACCTCAGAGAGATAAGGCTGGTGATAAAATCTGCTCCATTACCGATACATG
AAGATAAGATTCACCATTCTTAGATCTGCTCCACTGCAATCTCAGAG
Found at i:118738433 original size:86 final size:86
Alignment explanation
Indices: 118738341--118738616 Score: 234
Period size: 88 Copynumber: 3.2 Consensus size: 86
118738331 GCTACCTCAG
*
118738341 GAAGATAAGATTCATTCTTCAACCTGGTCTATTGCTATCTCAGAGAGATAAGGCTGGTGATAAAA
1 GAAGATAAGATTCATTCTTCAACCTGCTCTATTGCTATCTCAGAGAGATAAGGCTGGTGATAAAA
118738406 TCTGCTCCATTGCCAATACAT
66 TCTGCTCCATTGCCAATACAT
* * * * * * * * ****
118738427 GAAGATAAGATTCACCATTCTT-GATCTGCTCCACTGCAATCTCAGTGAAATAAGATCTTCAAAT
1 GAAGATAAGATT---CATTCTTCAACCTGCTCTATTGCTATCTCAGAGAGATAAG-GCTGGTGAT
** * * * *
118738491 CTCAGTCTGCTTCC-TTGCTACCT-CAG
62 -AAAATCTGC-TCCATTGCCA-ATACAT
* * * * *
118738517 GAAGATAAGACTCATTCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATGAGGCTGGTGATAAAA
1 GAAGATAAGATTCATTCTTCAACCTGCTCTATTGCTATCTCAGAGAGATAAGGCTGGTGATAAAA
* *
118738582 TCTGCTCCATTACCGATACAT
66 TCTGCTCCATTGCCAATACAT
118738603 GAAGATAAGATTCA
1 GAAGATAAGATTCA
118738617 CTATCTGCAA
Statistics
Matches: 135, Mismatches: 45, Indels: 20
0.68 0.22 0.10
Matches are distributed among these distances:
85 4 0.03
86 36 0.27
87 11 0.08
88 45 0.33
89 11 0.08
90 24 0.18
91 4 0.03
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (86 bp):
GAAGATAAGATTCATTCTTCAACCTGCTCTATTGCTATCTCAGAGAGATAAGGCTGGTGATAAAA
TCTGCTCCATTGCCAATACAT
Found at i:118738731 original size:41 final size:40
Alignment explanation
Indices: 118738679--118738784 Score: 151
Period size: 41 Copynumber: 2.5 Consensus size: 40
118738669 CTCAGTCTGC
118738679 TTCCTTGCTACCTCAGAAAGATAAGACTCATTCTTCAACCT
1 TTCCTTGCTACCTCAGAAAGATAAGACTCATTCTTCAA-CT
118738720 TTCCTTGCTACCTCA-AGAAGATAAGACTCATTCTTCAACT
1 TTCCTTGCTACCTCAGA-AAGATAAGACTCATTCTTCAACT
*
118738760 TGCTCTCTTGCTACCTCAGAGAGAT
1 T--TC-CTTGCTACCTCAGAAAGAT
118738785 GAGGCTGGTG
Statistics
Matches: 59, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
40 4 0.07
41 36 0.61
42 2 0.03
43 16 0.27
44 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.32
Consensus pattern (40 bp):
TTCCTTGCTACCTCAGAAAGATAAGACTCATTCTTCAACT
Found at i:118739158 original size:64 final size:63
Alignment explanation
Indices: 118739056--118739182 Score: 173
Period size: 64 Copynumber: 2.0 Consensus size: 63
118739046 TTCATGTATC
* *
118739056 ATGCTTATGCCAAATAATTAGGATATTATAATCAAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATACTATAATCAAAATGAAT-AAATGCTCCTAACTAAATGTG
** * * * *
118739120 ATGCTTATGTTAAATAATTAGGATGCTATGATCGAAATGAATAAATGTTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATACTATAATCAAAATGAATAAATGCTCCTAACTAAATGTG
118739183 TTATGAATGA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
63 19 0.35
64 36 0.65
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (63 bp):
ATGCTTATGCCAAATAATTAGGATACTATAATCAAAATGAATAAATGCTCCTAACTAAATGTG
Found at i:118745478 original size:33 final size:33
Alignment explanation
Indices: 118745436--118745502 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
118745426 ATAATTCTCT
118745436 ATCCCACTATCACTTTCTTTTGTGCTCGAAATA
1 ATCCCACTATCACTTTCTTTTGTGCTCGAAATA
118745469 ATCCCACTATCACTTTCTTTTGTGCTCGAAATA
1 ATCCCACTATCACTTTCTTTTGTGCTCGAAATA
118745502 A
1 A
118745503 CTAACCCTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.25, C:0.27, G:0.09, T:0.39
Consensus pattern (33 bp):
ATCCCACTATCACTTTCTTTTGTGCTCGAAATA
Found at i:118747011 original size:21 final size:21
Alignment explanation
Indices: 118746982--118747021 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
118746972 TGGGACAACT
118746982 GACTCATCATCT-TTCTTTGG
1 GACTCATCATCTGTTCTTTGG
118747002 GACTCCATCATCTGTTCTTT
1 GACT-CATCATCTGTTCTTT
118747022 CATCTCTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 8 0.44
22 6 0.33
ACGTcount: A:0.15, C:0.28, G:0.12, T:0.45
Consensus pattern (21 bp):
GACTCATCATCTGTTCTTTGG
Found at i:118751508 original size:16 final size:16
Alignment explanation
Indices: 118751489--118751520 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
118751479 ACTTGAAAAG
118751489 AAAATATATACATAAA
1 AAAATATATACATAAA
*
118751505 AAAATATTTACATAAA
1 AAAATATATACATAAA
118751521 GTTATATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAATATATACATAAA
Found at i:118755285 original size:5 final size:5
Alignment explanation
Indices: 118755275--118755322 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
118755265 TTGTGTGTTC
118755275 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
118755323 TCACAAATTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:118758843 original size:28 final size:28
Alignment explanation
Indices: 118758793--118758852 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
118758783 AACTTATTTA
118758793 AATTTTTTAATAATATAAAAACTAAATT
1 AATTTTTTAATAATATAAAAACTAAATT
* *
118758821 AATTTATTTAATAATA-AATAACTAATTT
1 AATTT-TTTAATAATATAAAAACTAAATT
118758849 AATT
1 AATT
118758853 CATTCCTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 19 0.66
29 10 0.34
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
AATTTTTTAATAATATAAAAACTAAATT
Found at i:118761580 original size:5 final size:5
Alignment explanation
Indices: 118761570--118761599 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
118761560 TATATTGTTC
*
118761570 CTTTT CTTTT CTTTT CTTTT TTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
118761600 TTATCATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
