Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009463.1 Hibiscus syriacus cultivar Beakdansim tig00113726_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: 3931635
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 20
Found at i:514855 original size:12 final size:12
Alignment explanation
Indices: 514783--514856 Score: 53
Period size: 12 Copynumber: 6.1 Consensus size: 12
514773 AAATATAAGT
*
514783 TATATATATATA
1 TATATATATATG
*
514795 TATATACATGCATG
1 TATATATAT--ATG
* *
514809 TATATACACATG
1 TATATATATATG
* *
514821 TAT-GATGTATG
1 TATATATATATG
514832 TATATACT-TATG
1 TATATA-TATATG
514844 TATATATATATG
1 TATATATATATG
514856 T
1 T
514857 TATTCACATA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
11 8 0.16
12 30 0.61
13 1 0.02
14 10 0.20
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.45
Consensus pattern (12 bp):
TATATATATATG
Found at i:514965 original size:2 final size:2
Alignment explanation
Indices: 514960--515033 Score: 50
Period size: 2 Copynumber: 38.5 Consensus size: 2
514950 ATAAAAAAAA
**
514960 AT AT AT AT GC AT AT AT AT AT AT -T A- AT AT -T 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
** *
514999 AT AT ACT -T AT GC AT AT GT AT ACT -T AT AT AT AT AT A
1 AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT AT A
515034 AACATGCCCG
Statistics
Matches: 55, Mismatches: 10, Indels: 14
0.70 0.13 0.18
Matches are distributed among these distances:
1 5 0.09
2 48 0.87
3 2 0.04
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:515807 original size:14 final size:13
Alignment explanation
Indices: 515790--515838 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
515780 TTAATGAAAT
515790 TAATATAATGATTA
1 TAAT-TAATGATTA
515804 TAATTAA-GATTTA
1 TAATTAATGA-TTA
*
515817 TAATATAAGGATTA
1 TAAT-TAATGATTA
515831 TAATTAAT
1 TAATTAAT
515839 ATAGAAAGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 2 0.06
13 13 0.42
14 14 0.45
15 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (13 bp):
TAATTAATGATTA
Found at i:515810 original size:27 final size:28
Alignment explanation
Indices: 515780--515838 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
515770 AATAAATTAT
*
515780 TTAATGAAAT-TAATATAATGATTATAA
1 TTAATGAAATATAATATAAGGATTATAA
**
515807 TTAA-GATTTATAATATAAGGATTATAA
1 TTAATGAAATATAATATAAGGATTATAA
515834 TTAAT
1 TTAAT
515839 ATAGAAAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.42
Consensus pattern (28 bp):
TTAATGAAATATAATATAAGGATTATAA
Found at i:515819 original size:13 final size:13
Alignment explanation
Indices: 515799--515837 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
515789 TTAATATAAT
515799 GATTATAATTAA-
1 GATTATAATTAAG
515811 GATTTATAATATAAG
1 GA-TTATAAT-TAAG
515826 GATTATAATTAA
1 GATTATAATTAA
515838 TATAGAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.08
13 10 0.42
14 10 0.42
15 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (13 bp):
GATTATAATTAAG
Found at i:516077 original size:16 final size:16
Alignment explanation
Indices: 516058--516092 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
516048 TGAGTCAATT
*
516058 ACATGTCAAGTTGATA
1 ACATGTCAAGTTCATA
*
516074 ACATGTCAGGTTCATA
1 ACATGTCAAGTTCATA
516090 ACA
1 ACA
516093 GGTTGGGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (16 bp):
ACATGTCAAGTTCATA
Found at i:521485 original size:17 final size:18
Alignment explanation
Indices: 521463--521501 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
521453 ATCTCTTAAT
*
521463 TTTTTATGAT-TTAATTA
1 TTTTTAAGATCTTAATTA
*
521480 TTTTTAAGATCTTATTTA
1 TTTTTAAGATCTTAATTA
521498 TTTT
1 TTTT
521502 AAAATTAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTTTAAGATCTTAATTA
Found at i:523857 original size:43 final size:43
Alignment explanation
Indices: 523796--523881 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
523786 CTACTTTTAT
523796 ATATATATATATATATTGTTCCCTTATACTCTTTTAGATCATG
1 ATATATATATATATATTGTTCCCTTATACTCTTTTAGATCATG
523839 ATATATATATATATATTGTTCCCTTATACTCTTTTAGATCATG
1 ATATATATATATATATTGTTCCCTTATACTCTTTTAGATCATG
523882 GGTTCTAGAC
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:0.14, G:0.07, T:0.49
Consensus pattern (43 bp):
ATATATATATATATATTGTTCCCTTATACTCTTTTAGATCATG
Found at i:527157 original size:19 final size:17
Alignment explanation
Indices: 527126--527163 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
527116 TTTATTTAAT
527126 TATATAATATAATATAA
1 TATATAATATAATATAA
527143 TATATAATTATTAATATAA
1 TATATAA-TA-TAATATAA
527162 TA
1 TA
527164 CGAATATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 2 0.11
19 10 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TATATAATATAATATAA
Found at i:527914 original size:17 final size:17
Alignment explanation
Indices: 527896--527929 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
527886 TTTATAATAA
527896 TTAATATTATTTTAGAAT
1 TTAAT-TTATTTTAGAAT
*
527914 TTAATTTTTTTTAGAA
1 TTAATTTATTTTAGAA
527930 AAAAAAGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TTAATTTATTTTAGAAT
Found at i:533988 original size:3 final size:3
Alignment explanation
Indices: 533980--534020 Score: 57
Period size: 3 Copynumber: 13.3 Consensus size: 3
533970 TTTCTATTTA
533980 ATT ATT ATT ATT ATT ATT ATGT -TT ATT AATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT -ATT ATT ATT ATT A
534021 ATACAATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 1 0.03
3 30 0.86
4 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:534345 original size:20 final size:20
Alignment explanation
Indices: 534320--534369 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
534310 CGCCGTCGAC
534320 CCCAAGCCGCACCATTGAGT
1 CCCAAGCCGCACCATTGAGT
* * *
534340 CCCAAGCCGCGCCGTTGATT
1 CCCAAGCCGCACCATTGAGT
534360 CCCAAGCCGC
1 CCCAAGCCGC
534370 CGACGAACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.20, C:0.44, G:0.22, T:0.14
Consensus pattern (20 bp):
CCCAAGCCGCACCATTGAGT
Found at i:537619 original size:30 final size:30
Alignment explanation
Indices: 537585--537646 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
537575 ATCTTATTTG
* *
537585 TACTAACTCGTTTTTCTC-TTGTGTTTGTGT
1 TACTAACTCATTTTTCTCATT-TGATTGTGT
537615 TACTAACTCATTTTTCTCATTTGATTGTGT
1 TACTAACTCATTTTTCTCATTTGATTGTGT
537645 TA
1 TA
537647 TTTTTCATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.93
31 2 0.07
ACGTcount: A:0.16, C:0.16, G:0.13, T:0.55
Consensus pattern (30 bp):
TACTAACTCATTTTTCTCATTTGATTGTGT
Found at i:540781 original size:17 final size:18
Alignment explanation
Indices: 540715--540799 Score: 57
Period size: 16 Copynumber: 4.6 Consensus size: 18
540705 CAAAGTGAAG
*
540715 AGAACAAAAAAAGAGAGAAA
1 AGAACAAAAAAA-A-AGCAA
* *
540735 ATAAGCAAAGAAAAAAACAA
1 AGAA-CAAA-AAAAAAGCAA
**
540755 AGGGCAAAAAAAAAAGCAA
1 AGAAC-AAAAAAAAAGCAA
*
540774 A-AAC-AAAAAAGAGCAA
1 AGAACAAAAAAAAAGCAA
540790 AGAACAAAAA
1 AGAACAAAAA
540800 GATGACAAAG
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
16 12 0.24
17 3 0.06
18 5 0.10
19 11 0.22
20 10 0.20
21 5 0.10
22 4 0.08
ACGTcount: A:0.74, C:0.09, G:0.15, T:0.01
Consensus pattern (18 bp):
AGAACAAAAAAAAAGCAA
Found at i:540810 original size:18 final size:17
Alignment explanation
Indices: 540762--540799 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
540752 CAAAGGGCAA
*
540762 AAAAAAAAGCAAA-AAC
1 AAAAAAGAGCAAAGAAC
540778 AAAAAAGAGCAAAGAAC
1 AAAAAAGAGCAAAGAAC
540795 AAAAA
1 AAAAA
540800 GATGACAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.79, C:0.11, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAAGAGCAAAGAAC
Found at i:542003 original size:16 final size:16
Alignment explanation
Indices: 541970--542009 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
541960 ATTGAGAAAA
*
541970 ACATACATCAATACAT
1 ACATACATCAACACAT
* *
541986 ACATGCATCAACATAT
1 ACATACATCAACACAT
542002 ACATACAT
1 ACATACAT
542010 GTTACATGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (16 bp):
ACATACATCAACACAT
Found at i:542540 original size:36 final size:36
Alignment explanation
Indices: 542510--542622 Score: 142
Period size: 36 Copynumber: 3.1 Consensus size: 36
542500 CTTGAGATCG
*
542510 TTTTCTCAAAAACAACCTTTGTCTCGCTTGAGACAAT
1 TTTTC-CAAAAACAAACTTTGTCTCGCTTGAGACAAT
*
542547 TTTTCCAAAAACAAATTTTGTCTCGCTTGAGACAAT
1 TTTTCCAAAAACAAACTTTGTCTCGCTTGAGACAAT
* *
542583 TTCTCTC-AAAATAAA-TTTCGTCTCGCTTGAGAC-AT
1 TTTTC-CAAAAACAAACTTT-GTCTCGCTTGAGACAAT
542618 TTTTC
1 TTTTC
542623 TCTGAGATAC
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
35 9 0.13
36 54 0.78
37 6 0.09
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (36 bp):
TTTTCCAAAAACAAACTTTGTCTCGCTTGAGACAAT
Found at i:543250 original size:29 final size:29
Alignment explanation
Indices: 543192--543252 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
543182 ATTTTTGTAA
*
543192 AAAAATCTTTGAGTCATTTCTTTAAGAAC
1 AAAAATCTTTGAGTCATTTCTTGAAGAAC
543221 AAAAATCTTTGAGTCATTTCTCTGAA-AAC
1 AAAAATCTTTGAGTCATTTCT-TGAAGAAC
543250 AAA
1 AAA
543253 TTTTGTCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 27 0.90
30 3 0.10
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (29 bp):
AAAAATCTTTGAGTCATTTCTTGAAGAAC
Found at i:543436 original size:31 final size:31
Alignment explanation
Indices: 543401--543461 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
543391 CCTTGAGGAA
543401 GTTTCTCTAAAAATACAAA-ATCTTTGAGTTT
1 GTTTCTCTAAAAATA-AAACATCTTTGAGTTT
**
543432 GTTTCTCTTGAAATAAAACCATCTTTGAGT
1 GTTTCTCTAAAAATAAAA-CATCTTTGAGT
543462 CGTTTCCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 3 0.12
31 13 0.50
32 10 0.38
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (31 bp):
GTTTCTCTAAAAATAAAACATCTTTGAGTTT
Found at i:543437 original size:67 final size:65