CTTTT
Found at i:118762465 original size:22 final size:23
Alignment explanation
Indices: 118762439--118762481 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
118762429 CTTTTAATGG
*
118762439 TTTAAGGA-AAAAAATTAATTCA
1 TTTAAGAATAAAAAATTAATTCA
*
118762461 TTTAATAATAAAAAATTAATT
1 TTTAAGAATAAAAAATTAATT
118762482 TGACTCAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (23 bp):
TTTAAGAATAAAAAATTAATTCA
Found at i:118765040 original size:25 final size:25
Alignment explanation
Indices: 118765012--118765095 Score: 64
Period size: 31 Copynumber: 3.1 Consensus size: 25
118765002 CAAATCGAAC
118765012 AAAAAAATTTAAATACAAAATTAAAA
1 AAAAAAATTTAAATACAAAATT-AAA
*
118765038 AAAAATGTCAAGTTTAAATACTAAATTTAAA
1 AAAAA----AA-TTTAAATAC-AAAATTAAA
*
118765069 AAAATAAA--TAAATACCAAATTAAA
1 AAAA-AAATTTAAATACAAAATTAAA
118765093 AAA
1 AAA
118765096 TTATCAAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
24 10 0.21
25 7 0.15
26 5 0.10
28 2 0.04
30 2 0.04
31 16 0.33
32 6 0.12
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (25 bp):
AAAAAAATTTAAATACAAAATTAAA
Found at i:118778177 original size:20 final size:20
Alignment explanation
Indices: 118778152--118778198 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
118778142 AGGGGCACAC
118778152 GCCCGTGTGGCCT-GAGACAT
1 GCCCGTGTGGCCTGGA-ACAT
118778172 GCCCGTGTGGCCTGGAACAT
1 GCCCGTGTGGCCTGGAACAT
118778192 GCCCGTG
1 GCCCGTG
118778199 GGCAAATCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.13, C:0.32, G:0.36, T:0.19
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAT
Found at i:118782946 original size:14 final size:13
Alignment explanation
Indices: 118782903--118782968 Score: 55
Period size: 14 Copynumber: 4.9 Consensus size: 13
118782893 TATCATATAT
*
118782903 ATTATATTATTTTA
1 ATTATA-TATTTTC
*
118782917 ATATATATTTTATTC
1 AT-TATATATT-TTC
118782932 ATTATATCATTTTC
1 ATTATAT-ATTTTC
*
118782946 ATTATATATTAT-
1 ATTATATATTTTC
118782958 ATTATAT-TTTT
1 ATTATATATTTT
118782969 ATTTATTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
11 3 0.07
12 7 0.16
13 4 0.09
14 20 0.45
15 10 0.23
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTATATATTTTC
Found at i:118782954 original size:30 final size:29
Alignment explanation
Indices: 118782903--118782960 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
118782893 TATCATATAT
* *
118782903 ATTATATTATTTTAATATATATTTTATTC
1 ATTATATCATTTTAATATATATTATATTC
*
118782932 ATTATATCATTTTCATTATATATTATATT
1 ATTATATCATTTT-AATATATATTATATT
118782961 ATATTTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.60
Consensus pattern (29 bp):
ATTATATCATTTTAATATATATTATATTC
Found at i:118789996 original size:38 final size:40
Alignment explanation
Indices: 118789946--118790111 Score: 201
Period size: 46 Copynumber: 3.9 Consensus size: 40
118789936 CTGATATGAA
118789946 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-TG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
118789985 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----ATG
118790028 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----AT--G
*
118790076 ATGTGTAAGACCATAGTTGAAAGATACCATGGCAAC
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
118790112 GTGACATGAA
Statistics
Matches: 116, Mismatches: 1, Indels: 13
0.89 0.01 0.10
Matches are distributed among these distances:
38 36 0.31
43 2 0.02
46 77 0.66
48 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (40 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATG
Found at i:118790052 original size:46 final size:46
Alignment explanation
Indices: 118789985--118790248 Score: 296
Period size: 46 Copynumber: 5.7 Consensus size: 46
118789975 TGGCAACCTG
* * *
118789985 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATAGTTGAAAGATACCATGGCAACATGACATGAAA
* * * *
118790031 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATAGTTGAAAGATACCATGGCAACATGACATGAAA
*
118790077 TGTGTAAGACCATAGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATAGTTGAAAGATACCATGGCAACATGACATGAAA
* ** * **
118790123 AGAATAAGACCATAGTTGAAAGATATCATGGCAACATGACGGGAAAA
1 TGTGTAAGACCATAGTTGAAAGATACCATGGCAACATGACATG-AAA
* ** *
118790170 CGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAA
1 TGTGTAAGACCATAGTTGAAAGATACCATGGCAACATGACATGAAA
** * * *
118790215 ACTAGTAAAACCATAGTTGAAAGACACTATGGCA
1 TGT-GTAAGACCATAGTTGAAAGATACCATGGCA
118790249 TCACGTCAAA
Statistics
Matches: 192, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
45 3 0.02
46 149 0.78
47 40 0.21
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (46 bp):
TGTGTAAGACCATAGTTGAAAGATACCATGGCAACATGACATGAAA
Found at i:118790554 original size:23 final size:25
Alignment explanation
Indices: 118790509--118790555 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
118790499 AATAAATATA
*
118790509 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
118790534 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
118790556 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:118798612 original size:18 final size:18
Alignment explanation
Indices: 118798589--118798623 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
118798579 GGTTTGGCGT
118798589 CTCTATATTGACAGAGAG
1 CTCTATATTGACAGAGAG
118798607 CTCTATATTGACAGAGA
1 CTCTATATTGACAGAGA
118798624 ACAGATCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (18 bp):
CTCTATATTGACAGAGAG
Found at i:118798632 original size:62 final size:62
Alignment explanation
Indices: 118798545--118798665 Score: 179
Period size: 62 Copynumber: 2.0 Consensus size: 62
118798535 TATTTGGCGT
* * *
118798545 CTCTGTATTGTCAGAGAGCAAATCGAAGATAACAGGTTTGGCGTCTCTATATTGACAGAGAG
1 CTCTATATTGACAGAGAACAAATCGAAGATAACAGGTTTGGCGTCTCTATATTGACAGAGAG
* * * *
118798607 CTCTATATTGACAGAGAACAGATCGAAGATAACAGGTTTGGTGTCTCTGTATTGGCAGA
1 CTCTATATTGACAGAGAACAAATCGAAGATAACAGGTTTGGCGTCTCTATATTGACAGA
118798666 AAATAGATCG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (62 bp):
CTCTATATTGACAGAGAACAAATCGAAGATAACAGGTTTGGCGTCTCTATATTGACAGAGAG
Found at i:118798800 original size:44 final size:44
Alignment explanation
Indices: 118798607--118798819 Score: 241
Period size: 44 Copynumber: 4.8 Consensus size: 44
118798597 TGACAGAGAG
* * * * *
118798607 CTCTATATTGACAGAGAACAGATCGAAGATAACAGGTTTGGTGT
1 CTCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCGT
* * **
118798651 CTCTGTATTGGCAGAAAATAGATCGAAGAT-GACAGATTTGGCGT
1 CTCTGTATTGACAGAGAGCAGATCGAAGATAG-CAGATTTGGCGT
*
118798695 ATCTGTATTGACAGAGAGCAGATCGAAGAT-GACAGATTTGGCGT
1 CTCTGTATTGACAGAGAGCAGATCGAAGATAG-CAGATTTGGCGT
* * * *
118798739 CTCTGTATTGTCGGAGAGCAGATAGAAGATAGTAGATTTGGCGT
1 CTCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCGT
* * *
118798783 CTCTGTACTGACAGAGAGTAGATTGAAGATAGCAGAT
1 CTCTGTATTGACAGAGAGCAGATCGAAGATAGCAGAT
118798820 CTGATATTTG
Statistics
Matches: 144, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
44 143 0.99
45 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (44 bp):
CTCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCGT
Found at i:118800532 original size:16 final size:15
Alignment explanation
Indices: 118800497--118800575 Score: 58
Period size: 17 Copynumber: 5.1 Consensus size: 15
118800487 ATCATATATA
118800497 TATTATATTATTTTA-
1 TATTATA-TATTTTAT
118800512 -A-TATATATTTTAT
1 TATTATATATTTTAT
118800525 TCATTATATCATTTTCAT
1 T-ATTATAT-ATTTT-AT
*
118800543 TATATATTATATTATAT
1 TAT-TA-TATATTTTAT
*
118800560 TATTATTTA-TTTAT
1 TATTATATATTTTAT
118800574 TA
1 TA
118800576 CTATGTACAA
Statistics
Matches: 53, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
12 7 0.13
13 4 0.08
14 7 0.13
15 4 0.08
16 7 0.13
17 12 0.23
18 9 0.17
19 3 0.06
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTATATATTTTAT
Found at i:118800549 original size:30 final size:29
Alignment explanation
Indices: 118800498--118800555 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
118800488 TCATATATAT
* *
118800498 ATTATATTATTTTAATATATATTTTATTC
1 ATTATATCATTTTAATATATATTATATTC
*
118800527 ATTATATCATTTTCATTATATATTATATT
1 ATTATATCATTTT-AATATATATTATATT
118800556 ATATTATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.60
Consensus pattern (29 bp):
ATTATATCATTTTAATATATATTATATTC
Found at i:118802334 original size:40 final size:38
Alignment explanation
Indices: 118802290--118802381 Score: 91
Period size: 37 Copynumber: 2.4 Consensus size: 38
118802280 CAGAATGGCA
*
118802290 ACCAACGCCTCATCGGA-T-AGTTCGAAGCAAATAAGTGACG
1 ACCAACGCCTCATCGGACTAAG-CCGAAGC--A-AAGTGACG
** *
118802330 ACCAACATCTCATC-GACTAAGCCGAAGCAAAGTGGCG
1 ACCAACGCCTCATCGGACTAAGCCGAAGCAAAGTGACG
118802367 ACCAACGCCTCATCG
1 ACCAACGCCTCATCG
118802382 AATCTATCCG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
37 19 0.44
38 1 0.02
39 2 0.05
40 19 0.44
41 2 0.05
ACGTcount: A:0.34, C:0.30, G:0.21, T:0.15
Consensus pattern (38 bp):
ACCAACGCCTCATCGGACTAAGCCGAAGCAAAGTGACG
Found at i:118804406 original size:135 final size:132
Alignment explanation
Indices: 118804129--118804428 Score: 315
Period size: 135 Copynumber: 2.3 Consensus size: 132
118804119 CGGGAGATTG
* **
118804129 CAACCCAGCACGATAGGGCACTATTCCTCGAATTTCCAAACAGCGAACATTTCTTTCGTTTTAAA
1 CAACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACAGCGAACATGCCTTTCGTTTTAAA
* ** * * * * *
118804194 GAGTTTTTAAAAAACGTGAATGAAATTCTGAAGGGATCTTCGATCGTTTTAGACAAATGGAAATG
66 GAGTTTTTAAAAAACATGAATGAAAACCTAAAAGAATATTCGATCGTTTTAGACAAACGGAAATG
*
118804259 CG
131 CA
* *
118804261 CAACCCAGCACGATAGGGTACGATT-CTCGAATTGT-CAAACATCGAACATCGCCTTT-GTTTTA
1 CAACCCAGCACGATAGGGCACGATTCCTCGAATT-TCCAAACAGCGAACAT-GCCTTTCGTTTTA
* * *
118804323 AAGGGTTTTCTTAAAAAAAACATGAGTGAAAACCTAAAAGAATATTCGATTGTTTT-GAACAAAC
64 AAGAG-TTT-TT--AAAAAACATGAATGAAAACCTAAAAGAATATTCGATCGTTTTAG-ACAAAC
118804387 GAGAAAT-CA
124 G-GAAATGCA
* *
118804396 CAATCCAGCACGATAGGGCATGATTCCT-GAATT
1 CAACCCAGCACGATAGGGCACGATTCCTCGAATT
118804429 GACAAATACT
Statistics
Matches: 139, Mismatches: 20, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
131 31 0.22
132 31 0.22
133 2 0.01
134 1 0.01
135 67 0.48
136 7 0.05
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (132 bp):
CAACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACAGCGAACATGCCTTTCGTTTTAAA
GAGTTTTTAAAAAACATGAATGAAAACCTAAAAGAATATTCGATCGTTTTAGACAAACGGAAATG
CA
Found at i:118805233 original size:238 final size:238
Alignment explanation
Indices: 118804815--118805267 Score: 870
Period size: 238 Copynumber: 1.9 Consensus size: 238
118804805 TTGGATTTTG
*
118804815 TAAAACCACGTTTCAAAACTCAAGTGGAAAACGATGATATGGGATAATTGACATATATGAGGTGC
1 TAAAACCACGTTTCAAAACTCAAGTGGAAAACGATGACATGGGATAATTGACATATATGAGGTGC
*
118804880 AATCAACTAACGAACTAATAATTAAATATAGATAACCTAAAAATGTAATCCGATTACAATAATGC
66 AATCAACTAACAAACTAATAATTAAATATAGATAACCTAAAAATGTAATCCGATTACAATAATGC
118804945 ATGGAGAATAATTAACATGACAACATAGGACAATGAACAAATAATATGCTACAACAACATGCATG