Alignment explanation
Indices: 543246--543449 Score: 166
Period size: 67 Copynumber: 3.1 Consensus size: 65
543236 ATTTCTCTGA
* * * ** *
543246 AAAC-AAATTTTGTCGCTTGAGACAATTTCTGTGTAAAA-AAAATATTTGAGTTTGTTTCTTTTG
1 AAACAAAATTTTGTCTCTCGAGACAATTTCTCTAAAAAACAAAATCTTTGAGTTTGTTTCTTTTG
* ** * * **
543309 AAACAAAATTTTGTCTCTCGAGACAATTTCTTTTGAAAACACATATCTTTGAGATCATTTCTATT
1 AAACAAAATTTTGTCTCTCGAGACAATTTCTCTAAAAAACA-AAATCTTTGAGTTTGTTTCT-TT
543374 T-
64 TG
* *
543375 AAAC-AAATTTTGTCTCCCTTGAGGA-AGTTTCTCTAAAAATACAAAATCTTTGAGTTTGTTTCT
1 AAACAAAATTTTGTCT--CTCGA-GACAATTTCTCTAAAAA-ACAAAATCTTTGAGTTTGTTTCT
*
543438 CTTG
62 TTTG
*
543442 AAATAAAA
1 AAACAAAA
543450 CCATCTTTGA
Statistics
Matches: 110, Mismatches: 21, Indels: 15
0.75 0.14 0.10
Matches are distributed among these distances:
63 4 0.04
64 29 0.26
65 12 0.11
66 21 0.19
67 36 0.33
68 8 0.07
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (65 bp):
AAACAAAATTTTGTCTCTCGAGACAATTTCTCTAAAAAACAAAATCTTTGAGTTTGTTTCTTTTG
Found at i:543681 original size:38 final size:39
Alignment explanation
Indices: 543593--543681 Score: 94
Period size: 39 Copynumber: 2.3 Consensus size: 39
543583 TTTGAATTTG
* *
543593 TTTC-TTTGAAAACAAAATTTTGTCTCACTTAGATACAA
1 TTTCTTTTAAAAACAAAATTTTGTCTCACTTAGAGACAA
** * *
543631 TTT-TCTGAAAAAACAAAGTTTTGTCTCTCTT-GAGACAA
1 TTTCT-TTTAAAAACAAAATTTTGTCTCACTTAGAGACAA
543669 TTTCTTTTAAAAA
1 TTTCTTTTAAAAA
543682 ATCATTGAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
38 18 0.45
39 22 0.55
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (39 bp):
TTTCTTTTAAAAACAAAATTTTGTCTCACTTAGAGACAA
Found at i:543796 original size:36 final size:32
Alignment explanation
Indices: 543748--543867 Score: 100
Period size: 36 Copynumber: 3.5 Consensus size: 32
543738 AAGAAAAATT
*
543748 TTTGAGTCTGTTTCTTTAGAAACAAAATTTACCATC
1 TTTGAGTTTGTTTCTTT-GAAACAAAA---ACCATC
*
543784 TTTGAGTTTGTTTCCCTTGAAACAAAACAACCAAAATC
1 TTTGAGTTTGTTT-CTTTGAAAC-AAA-AACC---ATC
*
543822 TTTGAGTATGTTT-TCTTGAAACAAAAA-CATC
1 TTTGAGTTTGTTTCT-TTGAAACAAAAACCATC
543853 TTTGAGTTTGTTTCT
1 TTTGAGTTTGTTTCT
543868 CTCGCTGATC
Statistics
Matches: 71, Mismatches: 5, Indels: 20
0.74 0.05 0.21
Matches are distributed among these distances:
31 15 0.21
32 1 0.01
34 1 0.01
35 5 0.07
36 20 0.28
37 13 0.18
38 16 0.23
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (32 bp):
TTTGAGTTTGTTTCTTTGAAACAAAAACCATC
Found at i:544041 original size:28 final size:28
Alignment explanation
Indices: 544009--544087 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
543999 ACATATTACG
544009 TTTGAGTTTGTTTTTCTTGAAACAAATC
1 TTTGAGTTTGTTTTTCTTGAAACAAATC
* *
544037 TTTGAGTCTGTTTCTT-TTGAAATAAATC
1 TTTGAGTTTGTTT-TTCTTGAAACAAATC
* **
544065 TTTGAGTTGGTTTCCCTTGAAAC
1 TTTGAGTTTGTTTTTCTTGAAAC
544088 CATAATTACT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
28 40 0.95
29 2 0.05
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.48
Consensus pattern (28 bp):
TTTGAGTTTGTTTTTCTTGAAACAAATC
Found at i:544336 original size:134 final size:134
Alignment explanation
Indices: 544116--544437 Score: 441
Period size: 134 Copynumber: 2.4 Consensus size: 134
544106 CCAGCCATCC
* * * * *
544116 TCATCACGTAGGAACCGTGTCATCCCCTGACCAGACCTCTTCATCATGTAGGAGCCCCGTCACCC
1 TCATCACGTATG-AGCGTGTCATCCCCTGACCAGATCTCTTCATCACGTAGGAGCCACGTCACCC
*
544181 CTAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAGGT-GACC-AG
65 CTAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAGATAG-CCAAG
544244 AACTCT
129 AACTCT
* * * * *
544250 TCATCACGTATGAGTCGTGTCATCCCCCGACTAGATCTCTTCATCGCGTAGGATCCATGTCACCC
1 TCATCACGTATGAG-CGTGTCATCCCCTGACCAGATCTCTTCATCACGTAGGAGCCACGTCACCC
* * *
544315 CTAGATAACCAGTCGTCCTCATCACGTAGGAACCGAGTTATCACTCTTCTTAAAGATAGCCAAGA
65 CTAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAGATAGCCAAGA
544380 ACTCT
130 ACTCT
* * *
544385 TCATCACGTATGAGCTGTGTCATCCTCTGACCAGATTTCCTCATCACGTAGGA
1 TCATCACGTATGAGC-GTGTCATCCCCTGACCAGATCTCTTCATCACGTAGGA
544438 ACCGTGCCAC
Statistics
Matches: 164, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
133 1 0.01
134 109 0.66
135 54 0.33
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (134 bp):
TCATCACGTATGAGCGTGTCATCCCCTGACCAGATCTCTTCATCACGTAGGAGCCACGTCACCCC
TAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAGATAGCCAAGAA
CTCT
Found at i:544472 original size:135 final size:134
Alignment explanation
Indices: 544116--544477 Score: 388
Period size: 134 Copynumber: 2.7 Consensus size: 134
544106 CCAGCCATCC
* ** * * * * * ** *
544116 TCATCACGTAGGAACCGTGTCATCCCCTGACCAGACCTCTTCATCATGTAGGAGCCCCGTCACCC
1 TCATCACGTATGAGTCGTGTCATCCCCCGACCAGATCTCCTCATCACGTAGGAACCATGCCACCC
* * *
544181 CTAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAGGTGACCAGAA
66 CTAGACAACCAGACGTCCTCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAGATGACCAGAA
544246 CTCT
131 CTCT
* * * * *
544250 TCATCACGTATGAGTCGTGTCATCCCCCGACTAGATCTCTTCATCGCGTAGGATCCATGTCACCC
1 TCATCACGTATGAGTCGTGTCATCCCCCGACCAGATCTCCTCATCACGTAGGAACCATGCCACCC
* * * *
544315 CTAGATAACCAGTCGTCCTCATCACGTAGGAACCGAGTTATCACTCTTCTTAAAGAT-AGCCAAG
66 CTAGACAACCAGACGTCCTCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAGATGA-CC-AG
544379 AACTCT
129 AACTCT
* * * *
544385 TCATCACGTATGAG-CTGTGTCATCCTCTGACCAGATTTCCTCATCACGTAGGAACCGTGCCACC
1 TCATCACGTATGAGTC-GTGTCATCCCCCGACCAGATCTCCTCATCACGTAGGAACCATGCCACC
* * * *
544449 CTTAGACGACCCGAAC-TCTTCATCACGTA
65 CCTAGACAACCAG-ACGTCCTCATCACGTA
544478 TAAGCAGTGT
Statistics
Matches: 194, Mismatches: 30, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
133 1 0.01
134 110 0.57
135 82 0.42
136 1 0.01
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (134 bp):
TCATCACGTATGAGTCGTGTCATCCCCCGACCAGATCTCCTCATCACGTAGGAACCATGCCACCC
CTAGACAACCAGACGTCCTCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAGATGACCAGAA
CTCT
Found at i:548241 original size:11 final size:12
Alignment explanation
Indices: 548212--548246 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
548202 TTTGGTGCTG
548212 GAAACAAGATAA
1 GAAACAAGATAA
*
548224 GAAACAAGATTA
1 GAAACAAGATAA
548236 -AAACAAGATAA
1 GAAACAAGATAA
548247 TTAAAAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.66, C:0.09, G:0.14, T:0.11
Consensus pattern (12 bp):
GAAACAAGATAA
Found at i:554195 original size:18 final size:18
Alignment explanation
Indices: 554174--554212 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
554164 TGTTTTGAAA
554174 TTTTGGCTTTTTAGTTTT
1 TTTTGGCTTTTTAGTTTT
* * *
554192 TTTTTGTTTTTTTGTTTT
1 TTTTGGCTTTTTAGTTTT
554210 TTT
1 TTT
554213 AAAATAGCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.03, C:0.03, G:0.13, T:0.82
Consensus pattern (18 bp):
TTTTGGCTTTTTAGTTTT
Found at i:560129 original size:29 final size:27
Alignment explanation
Indices: 560080--560135 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
560070 TGTATACAAT
560080 CATATAGAAAAAAAAAACAGAAAATAA
1 CATATAGAAAAAAAAAACAGAAAATAA
*
560107 CATATA-AAATAAAATATAACAGAATATAA
1 CATATAGAAA-AAAA-A-AACAGAAAATAA
560136 AAAACAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 3 0.12
27 10 0.40
28 1 0.04
29 11 0.44
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.18
Consensus pattern (27 bp):
CATATAGAAAAAAAAAACAGAAAATAA
Found at i:560464 original size:24 final size:26
Alignment explanation
Indices: 560437--560494 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
560427 ATAGAAAATG
560437 AAAAGAAAT--AAAA-AAAATAATAAA
1 AAAAGAAATACAAAACAAAAT-ATAAA
*
560461 AAAACAAATACAAAACAAAATATAAA
1 AAAAGAAATACAAAACAAAATATAAA
*
560487 AATAGAAA
1 AAAAGAAA
560495 ATTTAAACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 8 0.29
26 15 0.54
27 5 0.18
ACGTcount: A:0.79, C:0.05, G:0.03, T:0.12
Consensus pattern (26 bp):
AAAAGAAATACAAAACAAAATATAAA
Found at i:560800 original size:6 final size:6
Alignment explanation
Indices: 560789--560834 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
560779 TTACATAACA
560789 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAG
1 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAG
560835 AGTCTCGAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
GAAGGG
Found at i:561099 original size:164 final size:162
Alignment explanation
Indices: 560920--561408 Score: 628
Period size: 164 Copynumber: 3.0 Consensus size: 162
560910 GGGAAACTGA
* * * *
560920 AGAAGGGGAAGAGGAAGAGTCTCAGTTGAAGAAGAGG-AAGGTGGATGAATAATAGGATTT-AGA
1 AGAAGGGGAAGAGGAAGAGTCTCAGTTGAAGAAGGGGAAAGG-GGATGAATAGTGGGATTTGGGA
* * *
560983 TTTAGGGTTACGAGAATAAGATGAGCAATGCTTCGGTTTGGGGGGTTTAGATCTTGAAAAATAGA
65 TTTAGGGTTA-GGGAA-AAGATGAACAATGCTTCGATTTGGGGGGTTTAGATCTTGAAAAATAGA
*
561048 TTGGGGAAAAGTACTTCGAGTTTGTAAGGTTTAAAC
128 TTGGGGAAAAGTA-TTCGAGTTTGTAAGGATTAAAC
* * *
561084 AGAAGGGGAAGAGGAAAAGTCTCGGTTGAAGAAGGGGAAAGAGGGATAAATAGTGGGATTTGGGA
1 AGAAGGGGAAGAGGAAGAGTCTCAGTTGAAGAAGGGGAAAG-GGGATGAATAGTGGGATTTGGGA
561149 TTTAGGGTTAGGGAAAAAGATGAACAATGCTTCGATTTGGGGGG-TTAGATCTTGAAAAATAGAT
65 TTTAGGGTTAGGG-AAAAGATGAACAATGCTTCGATTTGGGGGGTTTAGATCTTGAAAAATAGAT
** * *
561213 TGGGGAAAAGTATTTTACGTTTATAAGGATCAAAC
129 TGGGGAAAAGTATTCGA-GTTTGTAAGGATTAAAC
* * *
561248 ATAAGGGGAAGAGGAAGAGTATCAGTTGAAGAAGGGGAAAGGGGATGAATAGTGGGGTTTGGGAT
1 AGAAGGGGAAGAGGAAGAGTCTCAGTTGAAGAAGGGGAAAGGGGATGAATAGTGGGATTTGGGAT
* * * * * *
561313 TTAGGGTTAGGGAAAAAATGAATAGTGCTTCGAATT-GGGGGTTT-GATCTTAAAAAATAGATCG
66 TTAGGGTTAGGGAAAAGATGAACAATGCTTCGATTTGGGGGGTTTAGATCTTGAAAAATAGATTG
* * *
561376 AGGAAAAGTATTTGGTGTTTGTAAGGATTAAAC
131 GGGAAAAGTA-TTCGAGTTTGTAAGGATTAAAC
561409 GAGGAACAAG
Statistics
Matches: 285, Mismatches: 33, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
161 46 0.16
162 24 0.08
163 37 0.13
164 117 0.41
165 46 0.16