131 ATGGAGAATAATTAACATGACAACATAGGACAATGAACAAATAATATGCTACAACAACATGCATG
118805010 ACATAACATAAAATGACTACAACATGGAATAATTAACATAACA
196 ACATAACATAAAATGACTACAACATGGAATAATTAACATAACA
118805053 TAAAACCACGTTTCAAAACTCAAGTGGAAAACGATGACATGGGATAATTGACATATATGAGGTGC
1 TAAAACCACGTTTCAAAACTCAAGTGGAAAACGATGACATGGGATAATTGACATATATGAGGTGC
* *
118805118 GATCAACTAACAAACTAATAATTAAATATAGCTAACCTAAAAATGTAATCCGATTACAATAATGC
66 AATCAACTAACAAACTAATAATTAAATATAGATAACCTAAAAATGTAATCCGATTACAATAATGC
118805183 ATGGAGAATAATTAACATGACAACATAGGACAATGAACAAATAATATGCTACAACAACATGCATG
131 ATGGAGAATAATTAACATGACAACATAGGACAATGAACAAATAATATGCTACAACAACATGCATG
118805248 ACATAACATAAAATGACTAC
196 ACATAACATAAAATGACTAC
118805268 TACTAGATGC
Statistics
Matches: 211, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
238 211 1.00
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.23
Consensus pattern (238 bp):
TAAAACCACGTTTCAAAACTCAAGTGGAAAACGATGACATGGGATAATTGACATATATGAGGTGC
AATCAACTAACAAACTAATAATTAAATATAGATAACCTAAAAATGTAATCCGATTACAATAATGC
ATGGAGAATAATTAACATGACAACATAGGACAATGAACAAATAATATGCTACAACAACATGCATG
ACATAACATAAAATGACTACAACATGGAATAATTAACATAACA
Found at i:118807589 original size:3 final size:3
Alignment explanation
Indices: 118807581--118807606 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
118807571 GGTCATTACA
118807581 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
118807607 GTAAATATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:118825833 original size:31 final size:30
Alignment explanation
Indices: 118825797--118825860 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
118825787 ATTTGAATAA
*
118825797 AAATATTATATCTGAACAATTAACTTAGGAT
1 AAATATTATATCTGAAAAATTAACTTAGG-T
* *
118825828 AAATATTATATTTGAAAAATTAGCTTAGGT
1 AAATATTATATCTGAAAAATTAACTTAGGT
118825858 AAA
1 AAA
118825861 AAATGTCTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (30 bp):
AAATATTATATCTGAAAAATTAACTTAGGT
Found at i:118832569 original size:50 final size:49
Alignment explanation
Indices: 118832411--118832571 Score: 150
Period size: 49 Copynumber: 3.2 Consensus size: 49
118832401 TTATTTTATT
118832411 TTAGAATAAGGTTTTTAAACCTTATTAAACTCCATCTATTTTATATTGA
1 TTAGAATAAGGTTTTTAAACCTTATTAAACTCCATCTATTTTATATTGA
* * * * * * ** *
118832460 TTAGGATAAGGTGTTTCAATCTTACTAAAAT--ATGGCT-TTACA-AGTTTA
1 TTAGAATAAGGTTTTTAAACCTTATTAAACTCCAT--CTATTTTATA-TTGA
118832508 TTTTAGAATAAGGTTTTTTAAACCTTATTAAACTCCATCTATTTTATATTGA
1 --TTAGAATAAGG-TTTTTAAACCTTATTAAACTCCATCTATTTTATATTGA
*
118832560 TTAGGATAAGGT
1 TTAGAATAAGGT
118832572 GTTTCAATCT
Statistics
Matches: 83, Mismatches: 19, Indels: 20
0.68 0.16 0.16
Matches are distributed among these distances:
47 3 0.04
48 6 0.07
49 28 0.34
50 20 0.24
51 17 0.20
52 6 0.07
53 3 0.04
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (49 bp):
TTAGAATAAGGTTTTTAAACCTTATTAAACTCCATCTATTTTATATTGA
Found at i:118832577 original size:100 final size:99
Alignment explanation
Indices: 118832405--118832603 Score: 380
Period size: 100 Copynumber: 2.0 Consensus size: 99
118832395 CTTCTTTTAT
118832405 TTTATTTTAGAATAAGGTTTTTAAACCTTATTAAACTCCATCTATTTTATATTGATTAGGATAAG
1 TTTATTTTAGAATAAGGTTTTTAAACCTTATTAAACTCCATCTATTTTATATTGATTAGGATAAG
118832470 GTGTTTCAATCTTACTAAAATATGGCTTTACAAG
66 GTGTTTCAATCTTACTAAAATATGGCTTTACAAG
118832504 TTTATTTTAGAATAAGGTTTTTTAAACCTTATTAAACTCCATCTATTTTATATTGATTAGGATAA
1 TTTATTTTAGAATAAGG-TTTTTAAACCTTATTAAACTCCATCTATTTTATATTGATTAGGATAA
*
118832569 GGTGTTTCAATCTTACTAGAATATGGCTTTACAAG
65 GGTGTTTCAATCTTACTAAAATATGGCTTTACAAG
118832604 CCTATAAATA
Statistics
Matches: 98, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
99 17 0.17
100 81 0.83
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.44
Consensus pattern (99 bp):
TTTATTTTAGAATAAGGTTTTTAAACCTTATTAAACTCCATCTATTTTATATTGATTAGGATAAG
GTGTTTCAATCTTACTAAAATATGGCTTTACAAG
Found at i:118833271 original size:22 final size:20
Alignment explanation
Indices: 118833232--118833271 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
118833222 ATCTTATATC
*
118833232 ATAAAAAATTAAAATTAATT
1 ATAAAAAAATAAAATTAATT
118833252 ATAAAACAAATAAAAGTTAA
1 ATAAAA-AAATAAAA-TTAA
118833272 AAAATTATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (20 bp):
ATAAAAAAATAAAATTAATT
Found at i:118834743 original size:33 final size:33
Alignment explanation
Indices: 118834701--118834767 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
118834691 ATTTTTATCT
118834701 TAAGTATGAAATTGATCTATTCCATTAATGTAC
1 TAAGTATGAAATTGATCTATTCCATTAATGTAC
118834734 TAAGTATGAAATTGATCTATTCCATTAATGTAC
1 TAAGTATGAAATTGATCTATTCCATTAATGTAC
118834767 T
1 T
118834768 TAGAGTGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (33 bp):
TAAGTATGAAATTGATCTATTCCATTAATGTAC
Found at i:118835927 original size:29 final size:30
Alignment explanation
Indices: 118835860--118835936 Score: 68
Period size: 29 Copynumber: 2.5 Consensus size: 30
118835850 GTAACAAAAT
* **
118835860 AATAACATAAGTGACTAAAATGTAATATTTC
1 AATAA-ATAAGTGACTAAAATGTAATACTGA
* *
118835891 AA-ACATAAGTGACTAAAATGTAA-CCTGA
1 AATAAATAAGTGACTAAAATGTAATACTGA
118835919 AATAAATAAAAGTGACTA
1 AATAAAT--AAGTGACTA
118835937 TTTTTGTAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
28 3 0.08
29 22 0.59
30 1 0.03
31 11 0.30
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.26
Consensus pattern (30 bp):
AATAAATAAGTGACTAAAATGTAATACTGA
Found at i:118839172 original size:20 final size:20
Alignment explanation
Indices: 118839144--118839182 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
118839134 CAGGTTAATA
118839144 TTCCATATGATCATATATTC
1 TTCCATATGATCATATATTC
* * *
118839164 TTCCGTATGTTCATGTATT
1 TTCCATATGATCATATATT
118839183 GGACGCACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.18, G:0.10, T:0.49
Consensus pattern (20 bp):
TTCCATATGATCATATATTC
Found at i:118841410 original size:43 final size:43
Alignment explanation
Indices: 118841349--118841434 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
118841339 AAAAATTACA
118841349 ACTGAAACGTTAGTTAAACGCAAGGCTGTTTGGAAAGCTTTCT
1 ACTGAAACGTTAGTTAAACGCAAGGCTGTTTGGAAAGCTTTCT
118841392 ACTGAAACGTTAGTTAAACGCAAGGCTGTTTGGAAAGCTTTCT
1 ACTGAAACGTTAGTTAAACGCAAGGCTGTTTGGAAAGCTTTCT
118841435 TCAGTGCGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (43 bp):
ACTGAAACGTTAGTTAAACGCAAGGCTGTTTGGAAAGCTTTCT
Found at i:118841705 original size:25 final size:25
Alignment explanation
Indices: 118841677--118841725 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
118841667 AGGTAAGGCC
118841677 CCTTCTCCTTCTTCCGTTCTTCATT
1 CCTTCTCCTTCTTCCGTTCTTCATT
* *
118841702 CCTTTTTCTTCTTCCGTTCTTCAT
1 CCTTCTCCTTCTTCCGTTCTTCAT
118841726 CTTCTCTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.04, C:0.37, G:0.04, T:0.55
Consensus pattern (25 bp):
CCTTCTCCTTCTTCCGTTCTTCATT
Found at i:118841958 original size:8 final size:8
Alignment explanation
Indices: 118841945--118841972 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
118841935 GTCATTAACT
118841945 TGGAATTG
1 TGGAATTG
118841953 TGGAATTG
1 TGGAATTG
118841961 TGGAATTG
1 TGGAATTG
118841969 TGGA
1 TGGA
118841973 TTATGCTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.39, T:0.36
Consensus pattern (8 bp):
TGGAATTG
Found at i:118844664 original size:30 final size:30
Alignment explanation
Indices: 118844628--118844684 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
118844618 TTATATTCAA
* *
118844628 TATTTTTGTAAGCGCAATACACATAAAAGG
1 TATTTTTGTAAGAGCAATACAAATAAAAGG
118844658 TATTTTTGTAAGAGCAATACAAATAAA
1 TATTTTTGTAAGAGCAATACAAATAAA
118844685 TATAATTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.32
Consensus pattern (30 bp):
TATTTTTGTAAGAGCAATACAAATAAAAGG
Found at i:118844736 original size:19 final size:18
Alignment explanation
Indices: 118844694--118844739 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
118844684 ATATAATTGT
*
118844694 AATAATTTTTAATTCTTT
1 AATAATTTTTAATTCTTA
* *
118844712 ATTAATTTTGTAATTGTTA
1 AATAATTTT-TAATTCTTA
118844731 AATAATTTT
1 AATAATTTT
118844740 AAAAACATCG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (18 bp):
AATAATTTTTAATTCTTA
Found at i:118844899 original size:21 final size:21
Alignment explanation
Indices: 118844851--118844902 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
118844841 CACCGCTATT
*
118844851 TCTAATCTCACTGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
118844872 TCCAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
118844893 -CTTAATCTCA
1 TC-TAATCTCA
118844903 TCGCCACCGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.29, C:0.33, G:0.08, T:0.31
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:118860389 original size:15 final size:14
Alignment explanation
Indices: 118860366--118860422 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 14
118860356 TAAATATATT
118860366 TATAA-AAAAGTTAA
1 TATAATAAAAGTT-A
118860380 TATAATAAAAGTTGA
1 TATAATAAAAGTT-A
*
118860395 GATAATAAATA-TTA
1 TATAATAAA-AGTTA
118860409 TGATAATAAAAGTT
1 T-ATAATAAAAGTT
118860423 CAAATCTCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
14 7 0.19
15 28 0.78
16 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (14 bp):
TATAATAAAAGTTA
Found at i:118865503 original size:54 final size:54
Alignment explanation
Indices: 118865441--118865555 Score: 212
Period size: 54 Copynumber: 2.1 Consensus size: 54
118865431 AGAAAAAATC
*
118865441 TCATATTCCACATGTCAAAAAGAACCATCAGTCTAAATTTTTTCTCAATCAAGT
1 TCATATTCCACATGTCAAAAAGAACCATCAGCCTAAATTTTTTCTCAATCAAGT
118865495 TCATATTCCACATGTCAAAAAGAACCATCAGCCTAAATTTTTTCTCAATCAAGT
1 TCATATTCCACATGTCAAAAAGAACCATCAGCCTAAATTTTTTCTCAATCAAGT
*
118865549 ACATATT
1 TCATATT
118865556 GTTTATAGGA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (54 bp):
TCATATTCCACATGTCAAAAAGAACCATCAGCCTAAATTTTTTCTCAATCAAGT
Found at i:118868973 original size:10 final size:10
Alignment explanation
Indices: 118868960--118868990 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
118868950 TTATAGTTTC
*
118868960 ATATATATAT
1 ATATGTATAT
118868970 ATATGTATAT
1 ATATGTATAT
118868980 ATATGTATAT
1 ATATGTATAT
118868990 A
1 A
118868991 CGGATAGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (10 bp):
ATATGTATAT
Found at i:118869930 original size:14 final size:16
Alignment explanation
Indices: 118869911--118869947 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
118869901 CTTTTTATGT
*
118869911 ATTTTTTAT-TTTA-A
1 ATTTTTTATAATTATA
118869925 ATTTTTTATAATTATA
1 ATTTTTTATAATTATA
118869941 ATTTTTT
1 ATTTTTT
118869948 GAATTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 3 0.15
16 8 0.40
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTTTATAATTATA
Found at i:118870257 original size:13 final size:13
Alignment explanation
Indices: 118870239--118870266 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