166 15 0.05
ACGTcount: A:0.36, C:0.05, G:0.34, T:0.26
Consensus pattern (162 bp):
AGAAGGGGAAGAGGAAGAGTCTCAGTTGAAGAAGGGGAAAGGGGATGAATAGTGGGATTTGGGAT
TTAGGGTTAGGGAAAAGATGAACAATGCTTCGATTTGGGGGGTTTAGATCTTGAAAAATAGATTG
GGGAAAAGTATTCGAGTTTGTAAGGATTAAAC
Found at i:561996 original size:28 final size:28
Alignment explanation
Indices: 561964--562018 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
561954 GAATATTGTA
561964 ATTTAT-TA-CTTAATACTTATATTTAATT
1 ATTTATATAGCTTAATA-TTAT-TTTAATT
*
561992 ATTTATATAGTTTAATATTATTTTAAT
1 ATTTATATAGCTTAATATTATTTTAAT
562019 ACATTATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 12 0.50
29 6 0.25
30 6 0.25
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (28 bp):
ATTTATATAGCTTAATATTATTTTAATT
Found at i:562091 original size:4 final size:4
Alignment explanation
Indices: 562082--564496 Score: 3980
Period size: 4 Copynumber: 606.8 Consensus size: 4
562072 TATTAGTTCA
* * * * * * * *
562082 ATAC ATAC ATGC ATAC ATGC ATAC ATGC ATGC ATGC ATGC ACAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * * * * * *
562130 ATGC ATGC ATGC ACAC ATGC ATGC ATGC ATGC ACAC ATGC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
562178 ATGC ACAC ATGC ATAC ATGC ATGC ATAC ATAC ATGC ATGC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
562226 ATAC ATGC ATAC ATAC ATAC ATAC ATAT ATTC ATAC ATAT ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
562274 ATAT ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATAT ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
562322 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
562370 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
562418 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
562466 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATATGT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA--C
* * *
562516 ATAT ATAC ATAT ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
562564 ATAC ATAC ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
562612 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
562660 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
562708 ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
562755 ATGC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
562801 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
562849 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
562897 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
562945 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
562993 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
563041 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
563089 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
563135 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
563181 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
563229 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
563277 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
563325 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
563373 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
563421 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
563469 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
563517 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
563565 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
563613 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
563661 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
563708 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
563756 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
563804 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
563852 ATAC ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
563899 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
563947 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
563995 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
564043 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
564091 ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
564138 ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC --AC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
** *
564182 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATGT ATAT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
** * * *
564228 ATGT ATAC ATAT ATAC ATAC ATAC ATGC ATAC ATAC ATAT ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
564276 ATTC ATAC ATAT ATAT ATGC ATTAC ATAC ATAC ATAC ATAT ATAC ATAT
1 ATAC ATAC ATAC ATAC ATAC A-TAC ATAC ATAC ATAC ATAC ATAC ATAC
** * * * * * *
564325 ATAC ACGC ATAC ATGC ATAT ATGC ACAC ATAC ATAC ATAC ATGC ATAT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * ** *
564373 ATAC ATAC ATGC ATAC ATGC ATAC ATAT ATAC ATAC ATTT ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
564421 ATAC ATAC ATGC ATCC ATAC ATGC ATCC ATAC ATGC ATAC ATGC ATTAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A-TAC
* * *
564470 AAAC ATAC ATGC ATAC ATGC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
564497 TATGCATGCA
Statistics
Matches: 2269, Mismatches: 122, Indels: 40
0.93 0.05 0.02
Matches are distributed among these distances:
2 12 0.01
3 12 0.01
4 2236 0.99
5 6 0.00
6 3 0.00
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:564524 original size:24 final size:24
Alignment explanation
Indices: 564497--564571 Score: 114
Period size: 24 Copynumber: 3.1 Consensus size: 24
564487 TGCATACATA
* *
564497 TATGCATGCATGTATGTATATATG
1 TATGCATGTATGCATGTATATATG
564521 TATGCATGTATGCATGTATATATG
1 TATGCATGTATGCATGTATATATG
* *
564545 TATGTATGTATGCATGTATGTATG
1 TATGCATGTATGCATGTATATATG
564569 TAT
1 TAT
564572 ATATTTAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (24 bp):
TATGCATGTATGCATGTATATATG
Found at i:564550 original size:4 final size:4
Alignment explanation
Indices: 564506--564571 Score: 87
Period size: 4 Copynumber: 16.5 Consensus size: 4
564496 ATATGCATGC
* * * *
564506 ATGT ATGT ATAT ATGT ATGC ATGT ATGC ATGT ATAT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
564554 ATGC ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT AT
564572 ATATTTAATT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (4 bp):
ATGT
Found at i:570913 original size:19 final size:19
Alignment explanation
Indices: 570889--570926 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
570879 TAATATGGGT
570889 AGAAAAATGGTGATTACAC
1 AGAAAAATGGTGATTACAC
**
570908 AGAAAAATTTTGATTACAC
1 AGAAAAATGGTGATTACAC
570927 CAGTAGACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (19 bp):
AGAAAAATGGTGATTACAC
Found at i:571097 original size:13 final size:13
Alignment explanation
Indices: 571081--571106 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
571071 ATACTTATGC
571081 CCAATAGTCTCAT
1 CCAATAGTCTCAT
571094 CCAATAGTCTCAT
1 CCAATAGTCTCAT
571107 TGAAGTAGCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (13 bp):
CCAATAGTCTCAT
Found at i:573425 original size:33 final size:33
Alignment explanation
Indices: 573385--573455 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
573375 AATTTACTTA
573385 CAAGATCTCACTTTACAAACATATCAAAATTTT
1 CAAGATCTCACTTTACAAACATATCAAAATTTT
573418 CAAGATCTCACTTTACAAACATATCAAAATTTT
1 CAAGATCTCACTTTACAAACATATCAAAATTTT
573451 CAAGA
1 CAAGA
573456 AATAAAATTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.44, C:0.21, G:0.04, T:0.31
Consensus pattern (33 bp):
CAAGATCTCACTTTACAAACATATCAAAATTTT
Found at i:573520 original size:61 final size:59
Alignment explanation
Indices: 573455--573662 Score: 158
Period size: 61 Copynumber: 3.5 Consensus size: 59
573445 AATTTTCAAG
*
573455 AAATAAAATTCAATGATTTATTT-TTTTTCTTACAAAATAGAATCATACTTGATTCTTAAGA
1 AAAT-AAATTCAATGATCTATTTCTTTTT-TT-CAAAATAGAATCATACTTGATTCTTAAGA
* *
573516 AAATAAATTCAATGATCTATTTCACTTTTTTTCAAAGTAGAATCTTACTTGATT-TTCAAGA
1 AAATAAATTCAATGATCTATTT--CTTTTTTTCAAAATAGAATCATACTTGATTCTT-AAGA
* * ** * * * * * **
573577 GAACAAATTCAACAAT-TCATTTC-CTTTTACAAAATATATTCATA-TAAGATT-TCGAGAA
1 AAATAAATTCAATGATCT-ATTTCTTTTTTTCAAAATAGAATCATACT-TGATTCTTAAG-A
*
573635 AAATAAATTCAATGATTTATTTCTTTTT
1 AAATAAATTCAATGATCTATTTCTTTTT
573663 ATAGTATAGA
Statistics
Matches: 117, Mismatches: 21, Indels: 20
0.74 0.13 0.13
Matches are distributed among these distances:
57 3 0.03
58 38 0.32
59 5 0.04
60 20 0.17
61 44 0.38
62 2 0.02
63 5 0.04
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (59 bp):
AAATAAATTCAATGATCTATTTCTTTTTTTCAAAATAGAATCATACTTGATTCTTAAGA
Found at i:573837 original size:39 final size:38
Alignment explanation
Indices: 573749--573846 Score: 133
Period size: 39 Copynumber: 2.5 Consensus size: 38
573739 AGATTCCCAT
* *
573749 TAAAATAAATTCAATAATTTATTTTCTTTTATAAAAAA
1 TAAAATAAATTCAATGATTTATTTTCTTTTACAAAAAA
*
573787 TAAAAACAAATTCAATGATTTATTTTCTTTTACAAAACAA
1 T-AAAATAAATTCAATGATTTATTTTCTTTTACAAAA-AA
* *
573827 TAAAGTAAATTCAACGATTT
1 TAAAATAAATTCAATGATTT
573847 TTGTTTTCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.02
39 48 0.92
40 3 0.06
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (38 bp):
TAAAATAAATTCAATGATTTATTTTCTTTTACAAAAAA
Found at i:573858 original size:35 final size:36
Alignment explanation
Indices: 573770--573881 Score: 93
Period size: 39 Copynumber: 3.1 Consensus size: 36
573760 CAATAATTTA
* * * * *
573770 TTTTCTTTTATAAAAAATAAAAACAAATTCAATGATTT
1 TTTTCTTTTACAAAACAGAAAAATAAATTCAACGA--T
*
573808 ATTTTCTTTTACAAAACA-ATAAAGTAAATTCAACGAT
1 -TTTTCTTTTACAAAACAGA-AAAATAAATTCAACGAT
* * *
573845 TTTTGTTTT-CAAAATAGAAAAATACATTCAACGAT
1 TTTTCTTTTACAAAACAGAAAAATAAATTCAACGAT
573880 TT
1 TT
573882 ATTTCATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
35 23 0.37
36 9 0.15
37 1 0.02
38 1 0.02
39 28 0.45