118870229 CCACTAGCTC
118870239 TAGTTTACCCAAT
1 TAGTTTACCCAAT
118870252 TAGTTTACCCAAT
1 TAGTTTACCCAAT
118870265 TA
1 TA
118870267 ATATCATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.39
Consensus pattern (13 bp):
TAGTTTACCCAAT
Found at i:118872298 original size:28 final size:28
Alignment explanation
Indices: 118872258--118872314 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
118872248 TTCAAAGGTT
118872258 AGTTTAGCAGAATTGATGAATGCTTTAC
1 AGTTTAGCAGAATTGATGAATGCTTTAC
118872286 AGTTTAGCAGAATTGATGAATGCTTTAC
1 AGTTTAGCAGAATTGATGAATGCTTTAC
118872314 A
1 A
118872315 TGCACAAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (28 bp):
AGTTTAGCAGAATTGATGAATGCTTTAC
Found at i:118878350 original size:3 final size:3
Alignment explanation
Indices: 118878342--118878366 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
118878332 TTTCAAACAA
118878342 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
118878367 TACTTGAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:118878470 original size:9 final size:9
Alignment explanation
Indices: 118878431--118878547 Score: 74
Period size: 9 Copynumber: 12.4 Consensus size: 9
118878421 AAAAATTAAA
118878431 TTTTAAATT
1 TTTTAAATT
118878440 TTTCTATATATT
1 TTT-TA-A-ATT
118878452 TTTTAGAATT
1 TTTTA-AATT
118878462 TTTTAAATT
1 TTTTAAATT
**
118878471 TTTTAAAAA
1 TTTTAAATT
**
118878480 AATTAAA-T
1 TTTTAAATT
*
118878488 TTTGAAATT
1 TTTTAAATT
118878497 TTTATAAATAT
1 TTT-TAAAT-T
*
118878508 TTTTGAATT
1 TTTTAAATT
**
118878517 TTAAAAATT
1 TTTTAAATT
* *
118878526 GTTTAAAAT
1 TTTTAAATT
*
118878535 TTTTGAATT
1 TTTTAAATT
118878544 TTTT
1 TTTT
118878548 TTATTTTTTT
Statistics
Matches: 81, Mismatches: 21, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
8 4 0.05
9 45 0.56
10 18 0.22
11 8 0.10
12 6 0.07
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (9 bp):
TTTTAAATT
Found at i:118878544 original size:27 final size:29
Alignment explanation
Indices: 118878492--118878545 Score: 85
Period size: 27 Copynumber: 1.9 Consensus size: 29
118878482 TTAAATTTTG
*
118878492 AAATTTTTATAAATATTTTTGAATTTTAA
1 AAATTGTTATAAATATTTTTGAATTTTAA
118878521 AAATTGTT-TAAA-ATTTTTGAATTTT
1 AAATTGTTATAAATATTTTTGAATTTT
118878546 TTTTATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 13 0.54
28 4 0.17
29 7 0.29
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (29 bp):
AAATTGTTATAAATATTTTTGAATTTTAA
Found at i:118878545 original size:55 final size:56
Alignment explanation
Indices: 118878416--118878533 Score: 168
Period size: 56 Copynumber: 2.1 Consensus size: 56
118878406 AAAATTATTA
* * ** *
118878416 TTTAAAAAAATTAAATTTTAAATTTTTCTATATATTTTTTAGAATTTTTTAAATTT
1 TTTAAAAAAATTAAATTTTAAATTTTTATAAATATTTTTTAGAATTTTAAAAATTG
118878472 TTTAAAAAAATTAAATTTTGAAATTTTTATAAATA-TTTTT-GAATTTTAAAAATTG
1 TTTAAAAAAATTAAATTTT-AAATTTTTATAAATATTTTTTAGAATTTTAAAAATTG
118878527 TTTAAAA
1 TTTAAAA
118878534 TTTTTGAATT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
55 19 0.34
56 24 0.43
57 13 0.23
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (56 bp):
TTTAAAAAAATTAAATTTTAAATTTTTATAAATATTTTTTAGAATTTTAAAAATTG
Found at i:118878717 original size:24 final size:24
Alignment explanation
Indices: 118878690--118878745 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
118878680 CGAACTCGAA
118878690 ACTCGAATCCAGTTATTCGAGTTG
1 ACTCGAATCCAGTTATTCGAGTTG
118878714 ACTCGAATCCAGTTATTCGAGTTG
1 ACTCGAATCCAGTTATTCGAGTTG
118878738 ACTCGAAT
1 ACTCGAAT
118878746 AATTCAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (24 bp):
ACTCGAATCCAGTTATTCGAGTTG
Found at i:118878907 original size:29 final size:30
Alignment explanation
Indices: 118878874--118878933 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
118878864 GTATATTTAG
118878874 AATTTAATTGTTCTA-TTTT-GATTTTCAAA
1 AATTTAATTGTTCTACTTTTAGA-TTTCAAA
* *
118878903 AATTTAGTTTTTCTACTTTTAGATTTCAAA
1 AATTTAATTGTTCTACTTTTAGATTTCAAA
118878933 A
1 A
118878934 TTTTGATTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 13 0.48
30 12 0.44
31 2 0.07
ACGTcount: A:0.32, C:0.08, G:0.07, T:0.53
Consensus pattern (30 bp):
AATTTAATTGTTCTACTTTTAGATTTCAAA
Found at i:118900760 original size:3 final size:3
Alignment explanation
Indices: 118900752--118900797 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
118900742 AATGCTTTTG
* *
118900752 CTT CTT CTT CTT CTG CTT CTT CTT CTT CTT TTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
118900798 ATGATAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:118901190 original size:3 final size:3
Alignment explanation
Indices: 118901182--118901211 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
118901172 AAAGCCTCAA
118901182 AAG AAG AAG AAG AAG AAG AAG AAG AA- AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
118901212 GAGGAGGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:118902826 original size:41 final size:41
Alignment explanation
Indices: 118902759--118903004 Score: 318
Period size: 41 Copynumber: 6.0 Consensus size: 41
118902749 TTGTAAAACA
** *
118902759 CAGAGCAATAGCGGCG-TTTTACTAAAAACGCCGCTAAAAAT
1 CAGAGCAATAGCGGCGCTTTTGGT-AAAACGCCGCTAAAAGT
118902800 -AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
* * *
118902840 CGGAGCAATAGCGGCGTTTTTTGTAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
* * *
118902881 CGGAGCACTAGCGGCGCTTTTTGTAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
* * * *
118902922 CGGAGCATTAGTGGCGCTTTTGGTAAAACGCCAC-AAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
* * *
118902962 CAGAGCATTAGCGGTGCTTTTGATAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
118903003 CA
1 CA
118903005 TATAACCCCT
Statistics
Matches: 185, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
40 66 0.36
41 119 0.64
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (41 bp):
CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
Found at i:118902991 original size:81 final size:81
Alignment explanation
Indices: 118902761--118903003 Score: 321
Period size: 81 Copynumber: 3.0 Consensus size: 81
118902751 GTAAAACACA
** *
118902761 GAGCAATAGCGGCG-TTTTACTAAAAACGCCGCTAAAAAT-AGAGCAATAGCGGCGCTTTTGGTA
1 GAGCAATAGCGGCGCTTTTGGT-AAAACGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTTT-GTA
118902824 AAACGCCGCTAAAAGTCG
64 AAACGCCGCTAAAAGTCG
* * * *
118902842 GAGCAATAGCGGCGTTTTTTGTAAAACGCCGCTAAAAGTCGGAGCACTAGCGGCGCTTTTTGTAA
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCAGAGCAATAGCGGCGC-TTTTGTAA
118902907 AACGCCGCTAAAAGTCG
65 AACGCCGCTAAAAGTCG
* * * * *
118902924 GAGCATTAGTGGCGCTTTTGGTAAAACGCCAC-AAAAGTCAGAGCATTAGCGGTGCTTTTGATAA
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTTTG-TAA
118902988 AACGCCGCTAAAAGTC
65 AACGCCGCTAAAAGTC
118903004 ATATAACCCC
Statistics
Matches: 145, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
80 5 0.03
81 69 0.48
82 67 0.46
83 4 0.03
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (81 bp):
GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTTTGTAAA
ACGCCGCTAAAAGTCG
Found at i:118903072 original size:8 final size:7
Alignment explanation
Indices: 118903051--118903112 Score: 52
Period size: 7 Copynumber: 8.1 Consensus size: 7
118903041 AATCTATAAC
118903051 CCCTAAAA
1 CCCT-AAA
*
118903059 CACTAAA
1 CCCTAAA
118903066 CCTCTAAA
1 CC-CTAAA
*
118903074 CCTTAAAA
1 CCCT-AAA
118903082 CCCTAAA
1 CCCTAAA
*
118903089 CCTTTAAAA
1 CC-CT-AAA
118903098 CCCTAAA
1 CCCTAAA
118903105 CCCTAAA
1 CCCTAAA
118903112 C
1 C
118903113 TATAACTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
7 21 0.48
8 18 0.41
9 5 0.11
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.19
Consensus pattern (7 bp):
CCCTAAA
Found at i:118903072 original size:16 final size:15
Alignment explanation
Indices: 118903063--118903111 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 15
118903053 CTAAAACACT
118903063 AAACCTCTAAACCTTA
1 AAACC-CTAAACCTTA
118903079 AAACCCTAAACCTTTA
1 AAACCCTAAACC-TTA
*
118903095 AAACCCTAAACCCTA
1 AAACCCTAAACCTTA
118903110 AA
1 AA
118903112 CTATAACTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
15 11 0.35
16 20 0.65
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (15 bp):
AAACCCTAAACCTTA
Found at i:118903087 original size:23 final size:23
Alignment explanation
Indices: 118903054--118903141 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 23
118903044 CTATAACCCC
*
118903054 TAAAACACTAAACCTCTAAACCT
1 TAAAACCCTAAACCTCTAAACCT
* *
118903077 TAAAACCCTAAACCTTTAAAACCC
1 TAAAACCCTAAACCTCT-AAACCT
* *
118903101 T-AAACCCTAAA-CTAT-AACTTT
1 TAAAACCCTAAACCTCTAAAC-CT
*
118903122 TAAAACCCTAAACCCCTAAA
1 TAAAACCCTAAACCTCTAAA
118903142 AACATCACAT
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
20 3 0.06
21 1 0.02
22 13 0.25
23 27 0.52
24 8 0.15
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.23
Consensus pattern (23 bp):
TAAAACCCTAAACCTCTAAACCT
Found at i:118903303 original size:15 final size:15
Alignment explanation
Indices: 118903264--118903314 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
118903254 CGGTTTAATA
*
118903264 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* * *
118903278 TCTATGATTTAGGGT
1 TTTATGGTTTAAGGT
118903293 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
118903308 TTAATGG
1 TTTATGG
118903315 CCATGGGTAT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:118910038 original size:14 final size:15
Alignment explanation
Indices: 118910010--118910043 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
118910000 GATTTTGATC
*
118910010 ATTAATTTAATATTA
1 ATTAATTTAAGATTA
118910025 ATTAA-TTAAGATTA
1 ATTAATTTAAGATTA
118910039 ATTAA
1 ATTAA
118910044 ATTGATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
ATTAATTTAAGATTA
Found at i:118923915 original size:43 final size:43
Alignment explanation
Indices: 118923851--118924080 Score: 334
Period size: 43 Copynumber: 5.3 Consensus size: 43
118923841 TTTGATGTAA
* *
118923851 TGGCACTAAGTGTGCGATATAATTATAGCTTAGGCTAATTAAT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
* * * *
118923894 TAGCACTAAGTGTGCGTTATAATTATAGCTTTGGCTAATTAAT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
*
118923937 TGGCACTAAGTGTGCAATACAATTATAGCTTCGGCTAATTAAT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
* *
118923980 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGTTAATTGAT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
* * * *
118924023 TGGCACTAAGTGTGCGAAACCATTATAACTTCGGTTAATTAAT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
*
118924066 TAGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
118924081 AAGTTTGTTG
Statistics
Matches: 171, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 171 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (43 bp):
TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
Found at i:118924312 original size:45 final size:45