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (36 bp):
TTTTCTTTTACAAAACAGAAAAATAAATTCAACGAT
Found at i:574280 original size:45 final size:45
Alignment explanation
Indices: 574229--574436 Score: 231
Period size: 45 Copynumber: 4.6 Consensus size: 45
574219 GAAATAATCC
* *
574229 TTTAATTTTAGCAACTCAATAATAAAAAGGAACTGATCATTTGAT
1 TTTAATTTTAGCAACCCAATAATAAAAAGGAACTAATCATTTGAT
* * * * *
574274 TTTAATTTTCGCAACCCACTAATAAAAAAGAACTAATAATTTTAT
1 TTTAATTTTAGCAACCCAATAATAAAAAGGAACTAATCATTTGAT
* * * * *
574319 TTTAATCTT-GACAACTCAATAATCAAAAGGAACTAATCCTTTGGT
1 TTTAATTTTAG-CAACCCAATAATAAAAAGGAACTAATCATTTGAT
* * * *
574364 TTTACTTTTGGCAACACAATAATAAAAATGATA-TAATCATTTGAT
1 TTTAATTTTAGCAACCCAATAATAAAAAGGA-ACTAATCATTTGAT
*
574409 TTTACTTTTAGCAACCCAATAATAAAAA
1 TTTAATTTTAGCAACCCAATAATAAAAA
574437 AACCTTGGAT
Statistics
Matches: 135, Mismatches: 25, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
44 1 0.01
45 132 0.98
46 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.35
Consensus pattern (45 bp):
TTTAATTTTAGCAACCCAATAATAAAAAGGAACTAATCATTTGAT
Found at i:577042 original size:3 final size:3
Alignment explanation
Indices: 577036--577073 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
577026 TTATTATTTG
577036 TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TATA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TA
577074 CTATAAACAC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:577058 original size:17 final size:16
Alignment explanation
Indices: 577036--577073 Score: 67
Period size: 17 Copynumber: 2.3 Consensus size: 16
577026 TTATTATTTG
577036 TAATAATAATAATATAA
1 TAATAATAATAATAT-A
577053 TAATAATAATAATATA
1 TAATAATAATAATATA
577069 TAATA
1 TAATA
577074 CTATAAACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TAATAATAATAATATA
Found at i:577426 original size:99 final size:99
Alignment explanation
Indices: 577217--577741 Score: 819
Period size: 99 Copynumber: 5.3 Consensus size: 99
577207 ATCAAAAGTA
*
577217 AAAACATCCTA-CCTGGAGGTTTTACAGATGACCCGGAAGGACTTAATTTTC-TGAACATTAAAT
1 AAAACATCCTACCCT-GAGGTTTTACAGATGACCCGG-AGGATTTAATTTTCTTGAACATTAAAT
**
577280 GAG-AACTTTGGTAATCACTTTCTCATTTTCATGCG
64 GAGAAACTTTGGTAATTGCTTTCTCATTTTCATGCG
* * *
577315 AAAACATCCTACCTTGAGATTTTACAGATGACCAGGAGGATTTAATTTTCTTGAACATTAAATGA
1 AAAACATCCTACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTTGAACATTAAATGA
*
577380 GAAACTTTGGTAATCGCTTTCTCATTTTCATGCG
66 GAAACTTTGGTAATTGCTTTCTCATTTTCATGCG
*
577414 AAAACATCCTACCCTGAGGTTTTACAGATGACCCTGAGGATTTAATTTTCTTGAACATTAAATGA
1 AAAACATCCTACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTTGAACATTAAATGA
577479 GAAACTTTGGTAATTGCTTTCTCATTTTCATGCG
66 GAAACTTTGGTAATTGCTTTCTCATTTTCATGCG
* *
577513 AAAACATCCTACCCTGAGGTTTTACAGATGACCCGGAGAATTTAATTTTCTAGAACATTAAATGA
1 AAAACATCCTACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTTGAACATTAAATGA
* *
577578 G-AACTTT-GAAATTGTTTTCTCATTTTCATGCG
66 GAAACTTTGGTAATTGCTTTCTCATTTTCATGCG
* * *
577610 AAAACATCCTACCCTGAGGTTTTACAGATGACCCAGAGGATTTAATTTTGTAGAACATTAAATGA
1 AAAACATCCTACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTTGAACATTAAATGA
* *
577675 GAAACTTT-GAAATTGCTTTCTCATTTTCATGAG
66 GAAACTTTGGTAATTGCTTTCTCATTTTCATGCG
**
577708 AAAACATCCTACTATGAGGTTTTACAGATGACCC
1 AAAACATCCTACCCTGAGGTTTTACAGATGACCC
577742 AGATGTTTTA
Statistics
Matches: 401, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
97 99 0.25
98 112 0.28
99 190 0.47
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (99 bp):
AAAACATCCTACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTTGAACATTAAATGA
GAAACTTTGGTAATTGCTTTCTCATTTTCATGCG
Found at i:577638 original size:196 final size:198
Alignment explanation
Indices: 577217--577741 Score: 819
Period size: 196 Copynumber: 2.7 Consensus size: 198
577207 ATCAAAAGTA
* *
577217 AAAACATCCTA-CCTGGAGGTTTTACAGATGACCCGGAAGGACTTAATTTTC-TGAACATTAAAT
1 AAAACATCCTACCCT-GAGGTTTTACAGATGACCCAG-AGGATTTAATTTTCTTGAACATTAAAT
** * *
577280 GAG-AACTTTGGTAATCACTTTCTCATTTTCATGCGAAAACATCCTACCTTGAGATTTTACAGAT
64 GAGAAACTTTGGTAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCATGAGGTTTTACAGAT
* * * *
577344 GACCAGGAGGATTTAATTTTCTTGAACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTC
129 GACCCGGAGAATTTAATTTTCTAGAACATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTC
577409 ATGCG
194 ATGCG
*
577414 AAAACATCCTACCCTGAGGTTTTACAGATGACCCTGAGGATTTAATTTTCTTGAACATTAAATGA
1 AAAACATCCTACCCTGAGGTTTTACAGATGACCCAGAGGATTTAATTTTCTTGAACATTAAATGA
*
577479 GAAACTTTGGTAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGTTTTACAGATGA
66 GAAACTTTGGTAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCATGAGGTTTTACAGATGA
* *
577544 CCCGGAGAATTTAATTTTCTAGAACATTAAATGAG-AACTTT-GAAATTGTTTTCTCATTTTCAT
131 CCCGGAGAATTTAATTTTCTAGAACATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCAT
577607 GCG
196 GCG
* *
577610 AAAACATCCTACCCTGAGGTTTTACAGATGACCCAGAGGATTTAATTTTGTAGAACATTAAATGA
1 AAAACATCCTACCCTGAGGTTTTACAGATGACCCAGAGGATTTAATTTTCTTGAACATTAAATGA
* * *
577675 GAAACTTT-GAAATTGCTTTCTCATTTTCATGAGAAAACATCCTACTATGAGGTTTTACAGATGA
66 GAAACTTTGGTAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCATGAGGTTTTACAGATGA
577739 CCC
131 CCC
577742 AGATGTTTTA
Statistics
Matches: 306, Mismatches: 19, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
195 55 0.18
196 105 0.34
197 52 0.17
198 94 0.31
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (198 bp):
AAAACATCCTACCCTGAGGTTTTACAGATGACCCAGAGGATTTAATTTTCTTGAACATTAAATGA
GAAACTTTGGTAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCATGAGGTTTTACAGATGA
CCCGGAGAATTTAATTTTCTAGAACATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCAT
GCG
Found at i:578868 original size:99 final size:99
Alignment explanation
Indices: 578661--579184 Score: 824
Period size: 99 Copynumber: 5.3 Consensus size: 99
578651 CATAAAAGTA
*
578661 AAAACATCCTA-CCTGGAGGTTTTACAGATGACCCGGAGGACTTAATTTTC-TGAACATTAAATG
1 AAAACATCCTACCCT-GAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTTGAACATTAAATG
**
578724 AG-AACTTTGGTAATCACTTTCTCATTTTCATGCG
65 AGAAACTTTGGTAATTGCTTTCTCATTTTCATGCG
* * *
578758 AAAACATCCTACCTTGAGATTTTACAGATGACCAGGAGGATTTAATTTTCTTGAACATTAAATGA
1 AAAACATCCTACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTTGAACATTAAATGA
*
578823 GAAACTTTGGTAATCGCTTTCTCATTTTCATGCG
66 GAAACTTTGGTAATTGCTTTCTCATTTTCATGCG
*
578857 AAAACATCCTACCCTGAGGTTTTACAGATGACCCTGAGGATTTAATTTTCTTGAACATTAAATGA
1 AAAACATCCTACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTTGAACATTAAATGA
578922 GAAACTTTGGTAATTGCTTTCTCATTTTCATGCG
66 GAAACTTTGGTAATTGCTTTCTCATTTTCATGCG
** *
578956 AAAACATCCTACCCTGAGGTTTTACAGATGACCCGGATAATTTAATTTTCTAGAACATTAAATGA
1 AAAACATCCTACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTTGAACATTAAATGA
* *
579021 GAAACTTT-GAAATTGTTTTCTCATTTTCATGCG
66 GAAACTTTGGTAATTGCTTTCTCATTTTCATGCG
* * *
579054 AAAACATCCTACCCTGAGGTTTTACAGATGACCCAGAGGATTTAATTTTGTAGAACATTAAATGA
1 AAAACATCCTACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTTGAACATTAAATGA
* *
579119 GAAACTTT-GAAATTGCTTTCTCATTTTCATGAG
66 GAAACTTTGGTAATTGCTTTCTCATTTTCATGCG
**
579152 AAAACATCCTACTATGAGGTTTTACAGATGACC
1 AAAACATCCTACCCTGAGGTTTTACAGATGACC
579185 TGACGTTTTA
Statistics
Matches: 400, Mismatches: 24, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
97 43 0.11
98 163 0.41
99 194 0.49
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (99 bp):
AAAACATCCTACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTTGAACATTAAATGA
GAAACTTTGGTAATTGCTTTCTCATTTTCATGCG
Found at i:579075 original size:197 final size:198
Alignment explanation
Indices: 578661--579184 Score: 824
Period size: 197 Copynumber: 2.7 Consensus size: 198
578651 CATAAAAGTA
* *
578661 AAAACATCCTA-CCTGGAGGTTTTACAGATGACCCGGAGGACTTAATTTTC-TGAACATTAAATG
1 AAAACATCCTACCCT-GAGGTTTTACAGATGACCCAGAGGATTTAATTTTCTTGAACATTAAATG
** * *
578724 AG-AACTTTGGTAATCACTTTCTCATTTTCATGCGAAAACATCCTACCTTGAGATTTTACAGATG
65 AGAAACTTTGGTAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCATGAGGTTTTACAGATG
* * *
578788 ACCAGGAGGATTTAATTTTCTTGAACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCA
130 ACCAGGAGAATTTAATTTTCTAGAACATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCA
578853 TGCG
195 TGCG
*
578857 AAAACATCCTACCCTGAGGTTTTACAGATGACCCTGAGGATTTAATTTTCTTGAACATTAAATGA
1 AAAACATCCTACCCTGAGGTTTTACAGATGACCCAGAGGATTTAATTTTCTTGAACATTAAATGA
*
578922 GAAACTTTGGTAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGTTTTACAGATGA
66 GAAACTTTGGTAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCATGAGGTTTTACAGATGA
* * * *
578987 CCCGGATAATTTAATTTTCTAGAACATTAAATGAGAAACTTT-GAAATTGTTTTCTCATTTTCAT
131 CCAGGAGAATTTAATTTTCTAGAACATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCAT
579051 GCG
196 GCG
* *
579054 AAAACATCCTACCCTGAGGTTTTACAGATGACCCAGAGGATTTAATTTTGTAGAACATTAAATGA
1 AAAACATCCTACCCTGAGGTTTTACAGATGACCCAGAGGATTTAATTTTCTTGAACATTAAATGA
* * *
579119 GAAACTTT-GAAATTGCTTTCTCATTTTCATGAGAAAACATCCTACTATGAGGTTTTACAGATGA
66 GAAACTTTGGTAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCATGAGGTTTTACAGATGA
579183 CC
131 CC
579185 TGACGTTTTA
Statistics
Matches: 305, Mismatches: 20, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
196 98 0.32
197 110 0.36
198 97 0.32
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (198 bp):
AAAACATCCTACCCTGAGGTTTTACAGATGACCCAGAGGATTTAATTTTCTTGAACATTAAATGA
GAAACTTTGGTAATTGCTTTCTCATTTTCATGCGAAAACATCCTACCATGAGGTTTTACAGATGA
CCAGGAGAATTTAATTTTCTAGAACATTAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTCAT
GCG
Found at i:583719 original size:28 final size:24
Alignment explanation
Indices: 583658--583724 Score: 66
Period size: 28 Copynumber: 2.7 Consensus size: 24