Alignment explanation
Indices: 118924248--118924361 Score: 148
Period size: 45 Copynumber: 2.6 Consensus size: 45
118924238 GAGGAAATAT
*
118924248 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATG-TCGGTGAGAT-A
1 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCT-GGTGAAATGA
118924292 CTATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCTGGTGAAATGA
1 -TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCTGGTGAAATGA
*
118924338 TA-TCGGGC-CTCGAGCCTAGCAGGC
1 TATTCGGGCTTTCGAGCCTAGCAGGC
118924362 GAAATACCGG
Statistics
Matches: 64, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
43 15 0.23
44 10 0.16
45 37 0.58
46 2 0.03
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (45 bp):
TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCTGGTGAAATGA
Found at i:118925608 original size:15 final size:16
Alignment explanation
Indices: 118925590--118925638 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
118925580 TAGGGTTTTT
118925590 AAATAAATAA-TACAA
1 AAATAAATAATTACAA
*
118925605 AAAT-AATAATTACTA
1 AAATAAATAATTACAA
118925620 AAATAAGATACATTACAA
1 AAATAA-ATA-ATTACAA
118925638 A
1 A
118925639 TTATTTACGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 5 0.18
15 12 0.43
16 1 0.04
17 3 0.11
18 7 0.25
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.24
Consensus pattern (16 bp):
AAATAAATAATTACAA
Found at i:118927894 original size:5 final size:5
Alignment explanation
Indices: 118927884--118927916 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
118927874 ATAACCCACA
118927884 CATAT CATAT CATAT CATAT CATAT -ATAT -ATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT
118927917 AACCGTTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 8 0.29
5 20 0.71
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (5 bp):
CATAT
Found at i:118934526 original size:14 final size:14
Alignment explanation
Indices: 118934498--118934531 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
118934488 AAAAAATAAC
118934498 ATATATTTATTAAA
1 ATATATTTATTAAA
118934512 ATAT-TTTATTAAAA
1 ATATATTTATT-AAA
118934526 ATATAT
1 ATATAT
118934532 GAAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.33
14 11 0.61
15 1 0.06
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATATTTATTAAA
Found at i:118935211 original size:17 final size:17
Alignment explanation
Indices: 118935191--118935237 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
118935181 TCGAACTTAA
*
118935191 TTAATATTTTAAATAAT
1 TTAATATTTTAAATAAC
*
118935208 TTAATTTTTTATAA-AAC
1 TTAATATTTTA-AATAAC
118935225 TT-ATATTTTAAAT
1 TTAATATTTTAAAT
118935238 GTACAACCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 2 0.08
16 7 0.28
17 14 0.56
18 2 0.08
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAATATTTTAAATAAC
Found at i:118937958 original size:14 final size:14
Alignment explanation
Indices: 118937939--118937967 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
118937929 TGATGGCTCA
118937939 ATCATAATGTAAAT
1 ATCATAATGTAAAT
118937953 ATCATAATGTAAAT
1 ATCATAATGTAAAT
118937967 A
1 A
118937968 GTAGTTACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (14 bp):
ATCATAATGTAAAT
Found at i:118938599 original size:31 final size:32
Alignment explanation
Indices: 118938547--118938613 Score: 109
Period size: 31 Copynumber: 2.1 Consensus size: 32
118938537 TTTGAGGTGC
* *
118938547 ATTTTTATTTTTATCATGTTTTAATTGTTTTT
1 ATTTTTATTGTTATCACGTTTTAATTGTTTTT
118938579 ATTTTTA-TGTTATCACGTTTTAATTGTTTTT
1 ATTTTTATTGTTATCACGTTTTAATTGTTTTT
118938610 ATTT
1 ATTT
118938614 ATTCTATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
31 26 0.79
32 7 0.21
ACGTcount: A:0.19, C:0.04, G:0.07, T:0.69
Consensus pattern (32 bp):
ATTTTTATTGTTATCACGTTTTAATTGTTTTT
Found at i:118962140 original size:2 final size:2
Alignment explanation
Indices: 118962129--118962165 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
118962119 CCATACAACT
118962129 GA GA -A GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
118962166 ACTCAAGTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:118981073 original size:12 final size:12
Alignment explanation
Indices: 118981052--118981081 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
118981042 ATTTAATTAA
118981052 ATAAAAATAAAC
1 ATAAAAATAAAC
*
118981064 ATAAACATAAAC
1 ATAAAAATAAAC
118981076 ATAAAA
1 ATAAAA
118981082 GACTTTACCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (12 bp):
ATAAAAATAAAC
Found at i:118982665 original size:25 final size:25
Alignment explanation
Indices: 118982637--118982688 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
118982627 CTATTAATAT
118982637 TTATATTAATATCAAA-TAAATAAAA
1 TTATATTAATATCAAATTAAA-AAAA
* *
118982662 TTATATTCATATTAAATTAAAAAAA
1 TTATATTAATATCAAATTAAAAAAA
118982687 TT
1 TT
118982689 CCCTCCATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (25 bp):
TTATATTAATATCAAATTAAAAAAA
Found at i:118983762 original size:8 final size:8
Alignment explanation
Indices: 118983749--118983788 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
118983739 AGTTGTTCCC
118983749 TTTTTCTT
1 TTTTTCTT
118983757 TTTTTCTT
1 TTTTTCTT
118983765 TTTTTC-T
1 TTTTTCTT
118983772 TTTTTCTT
1 TTTTTCTT
*
118983780 TCTTTCTT
1 TTTTTCTT
118983788 T
1 T
118983789 CTTCATTCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 7 0.23
8 23 0.77
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTCTT
Done.