583648 ATAACTATGC
583658 AAAGATGCAAATGC-AAAAAAAAG
1 AAAGATGCAAATGCAAAAAAAAAG
* *
583681 AAA-ATGTAAATACAAAAGTAAAAATG
1 AAAGATGCAAATGCAAAA--AAAAA-G
583707 TAAAGATGCAAATGCAAA
1 -AAAGATGCAAATGCAAA
583725 GATTTGAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
22 8 0.24
23 6 0.18
25 5 0.15
26 1 0.03
27 3 0.09
28 11 0.32
ACGTcount: A:0.63, C:0.07, G:0.15, T:0.15
Consensus pattern (24 bp):
AAAGATGCAAATGCAAAAAAAAAG
Found at i:586621 original size:15 final size:15
Alignment explanation
Indices: 586603--586637 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
586593 GCTTATAAAT
586603 TATAGGGACCACAGG
1 TATAGGGACCACAGG
586618 TATAGGGACCACAGG
1 TATAGGGACCACAGG
586633 TATAG
1 TATAG
586638 TTTACCCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.17
Consensus pattern (15 bp):
TATAGGGACCACAGG
Found at i:587595 original size:14 final size:13
Alignment explanation
Indices: 587578--587609 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
587568 GTATTATTTG
587578 TAATAATAATAATA
1 TAATAATAAT-ATA
587592 TAATAATAATATA
1 TAATAATAATATA
587605 TAATA
1 TAATA
587610 CTATAAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAATAATAATATA
Found at i:587596 original size:11 final size:11
Alignment explanation
Indices: 587580--587615 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
587570 ATTATTTGTA
587580 ATAATAATAAT
1 ATAATAATAAT
587591 ATAATAATAAT
1 ATAATAATAAT
*
587602 AT-ATAATACT
1 ATAATAATAAT
587612 ATAA
1 ATAA
587616 ACACGTCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:589295 original size:29 final size:29
Alignment explanation
Indices: 589242--589298 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 29
589232 AATTCAAATC
589242 AAATAAATTTTTATTTTAATTTATAAATAA
1 AAATAAATTTTTATTTTAA-TTATAAATAA
589272 AAATAAATTTTATATTTTAA-TATAAAT
1 AAATAAATTTT-TATTTTAATTATAAAT
589299 TTACAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 7 0.27
30 11 0.42
31 8 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
AAATAAATTTTTATTTTAATTATAAATAA
Found at i:589307 original size:31 final size:29
Alignment explanation
Indices: 589237--589307 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 29
589227 AGATAAATTC
589237 AAAT-CAAATAAATTTTTATTTTAATTTAT
1 AAATACAAATAAATTTTTATTTTAA-TTAT
*
589266 AAATAAAAATAAATTTTATATTTTAA-TAT
1 AAATACAAATAAATTTT-TATTTTAATTAT
589295 AAATTTACAAATA
1 AAA--TACAAATA
589308 TAAAATTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
29 10 0.28
30 11 0.31
31 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (29 bp):
AAATACAAATAAATTTTTATTTTAATTAT
Found at i:591294 original size:19 final size:19
Alignment explanation
Indices: 591270--591309 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
591260 TCCAATACCA
*
591270 ACTATTGGTTATGGTATAG
1 ACTATTGGTTATGGCATAG
591289 ACTATTGGTTATGGCATAG
1 ACTATTGGTTATGGCATAG
591308 AC
1 AC
591310 GCTCGGGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.38
Consensus pattern (19 bp):
ACTATTGGTTATGGCATAG
Found at i:595118 original size:14 final size:14
Alignment explanation
Indices: 595101--595136 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
595091 ATATATACGT
*
595101 TATTATATATATTA
1 TATTATAAATATTA
595115 TATTATAAATATTA
1 TATTATAAATATTA
595129 T-TTATAAA
1 TATTATAAA
595137 GCTCGAAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTATAAATATTA
Found at i:601829 original size:40 final size:40
Alignment explanation
Indices: 601757--601863 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
601747 CAGCAAAGGT
* * * **
601757 TGGGGCATGCTGAAGGGCCATTTTAGTCAGAAATAAAAT-
1 TGGGGCATGATGAAGGCCCATTTCAGAAAGAAATAAAATA
* *
601796 TAGGGGCATGTTGAAGGCCCGTTTCAGAAAGAAATAAAATA
1 T-GGGGCATGATGAAGGCCCATTTCAGAAAGAAATAAAATA
601837 TGGGGCATGATGAAGGCCCATTTCAGA
1 TGGGGCATGATGAAGGCCCATTTCAGA
601864 CAAAAATGAT
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 1 0.02
40 56 0.97
41 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (40 bp):
TGGGGCATGATGAAGGCCCATTTCAGAAAGAAATAAAATA
Found at i:603359 original size:89 final size:90
Alignment explanation
Indices: 603249--603412 Score: 240
Period size: 89 Copynumber: 1.8 Consensus size: 90
603239 ATCAAGACCA
* * * *
603249 AAATCTGAGCTCCACAAAAGAGTAGTGGAATAGATTTTTCAGTAAAGTATCA-AACTCCATGAAA
1 AAATCTGAACTCCACAAAAGAGTAGTGGAATAGATTTTTCAGCAAAGTATAAGAACTCCACGAAA
603313 GAGTAGTGGAAGCAAATTCAATCAT
66 GAGTAGTGGAAGCAAATTCAATCAT
** * * *
603338 AAATCTGAACTCCACGGAAGAGTAGTGGAATGGATTTTTCAGCAAAGTATAAGAACTTCACGGAA
1 AAATCTGAACTCCACAAAAGAGTAGTGGAATAGATTTTTCAGCAAAGTATAAGAACTCCACGAAA
603403 GAGTAGTGGA
66 GAGTAGTGGA
603413 GTGATCCAAG
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
89 46 0.71
90 19 0.29
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.24
Consensus pattern (90 bp):
AAATCTGAACTCCACAAAAGAGTAGTGGAATAGATTTTTCAGCAAAGTATAAGAACTCCACGAAA
GAGTAGTGGAAGCAAATTCAATCAT
Found at i:603854 original size:14 final size:14
Alignment explanation
Indices: 603829--603865 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
603819 ATATATACAT
*
603829 TATTATATATATTA
1 TATTATAAATATTA
603843 TATTATAAATATTA
1 TATTATAAATATTA
603857 T-TTATAAAT
1 TATTATAAAT
603866 CCCGAAGGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TATTATAAATATTA
Found at i:605774 original size:238 final size:238
Alignment explanation
Indices: 605356--605835 Score: 888
Period size: 238 Copynumber: 2.0 Consensus size: 238
605346 AGGCATTTAA
* *
605356 TTATAATAAATACCGGTACTAATTTTGGGCGTTGTGGGGATGCTAATCATTCCCCATACGTAACC
1 TTATAATAAATACCAGTACCAATTTTGGGCGTTGTGGGGATGCTAATCATTCCCCATACGTAACC
* *
605421 GACTCCTGAACTCATTTTTTCTAGTAAGCAGACCCGAGTTGTATTATTTTAATATTATTCTTAGG
66 GACTCCCGAACTCATTTTTCCTAGTAAGCAGACCCGAGTTGTATTATTTTAATATTATTCTTAGG
*
605486 AATTTTTATTAAAATAATATGAAATTTTGGTGACCAATCTCACCAAATAAAAATATTGGTGACGA
131 AATTTTTATTAAAATAATATGAAATTTTGGTGACCAATCTCACCAAATAAAAAGATTGGTGACGA
605551 CTCTACAACTTGGTGTTTCATCTGATTCAAGGAGTATAAAAAC
196 CTCTACAACTTGGTGTTTCATCTGATTCAAGGAGTATAAAAAC
*
605594 TTATAATAAATACCAGTACCAATTTTGGGCGTTGTGGGGATGCTAATCCTTCCCCATACGTAACC
1 TTATAATAAATACCAGTACCAATTTTGGGCGTTGTGGGGATGCTAATCATTCCCCATACGTAACC
*
605659 GACTCCCGAACTCATTTTTCCTGGTAAGCAGACCCGAGTTGTATTATTTTAATATTATTCTTAGG
66 GACTCCCGAACTCATTTTTCCTAGTAAGCAGACCCGAGTTGTATTATTTTAATATTATTCTTAGG
605724 AATTTTTATTAAAATAATATGAAATTTTGGTGACCAATCTCACCAAATAAAAAGATTGGTGACGA
131 AATTTTTATTAAAATAATATGAAATTTTGGTGACCAATCTCACCAAATAAAAAGATTGGTGACGA
*
605789 CTCTACAACTTGGTGTTTCATTTGATTCAAGGAGTATAAAAAC
196 CTCTACAACTTGGTGTTTCATCTGATTCAAGGAGTATAAAAAC
605832 TTAT
1 TTAT
605836 TTTTTTCGAG
Statistics
Matches: 234, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
238 234 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (238 bp):
TTATAATAAATACCAGTACCAATTTTGGGCGTTGTGGGGATGCTAATCATTCCCCATACGTAACC
GACTCCCGAACTCATTTTTCCTAGTAAGCAGACCCGAGTTGTATTATTTTAATATTATTCTTAGG
AATTTTTATTAAAATAATATGAAATTTTGGTGACCAATCTCACCAAATAAAAAGATTGGTGACGA
CTCTACAACTTGGTGTTTCATCTGATTCAAGGAGTATAAAAAC
Found at i:607684 original size:18 final size:18
Alignment explanation
Indices: 607671--607709 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 18
607661 GTATGCATGT
607671 ATAAGTATACATGCATAC
1 ATAAGTATACATGCATAC
607689 ATAAGTATA-AT--ATAC
1 ATAAGTATACATGCATAC
607704 ATAAGT
1 ATAAGT
607710 GTATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.48
17 2 0.10
18 9 0.43
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (18 bp):
ATAAGTATACATGCATAC
Found at i:607705 original size:15 final size:16
Alignment explanation
Indices: 607671--607739 Score: 68
Period size: 17 Copynumber: 4.2 Consensus size: 16
607661 GTATGCATGT
*
607671 ATAAGTATACATGCATAC
1 ATAAGTATATAT--ATAC
607689 ATAAGTATA-ATATAC
1 ATAAGTATATATATAC
* *
607704 ATAAGTGTATATATAT
1 ATAAGTATATATATAC
*
607720 ATATGTATTATATATAC
1 ATAAGTA-TATATATAC
607737 ATA
1 ATA
607740 TATATAAGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
15 12 0.27
16 10 0.23
17 13 0.30
18 9 0.20
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (16 bp):
ATAAGTATATATATAC
Found at i:607786 original size:2 final size:2
Alignment explanation
Indices: 607711--607770 Score: 54
Period size: 2 Copynumber: 31.0 Consensus size: 2
607701 TACATAAGTG
* * *
607711 TA TA TA TA TA TA TG TA T- TA TA TA TA CA TA TA TA TA -A GTT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
*
607752 TA TA TA T- TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA
607771 GTGTGTGTGT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
1 3 0.07
2 43 0.93
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:607945 original size:29 final size:27
Alignment explanation
Indices: 607895--607948 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
607885 TACAAAATAA
*
607895 AAAAAATACTATTTAGATTTAATTTGT
1 AAAAAATACTATTTACATTTAATTTGT
*
607922 AAAAACTACTATTTACCATATTAATTT
1 AAAAAATACTATTTA-CAT-TTAATTT
607949 TACTATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 14 0.61
28 2 0.09
29 7 0.30
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (27 bp):
AAAAAATACTATTTACATTTAATTTGT
Found at i:608206 original size:5 final size:5
Alignment explanation
Indices: 608196--608224 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
608186 TGGGGAAACC
608196 AAATA AAAT- AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA
608225 TTTTAACTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:623978 original size:32 final size:32
Alignment explanation
Indices: 623942--624067 Score: 83
Period size: 32 Copynumber: 3.9 Consensus size: 32
623932 CATGTCTTTA
* * * *
623942 AAAGTGATGACGTGATATGTATCATGTCACTT
1 AAAGTGATAACATGACATGTACCATGTCACTT
* * * ** *
623974 AAAGTAATAATATAACATGTTTCATGTCACCT
1 AAAGTGATAACATGACATGTACCATGTCACTT
* **
624006 AAAATGATAACATGACATGTACCACATCA-TT
1 AAAGTGATAACATGACATGTACCATGTCACTT
* ** *
624037 CAAAGTGATTATGTGATATGTACCATGTCAC
1 -AAAGTGATAACATGACATGTACCATGTCAC
624068 CCAAAATAAC
Statistics
Matches: 68, Mismatches: 24, Indels: 3
0.72 0.25 0.03
Matches are distributed among these distances:
31 1 0.01
32 67 0.99
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (32 bp):
AAAGTGATAACATGACATGTACCATGTCACTT
Found at i:630025 original size:51 final size:50
Alignment explanation
Indices: 629947--630195 Score: 234
Period size: 51 Copynumber: 4.8 Consensus size: 50
629937 GAGATGTACT
* * * * *
629947 ACTTACACCGGTGTAAGTATATATTAAATGCTACACTTTTTTATTTTATTC
1 ACTTACA-TGGTGTAAGTATGTGTTAAGTGCTATACTTTTTTATTTTATTC
* * *
629998 ACTTACACTGGTGTAAGTATGTGTTAAATTCTATATATTTTTTTATTTTATTC
1 ACTTACA-TGGTGTAAGTATGTGTTAAGTGC--TATACTTTTTTATTTTATTC
* * *
630051 ACTTACATCGATGTAAGTATCTGTTAAGTGTTATACTTTTTTTTATTTTATTC
1 ACTTACAT-GGTGTAAGTATGTGTTAAGTGCTATAC--TTTTTTATTTTATTC
** * *
630104 AC-TACATCGGCATAAGTATGTGTTAAGTACT-TCACTTTTTTTATTTGATTC
1 ACTTACAT-GGTGTAAGTATGTGTTAAGTGCTAT-AC-TTTTTTATTTTATTC
*
630155 ACTATA-TTGGTGTAAGTATGTGTTAAGTGCTATACTTTTTT
1 ACT-TACATGGTGTAAGTATGTGTTAAGTGCTATACTTTTTT
630196 CTAGTATGAA
Statistics
Matches: 166, Mismatches: 23, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
50 6 0.04
51 71 0.43
52 28 0.17
53 61 0.37
ACGTcount: A:0.26, C:0.12, G:0.13, T:0.49
Consensus pattern (50 bp):
ACTTACATGGTGTAAGTATGTGTTAAGTGCTATACTTTTTTATTTTATTC
Found at i:630180 original size:103 final size:106
Alignment explanation
Indices: 629947--630195 Score: 278
Period size: 104 Copynumber: 2.4 Consensus size: 106
629937 GAGATGTACT
* * * * * * *
629947 ACTTACACCGGTGTAAGTATATATTAAATGCTACAC--TTTTTTATTTTATTCACTTACACTGGT
1 ACTTACATCGATGTAAGTATCTGTTAAGTGCTATACTTTTTTTTATTTTATTCACTTACACTGGC
* * *
630010 GTAAGTATGTGTTAAATTCTATATATTTTTTTATTTTATTC
66 ATAAGTATGTGTTAAATACTATATATTTTTTTATTTGATTC
*
630051 ACTTACATCGATGTAAGTATCTGTTAAGTGTTATACTTTTTTTTATTTTATTCAC-TACA-TCGG
1 ACTTACATCGATGTAAGTATCTGTTAAGTGCTATACTTTTTTTTATTTTATTCACTTACACT-GG
* *
630114 CATAAGTATGTGTTAAGTACT-TCA-CTTTTTTTATTTGATTC
65 CATAAGTATGTGTTAAATACTAT-ATATTTTTTTATTTGATTC
* * * *
630155 AC-TATATTGGTGTAAGTATGTGTTAAGTGCTATACTTTTTT
1 ACTTACATCGATGTAAGTATCTGTTAAGTGCTATACTTTTTT
630196 CTAGTATGAA
Statistics
Matches: 123, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
103 34 0.28
104 48 0.39
105 24 0.20
106 17 0.14
ACGTcount: A:0.26, C:0.12, G:0.13, T:0.49
Consensus pattern (106 bp):
ACTTACATCGATGTAAGTATCTGTTAAGTGCTATACTTTTTTTTATTTTATTCACTTACACTGGC
ATAAGTATGTGTTAAATACTATATATTTTTTTATTTGATTC
Found at i:630602 original size:14 final size:14
Alignment explanation
Indices: 630583--630640 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 14
630573 GGTTTTCTGA
630583 AAAACCAATTCCAG
1 AAAACCAATTCCAG
*
630597 AAAACCAATTACATTTCTGG
1 AAAACCAATT-C----C-AG
630617 AAAACCAATTCCAG
1 AAAACCAATTCCAG
630631 AAAACCAATT
1 AAAACCAATT
630641 ACATTGTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
14 21 0.58
15 2 0.06
19 2 0.06
20 11 0.31
ACGTcount: A:0.48, C:0.24, G:0.07, T:0.21
Consensus pattern (14 bp):
AAAACCAATTCCAG
Found at i:630621 original size:34 final size:34
Alignment explanation
Indices: 630576--630645 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
630566 TGTAATTGGT
630576 TTTCTGAAAAACCAATTCCAGAAAACCAATTACA
1 TTTCTGAAAAACCAATTCCAGAAAACCAATTACA
*
630610 TTTCTGGAAAACCAATTCCAGAAAACCAATTACA
1 TTTCTGAAAAACCAATTCCAGAAAACCAATTACA
630644 TT
1 TT
630646 GTTTGGATGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.26
Consensus pattern (34 bp):
TTTCTGAAAAACCAATTCCAGAAAACCAATTACA
Found at i:630804 original size:15 final size:15
Alignment explanation
Indices: 630784--630812 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
630774 TTTTTTAAGT
630784 TATTTTATAAAATTG
1 TATTTTATAAAATTG
630799 TATTTTATAAAATT
1 TATTTTATAAAATT
630813 TTGAAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTTTATAAAATTG
Found at i:630921 original size:14 final size:14
Alignment explanation
Indices: 630902--630930 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
630892 AAATACACAA
630902 TTTTAGGTTTGAAG
1 TTTTAGGTTTGAAG
630916 TTTTAGGTTTGAAG
1 TTTTAGGTTTGAAG
630930 T
1 T
630931 ATTCATTATA
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:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (14 bp):
TTTTAGGTTTGAAG
Found at i:634891 original size:2 final size:2
Alignment explanation
Indices: 634884--634922 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
634874 GTCATTTTAC
634884 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
634923 ATAACCTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:644072 original size:30 final size:28
Alignment explanation
Indices: 644038--644117 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 28
644028 TTTTGTATTT
644038 TTTTACAATTTAGTCCTTAAA-TTAGACATC
1 TTTTA-AATTTAGTCCTTAAACTTAGA-A-C
*
644068 TTTTATGATTTAGTCCTTAAACTTTAGAAC
1 TTTTA-AATTTAGTCCTTAAAC-TTAGAAC
* *
644098 TTTTAAAATTAGTCCCTAAA
1 TTTTAAATTTAGTCCTTAAA
644118 AATTTAAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 12 0.28
30 25 0.58
31 1 0.02
32 5 0.12
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (28 bp):
TTTTAAATTTAGTCCTTAAACTTAGAAC
Found at i:648761 original size:10 final size:10
Alignment explanation
Indices: 648746--648771 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
648736 CCTTAGAACC
648746 ACCACCGTGA
1 ACCACCGTGA
648756 ACCACCGTGA
1 ACCACCGTGA
648766 ACCACC
1 ACCACC
648772 TTAGTGAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.46, G:0.15, T:0.08
Consensus pattern (10 bp):
ACCACCGTGA
Found at i:653012 original size:6 final size:6
Alignment explanation
Indices: 653001--653025 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
652991 ACTAAACTAT
653001 ATGCAA ATGCAA ATGCAA ATGCAA A
1 ATGCAA ATGCAA ATGCAA ATGCAA A
653026 GAGAGGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
ATGCAA
Found at i:665950 original size:19 final size:19
Alignment explanation
Indices: 665913--665950 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
665903 TTTGCGCTTA
*
665913 TTTTCAAAAATCAAAATTG
1 TTTTCAAAAATAAAAATTG
665932 TTTTC-AAAATAAAAGATTG
1 TTTTCAAAAATAAAA-ATTG
665951 ACTTTGGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (19 bp):
TTTTCAAAAATAAAAATTG
Found at i:666359 original size:24 final size:24
Alignment explanation
Indices: 666332--666387 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
666322 TACCATATTC
*
666332 ATTTTTAACTTTACA-TTCTTCTTT
1 ATTTTTAACTTTAAATTTCTT-TTT
*
666356 ATTTTT-GCTTTAAATTTCTTTTT
1 ATTTTTAACTTTAAATTTCTTTTT
666379 ATTATTTAA
1 ATT-TTTAA
666388 TCATTTTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 12 0.46
24 14 0.54
ACGTcount: A:0.23, C:0.11, G:0.02, T:0.64
Consensus pattern (24 bp):
ATTTTTAACTTTAAATTTCTTTTT
Found at i:671671 original size:24 final size:25
Alignment explanation
Indices: 671621--671672 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
671611 TATAAAGTTC
* *
671621 TTTATTTTCTTTTCAAGTTTTCATT
1 TTTATTTTATTCTCAAGTTTTCATT
671646 TTTATTTTATTCT-AAGTTTT-ATT
1 TTTATTTTATTCTCAAGTTTTCATT
671669 TTTA
1 TTTA
671673 AACTAGCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 7 0.28
24 7 0.28
25 11 0.44
ACGTcount: A:0.19, C:0.08, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTATTTTATTCTCAAGTTTTCATT
Found at i:680004 original size:22 final size:21
Alignment explanation
Indices: 679976--680023 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
679966 GATAATATTG
*
679976 ATACCCTAGTTCAAAAGTATCA
1 ATACCCTAGCT-AAAAGTATCA
* *
679998 ATACCCTGGCTAAAAGTATCG
1 ATACCCTAGCTAAAAGTATCA
680019 ATACC
1 ATACC
680024 ACCCATTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (21 bp):
ATACCCTAGCTAAAAGTATCA
Found at i:682018 original size:60 final size:61
Alignment explanation
Indices: 681948--682095 Score: 178
Period size: 60 Copynumber: 2.5 Consensus size: 61
681938 ATATGTCCCT
* * *
681948 AACTATAACTCTCATTTTAAATTGA-TCTTTAAAATTTTAAATATTTCAATTTCATCCCCA
1 AACTATAACTCTCATTTTAAATTGAGTCCTTAAAATATTAAACATTTCAATTTCATCCCCA
* * * * *
682008 AATTATAACTCTCATTCTAAATT-AGTCCTTAAACTATTGAACATTTCAATTTCATCCCTA
1 AACTATAACTCTCATTTTAAATTGAGTCCTTAAAATATTAAACATTTCAATTTCATCCCCA
*
682068 AACTATGACTCT-ATTTCTAAATTG-GTCC
1 AACTATAACTCTCATTT-TAAATTGAGTCC
682096 CAAACTTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
59 4 0.05
60 70 0.95
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.41
Consensus pattern (61 bp):
AACTATAACTCTCATTTTAAATTGAGTCCTTAAAATATTAAACATTTCAATTTCATCCCCA
Found at i:682108 original size:60 final size:60
Alignment explanation
Indices: 681948--682125 Score: 173
Period size: 60 Copynumber: 3.0 Consensus size: 60
681938 ATATGTCCCT
* * * * * * *
681948 AACTATAACTCTCATTTTAAATT-GATCTTTAAAATTTTAAATATTTCAATTTCATCCCCA
1 AACTATAACTCTCATTCTAAATTAG-TCCTCAAACTATTGAACATTTCAATTTCATCCCCA
* * *
682008 AATTATAACTCTCATTCTAAATTAGTCCTTAAACTATTGAACATTTCAATTTCATCCCTA
1 AACTATAACTCTCATTCTAAATTAGTCCTCAAACTATTGAACATTTCAATTTCATCCCCA
* * * * *
682068 AACTATGACTCT-ATTTCTAAATTGGTCC-CAAACTTTTTGAACATTCCAATCTCATCCC
1 AACTATAACTCTCA-TTCTAAATTAGTCCTCAAAC-TATTGAACATTTCAATTTCATCCC
682126 AAATTCATTC
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
59 5 0.05
60 94 0.94
61 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.04, T:0.40
Consensus pattern (60 bp):
AACTATAACTCTCATTCTAAATTAGTCCTCAAACTATTGAACATTTCAATTTCATCCCCA
Found at i:684524 original size:42 final size:41
Alignment explanation
Indices: 684456--684554 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 41
684446 ATACTCTTAA
* *
684456 TTTAGTGGCATTTGTGACTAAACGCCGCAATAGTCATGTGC-
1 TTTAGTGGCTTTTTTGACTAAACGCCGCAATAGTCATGT-CT
* **
684497 TTTAGTGGCTTTTTTGACGTAAACGCCGTAATAGTTTTGTCT
1 TTTAGTGGCTTTTTTGAC-TAAACGCCGCAATAGTCATGTCT
684539 TTTAGTGGCGTTTTTT
1 TTTAGTGGC-TTTTTT
684555 AATAAACACC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
41 17 0.34
42 27 0.54
43 6 0.12
ACGTcount: A:0.19, C:0.15, G:0.23, T:0.42
Consensus pattern (41 bp):
TTTAGTGGCTTTTTTGACTAAACGCCGCAATAGTCATGTCT
Found at i:684583 original size:39 final size:39
Alignment explanation
Indices: 684528--684648 Score: 120
Period size: 39 Copynumber: 3.0 Consensus size: 39
684518 AACGCCGTAA
**
684528 TAGTTTTGTCTTTTAGTGGCGTTTTTTAATAAACACCGC
1 TAGTTTTGTCCCTTAGTGGCGTTTTTTAATAAACACCGC
*
684567 TAGTTTTGTCCCTTAGTGGCGTTTTTGTAATAAATGCCACAG-
1 TAGTTTTGTCCCTTAGTGGCGTTTTT-TAATAAA---CACCGC
* * *
684609 TAGATTTT-TTCCTTAATGGCGTTTTTAATATAAACACCGC
1 TAG-TTTTGTCCCTTAGTGGCGTTTTTTA-ATAAACACCGC
684649 CATTGTCCAT
Statistics
Matches: 68, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
39 28 0.41
40 7 0.10
41 1 0.01
42 24 0.35
43 8 0.12
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (39 bp):
TAGTTTTGTCCCTTAGTGGCGTTTTTTAATAAACACCGC
Found at i:687014 original size:16 final size:16
Alignment explanation
Indices: 686993--687027 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
686983 ACATGCTCCC
686993 TTAAAA-TTTTATCAAT
1 TTAAAAGTTTTAT-AAT
687009 TTAAAAGTTTTATAAT
1 TTAAAAGTTTTATAAT
687025 TTA
1 TTA
687028 GGAGTGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (16 bp):
TTAAAAGTTTTATAAT
Found at i:693764 original size:21 final size:21
Alignment explanation
Indices: 693740--693799 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
693730 TAAAGCGAGG
* *
693740 GAAGCAGAGAGAAAAGCAGCA
1 GAAGCACAGAGAGAAGCAGCA
* *
693761 GAAGCACAGAGAGAAGAAGTA
1 GAAGCACAGAGAGAAGCAGCA
693782 GAAGCACAGAGAGAAGCA
1 GAAGCACAGAGAGAAGCA
693800 ACATATCAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.52, C:0.13, G:0.33, T:0.02
Consensus pattern (21 bp):
GAAGCACAGAGAGAAGCAGCA
Found at i:693775 original size:12 final size:12
Alignment explanation
Indices: 693760--693799 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
693750 GAAAAGCAGC
693760 AGAAGCACAGAG
1 AGAAGCACAGAG
*
693772 AGAAG-A-AG-T
1 AGAAGCACAGAG
693781 AGAAGCACAGAG
1 AGAAGCACAGAG
693793 AGAAGCA
1 AGAAGCA
693800 ACATATCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
9 5 0.22
10 3 0.13
11 3 0.13
12 12 0.52
ACGTcount: A:0.53, C:0.12, G:0.33, T:0.03
Consensus pattern (12 bp):
AGAAGCACAGAG
Found at i:694236 original size:44 final size:44
Alignment explanation
Indices: 694118--694408 Score: 235
Period size: 44 Copynumber: 6.7 Consensus size: 44
694108 GTATTCATTA
** * * * *
694118 GCGGCGTTTGTAT-CAAAAAACGTTGTTATATACCAGCCCTTTT
1 GCGGCGTTTGTATCCAAAAAACGCCGCTATATACCAGACATTTG
* ** * * * *
694161 ACGGCGTTTGTATCCGTAAAATGCCACTATATACGAGATATTTG
1 GCGGCGTTTGTATCCAAAAAACGCCGCTATATACCAGACATTTG
* * * * * *
694205 GTGGTGTTTGTATCCAAAAAACACCGTTATATACCATATATTTG
1 GCGGCGTTTGTATCCAAAAAACGCCGCTATATACCAGACATTTG
* * * *
694249 GCAGCGTTTGTATCCGAATAACGCCGCTATTTACCAGACATTTG
1 GCGGCGTTTGTATCCAAAAAACGCCGCTATATACCAGACATTTG
* * *
694293 GC-GAGTTTGTATGCAAAAAACGCCGCTATATACCAGACCTTTG
1 GCGGCGTTTGTATCCAAAAAACGCCGCTATATACCAGACATTTG
* * * * * * *
694336 GCGGCGTTTGTATACGAAAAATGCCGTTATGTACCAGACCTTTT
1 GCGGCGTTTGTATCCAAAAAACGCCGCTATATACCAGACATTTG
* ** *
694380 ACGGCGTTTGTATGTAAAAAATGCCGCTA
1 GCGGCGTTTGTATCCAAAAAACGCCGCTA
694409 ATATCTTAAC
Statistics
Matches: 194, Mismatches: 52, Indels: 3
0.78 0.21 0.01
Matches are distributed among these distances:
43 49 0.25
44 145 0.75
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (44 bp):
GCGGCGTTTGTATCCAAAAAACGCCGCTATATACCAGACATTTG
Found at i:694336 original size:87 final size:86
Alignment explanation
Indices: 694123--694408 Score: 259
Period size: 88 Copynumber: 3.3 Consensus size: 86
694113 CATTAGCGGC
** * * ** *
694123 GTTTGTAT-CAAAAAACGTTGTTATATACCAGCCCTTTTACGGCGTTTGTATCCGTAAAATGCCA
1 GTTTGTATGCAAAAAACGCCGCTATATACCAGACCTTTGGCGGCGTTTGTATCCG-AAAATGCCG
* * * *
694187 CTATATACGAGATATTTGGTGGT
65 CTATATACCAGACATTTGG-CGA
* * * * ** * *
694210 GTTTGTATCCAAAAAACACCGTTATATACCATATATTTGGCAGCGTTTGTATCCGAATAACGCCG
1 GTTTGTATGCAAAAAACGCCGCTATATACCAGACCTTTGGCGGCGTTTGTATCCGAA-AATGCCG
*
694275 CTATTTACCAGACATTTGGCGA
65 CTATATACCAGACATTTGGCGA
*
694297 GTTTGTATGCAAAAAACGCCGCTATATACCAGACCTTTGGCGGCGTTTGTATACGAAAAATGCCG
1 GTTTGTATGCAAAAAACGCCGCTATATACCAGACCTTTGGCGGCGTTTGTATCCG-AAAATGCCG
* * * ** *
694362 TTATGTACCAGACCTTTTACGGC
65 CTATATACCAGACATTTGGC-GA
* *
694385 GTTTGTATGTAAAAAATGCCGCTA
1 GTTTGTATGCAAAAAACGCCGCTA
694409 ATATCTTAAC
Statistics
Matches: 161, Mismatches: 34, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
87 79 0.49
88 82 0.51
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (86 bp):
GTTTGTATGCAAAAAACGCCGCTATATACCAGACCTTTGGCGGCGTTTGTATCCGAAAATGCCGC
TATATACCAGACATTTGGCGA
Found at i:694532 original size:42 final size:43
Alignment explanation
Indices: 694480--694561 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 43
694470 CTTTTGGGAC
* *
694480 AAACGCCGCTAAATCTCACCACCTATTGCGGC-TTTTTTGAAT
1 AAACGACGCTAAATCTCACCACCTATTGCAGCGTTTTTTGAAT
* **
694522 AAACGACGCTATATCTCTTCACCTATTGCAGCGTTTTTTG
1 AAACGACGCTAAATCTCACCACCTATTGCAGCGTTTTTTG
694562 TTATCAAACG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 27 0.79
43 7 0.21
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (43 bp):
AAACGACGCTAAATCTCACCACCTATTGCAGCGTTTTTTGAAT
Found at i:699757 original size:20 final size:20
Alignment explanation
Indices: 699734--699776 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
699724 AGTGGGAAAA
699734 AAATAAAACA-AAATAATAAT
1 AAATAAAACAGAAAT-ATAAT
*
699754 AAATAAAAGAGAAATATAAT
1 AAATAAAACAGAAATATAAT
699774 AAA
1 AAA
699777 ATAATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (20 bp):
AAATAAAACAGAAATATAAT
Found at i:699854 original size:17 final size:17
Alignment explanation
Indices: 699829--699870 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
699819 AGTTGTTTTA
*
699829 AAATAAAAGATAAGAATT
1 AAAT-AAAGAAAAGAATT
*
699847 AAATAAAGAAAATAATT
1 AAATAAAGAAAAGAATT
699864 AAATAAA
1 AAATAAA
699871 TAATCTAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (17 bp):
AAATAAAGAAAAGAATT
Found at i:701146 original size:199 final size:201
Alignment explanation
Indices: 700737--701317 Score: 726
Period size: 200 Copynumber: 2.9 Consensus size: 201
700727 AGGTGGCTTC
* * * * * * *
700737 TGTTGCCAAATCGTAGAC-AACCTTGGTCTTCTTC-TCAGTTTAAGGACCTCAGTTTGAAAATTC
1 TGTTGCTAAATCGCA-ACAAACCTAGGTCTTCTTCTTGA-CTTAAAGACCACAGTTT-AAAATTC
* * ** * * *
700800 AACCAGAAAGTAGTTCCT-TTATGCTACCATATGGTTGATATGCCCTCGAGCTAAATGAAATCGA
63 AACCGGAAAGTAGTTCCTCGT-TGCTACCATGCGGTTGATATGCCATCGAGCTGAATGGAATCGA
* * * * * * * *
700864 ACTCGAAGGCTTTTTTTTATAGATAGCTCTTCTCGCCTTGAGCTATGCTGTAAATTTGGCTGGGA
127 ACTCGAAAGCTTTTGTTAACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTCGGCTAGGA
700929 GATAGTTCCT
192 GATAGTTCCT
* * *
700939 TGTTGCTAAATCGCAACCAACCTAGGTCTT-TTCTTGACTTAAAGATCACAGTTTAAATTTCAAC
1 TGTTGCTAAATCGCAACAAACCTAGGTCTTCTTCTTGACTTAAAGACCACAGTTTAAAATTCAAC
* * *
701003 TGGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCTTTGAGCTGAATGGAATCGAACTC
66 CGGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCATCGAGCTGAATGGAATCGAACTC
*
701068 GAAAG-TTTTGTTAACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTCGGCTAGGAGATA
131 GAAAGCTTTTGTTAACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTCGGCTAGGAGATA
701132 GTTCCT
196 GTTCCT
* ** *
701138 TGTTGCTAAATCGCAGCAAACCTAGGTCTTCTTCTTGACTTAAAGACCTTAGTTTAAACTTCAAC
1 TGTTGCTAAATCGCAACAAACCTAGGTCTTCTTCTTGACTTAAAGACCACAGTTTAAAATTCAAC
* * *
701203 CGGAAAGTAGTTCATCGCTGCTACCATGCGGTTGATATGTCATCGAGCTGAATGGAATCGAACTC
66 CGGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCATCGAGCTGAATGGAATCGAACTC
* * *
701268 GAAAGTTTTTGTTGAC--ATAACCCTTCTCGCCTTAAGCTATGCTGTAAATT
131 GAAAGCTTTTGTTAACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATT
701318 TCCTCTAAAT
Statistics
Matches: 332, Mismatches: 42, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
199 117 0.35
200 161 0.48
201 28 0.08
202 26 0.08
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (201 bp):
TGTTGCTAAATCGCAACAAACCTAGGTCTTCTTCTTGACTTAAAGACCACAGTTTAAAATTCAAC
CGGAAAGTAGTTCCTCGTTGCTACCATGCGGTTGATATGCCATCGAGCTGAATGGAATCGAACTC
GAAAGCTTTTGTTAACAGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTCGGCTAGGAGATA
GTTCCT
Found at i:701581 original size:86 final size:86
Alignment explanation
Indices: 701368--701601 Score: 312
Period size: 86 Copynumber: 2.7 Consensus size: 86
701358 CGATCATAAT
* * * *
701368 TCTTTAAATGACTCCCCTTCACAGGAAAGCCAAGTGGTATATTCTTCAACTGGTTCC-CTTCGCG
1 TCTTTAGATGACTCCCCTTCACAGGAAAGTCAAGTGGTATATTCTTCAAGTGGTTCCTCTTTGCG
*
701432 GGTCTGAACCAGGTGAGGTGA
66 GGTCTGAACCAGGTGAGATGA
* * *
701453 TCTTTAGATGACTCCCCTTCACAGGAAACTCATGTGGTATATTCTTCAGGTGGTTCCTCTTTGCG
1 TCTTTAGATGACTCCCCTTCACAGGAAAGTCAAGTGGTATATTCTTCAAGTGGTTCCTCTTTGCG
701518 GGTCTGAACC-GAGTGAGATGA
66 GGTCTGAACCAG-GTGAGATGA
* * * **
701539 TCTTTGGATGACTCCCCTTTAC-GAGAAAGTCAAGTGGGATATTCTTCAAGTGACTCCTCTTTG
1 TCTTTAGATGACTCCCCTTCACAG-GAAAGTCAAGTGGTATATTCTTCAAGTGGTTCCTCTTTG
701602 TGAGAAAGCC
Statistics
Matches: 130, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
85 53 0.41
86 77 0.59
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (86 bp):
TCTTTAGATGACTCCCCTTCACAGGAAAGTCAAGTGGTATATTCTTCAAGTGGTTCCTCTTTGCG
GGTCTGAACCAGGTGAGATGA
Found at i:703522 original size:68 final size:68
Alignment explanation
Indices: 702980--703504 Score: 773
Period size: 68 Copynumber: 7.7 Consensus size: 68
702970 AAGATAATGA
* *
702980 CCTAACTATGCATTTGACAGAAAGGTGTGAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
1 CCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
703045 AGG
66 AGG
* * * *
703048 TCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAATGATAAGTACCTTTG
1 CCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
703113 AGG
66 AGG
* * * * *
703116 CCTAACTATGTATTTGACAGAAAGGTGTCAATCATGTCAGTTAGATGAAAGACTAAGTGTCTTTG
1 CCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
703181 AGG
66 AGG
*
703184 CCTAACTGTGCATTTGACAGAAATGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
1 CCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
703249 AGG
66 AGG
* * * *
703252 CCTAACTGTGCATTTGACAGAAAGGTTTCAATCATGTCAGTTAAATGAATGGCTAAGTGCCTTTG
1 CCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
703317 AGG
66 AGG
* * * *
703320 CCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCTAATTAGATGAAAAGCTAAGTCCCTTTG
1 CCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
703385 AGG
66 AGG
* * * * * *
703388 CCTAACTGTGCATTTGACGGAAATGTGTCAATCATGCCAGTT-GAATGGAAGCCCAAGTGCCGTT
1 CCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAG-ATGAAAGGCTAAGTGCCTTT
703452 GAGG
65 GAGG
* * *
703456 CCTAACTATGCATTTGACAAAAAGGTGTCAATGATGCCAGTTAGATGAA
1 CCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAA
703505 TGGTTAAATA
Statistics
Matches: 405, Mismatches: 50, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
67 1 0.00
68 403 1.00
69 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (68 bp):
CCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
AGG
Found at i:703772 original size:81 final size:80
Alignment explanation
Indices: 703464--703756 Score: 406
Period size: 81 Copynumber: 3.6 Consensus size: 80
703454 GGCCTAACTA
* * * *
703464 TGCATTTGACAAAAAGGTGTCAATGATGCCAGTTAGATGAATGGTTAAATACCATTGAGTAAGAG
1 TGCATTTGACAGAAAGGTGTCAATGATG-CAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAG
703529 ATTAATAGCCTAGTTG
65 ATTAATAGCCTAGTTG
* *
703545 TTCATTTGATAGAAAGGTGTCAATGATGTCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAG
1 TGCATTTGACAGAAAGGTGTCAATGATG-CAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAG
703610 ATTAATAGCCTAGTTG
65 ATTAATAGCCTAGTTG
* *
703626 TGTATTTGACAGAAAGGTGTCAATGATTCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAG
1 TGCATTTGACAGAAAGGTGTCAATGA-TGCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAG
* *
703691 ATTAATACCCTAGCTG
65 ATTAATAGCCTAGTTG
* * * * * *
703707 TGCATTTGGCAGAAAGGTGACAATCATGCAAGATATATGAAAGGCTAAAT
1 TGCATTTGACAGAAAGGTGTCAATGATGC-AGTTAGATGAAAGGTTAAAT
703757 GTTTTTGGAT
Statistics
Matches: 189, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
80 2 0.01
81 186 0.98
82 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.30
Consensus pattern (80 bp):
TGCATTTGACAGAAAGGTGTCAATGATGCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGA
TTAATAGCCTAGTTG
Found at i:706355 original size:2 final size:2
Alignment explanation
Indices: 706348--706380 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
706338 GAAAATGAAG
706348 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
706381 GCTTTTCTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:708574 original size:57 final size:57
Alignment explanation
Indices: 708510--708634 Score: 173
Period size: 57 Copynumber: 2.2 Consensus size: 57
708500 CTTTGGTGTT
* * ** *
708510 AAAAGTTAAGAAATTCATAATTTGTTTATGAAATTT-CGTATGGGCACTTCAGGTGCA
1 AAAAGTTAAGAAATGCATAATTTATTTAT-AAATTTCCGTATAAGAACTTCAGGTGCA
*
708567 AAAAGTTAAGAAATGCATAATTTATTTATAAATTTCCGTATAAGAACTTCATGTGCA
1 AAAAGTTAAGAAATGCATAATTTATTTATAAATTTCCGTATAAGAACTTCAGGTGCA
708624 AAAA-TTAAGAA
1 AAAAGTTAAGAA
708635 GTTATACGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
56 13 0.21
57 48 0.79
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.34
Consensus pattern (57 bp):
AAAAGTTAAGAAATGCATAATTTATTTATAAATTTCCGTATAAGAACTTCAGGTGCA
Found at i:708926 original size:68 final size:68
Alignment explanation
Indices: 708812--709268 Score: 677
Period size: 68 Copynumber: 6.7 Consensus size: 68
708802 ACAAGATAAT
* * *
708812 GACCTAACTGTGCATTTGACATAAAGGTGTCAATCATGCCAATTAGATGAAAGGCTAAGTGCCTT
1 GACCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCTT
708877 TGA
66 TGA
*
708880 GACCTAACTGTGCATTTGCCAGAAAGGTGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCTT
1 GACCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCTT
708945 TGA
66 TGA
* * * * * *
708948 GGCCTAACTGTGAATTTGATAGAAAAGTGTCAATCATGTTAGTTAGATGAAATGCTAAGTGCCTT
1 GACCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCTT
709013 TGA
66 TGA
* * * *
709016 -AGCCTAACTGTACATTTGGCAAAAAGATGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCT
1 GA-CCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCT
709080 TTGA
65 TTGA
* *
709084 GACCTAACTGTGCATTTGACAAAAAGGTGTCAACCATGCTAGTTAGATGAAAGGCTAAGTGCC-T
1 GACCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCTT
709148 TGA
66 TGA
* *
709151 GGCCTAACTGTGCAATTGACAGAAAGGTGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCTT
1 GACCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCTT
709216 TGA
66 TGA
* * *
709219 -AGCCTAACTGTGCATTTGACAGAAAAGATGTCAATGATGCCAGTTAGATG
1 GA-CCTAACTGTGCATTTGACAG-AAAGGTGTCAATCATGCTAGTTAGATG
709269 GACGGTTAAA
Statistics
Matches: 350, Mismatches: 34, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
67 63 0.18
68 262 0.75
69 25 0.07
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (68 bp):
GACCTAACTGTGCATTTGACAGAAAGGTGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCTT
TGA
Found at i:709287 original size:204 final size:204
Alignment explanation
Indices: 708814--709268 Score: 752
Period size: 204 Copynumber: 2.2 Consensus size: 204
708804 AAGATAATGA
* * *
708814 CCTAACTGTGCATTTGACATAAAGGTGTCAATCATGCCAATTAGATGAAAGGCTAAGTGCCTTTG
1 CCTAACTGTGCATTTGACAAAAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
* * *
708879 AGACCTAACTGTGCATTTGCCAGAAAGGTGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCT
66 AGACCTAACTGTGCATTTGACAAAAAGGTGTCAACCATGCTAGTTAGATGAAAGGCTAAGTGCCT
* * *
708944 TTGAGGCCTAACTGTGAATTTGATAGAAAAGTGTCAATCATGTTAGTTAGATGAAATGCTAAGTG
131 TTGAGGCCTAACTGTGAATTTGACAGAAAAGTGTCAATCATGCTAGTTAGATGAAAGGCTAAGTG
709009 CCTTTGAAG
196 CCTTTGAAG
* * *
709018 CCTAACTGTACATTTGGCAAAAAGATGTCAATCATGCTAGTTAGATGAAAGGCTAAGTGCCTTTG
1 CCTAACTGTGCATTTGACAAAAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
709083 AGACCTAACTGTGCATTTGACAAAAAGGTGTCAACCATGCTAGTTAGATGAAAGGCTAAGTGCC-
66 AGACCTAACTGTGCATTTGACAAAAAGGTGTCAACCATGCTAGTTAGATGAAAGGCTAAGTGCCT
*
709147 TTGAGGCCTAACTGTGCAA-TTGACAGAAAGGTGTCAATCATGCTAGTTAGATGAAAGGCTAAGT
131 TTGAGGCCTAACTGTG-AATTTGACAGAAAAGTGTCAATCATGCTAGTTAGATGAAAGGCTAAGT
709211 GCCTTTGAAG
195 GCCTTTGAAG
*
709221 CCTAACTGTGCATTTGACAGAAAAGATGTCAATGATGCCAGTTAGATG
1 CCTAACTGTGCATTTGACA-AAAAGATGTCAATCATGCCAGTTAGATG
709269 GACGGTTAAA
Statistics
Matches: 232, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
203 84 0.36
204 148 0.64
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (204 bp):
CCTAACTGTGCATTTGACAAAAAGATGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
AGACCTAACTGTGCATTTGACAAAAAGGTGTCAACCATGCTAGTTAGATGAAAGGCTAAGTGCCT
TTGAGGCCTAACTGTGAATTTGACAGAAAAGTGTCAATCATGCTAGTTAGATGAAAGGCTAAGTG
CCTTTGAAG
Found at i:709610 original size:81 final size:81
Alignment explanation
Indices: 709227--709595 Score: 486
Period size: 81 Copynumber: 4.5 Consensus size: 81
709217 GAAGCCTAAC
* * * *
709227 TGTGCATTTGACAGAAAAGATGTCAATGATGCCAGTTAGATGGACGGTTAAATACCTTTGATTAA
1 TGTGCATTTGACAG-AAAGGTGTCAATGATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAA
*
709292 AAGATTTATAGCCTAGT
65 AAGATTAATAGCCTAGT
** * * * * * *
709309 TGTGCATTTGACAGGTAGGTGTCAATTATGCCAGTTTGATGAACGGTTAAATACCGTTAAGTAAG
1 TGTGCATTTGACAGAAAGGTGTCAATGATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
709374 AGATTAATAGCCTAGT
66 AGATTAATAGCCTAGT
* * * * *
709390 TGTTCATTTGACATAAAGGTGTCAAAGATTCCAGTTAGATGAAAGGTTAATTACCTTTGAGTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATGATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
709455 AGATTAATAGCCTAGT
66 AGATTAATAGCCTAGT
* * *
709471 TGTGCATTTGGCAGAAAGGTATCAATGATGCCAGTTAGATGAAAGGATAAATACCTTTGAGTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATGATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
*
709536 AGATTAGTAGCCTAGT
66 AGATTAATAGCCTAGT
* * * **
709552 TGTGTATTTGGCAGAAAGGTGTCAATCATGAAAGTTAGATGAAA
1 TGTGCATTTGACAGAAAGGTGTCAATGATGCCAGTTAGATGAAA
709596 AGCTAAATGT
Statistics
Matches: 249, Mismatches: 38, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
81 235 0.94
82 14 0.06
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.31
Consensus pattern (81 bp):
TGTGCATTTGACAGAAAGGTGTCAATGATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAA
AGATTAATAGCCTAGT
Found at i:710092 original size:20 final size:21
Alignment explanation
Indices: 710052--710093 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
710042 ACAAATGAGA
710052 ATGTTGTGGCAAAATGAAATGG
1 ATGTTGTGG-AAAATGAAATGG
*
710074 ATGTTGTGG-AAATGGAATGG
1 ATGTTGTGGAAAATGAAATGG
710094 TGGTAGTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
22 9 0.47
ACGTcount: A:0.33, C:0.02, G:0.36, T:0.29
Consensus pattern (21 bp):
ATGTTGTGGAAAATGAAATGG
Found at i:724555 original size:111 final size:111
Alignment explanation
Indices: 724360--724678 Score: 444
Period size: 111 Copynumber: 2.9 Consensus size: 111
724350 GATCTACGGT
* * * * * *
724360 AGACTTGTTCCGCTGTCACTAAGGGAATATCAAATCTTGGAAGAAAATGATTTTTTTCCTCTTCT
1 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAGAGAGTGA-TATGTTCCGCTTCT
* * * * *
724425 TATAA-AGAATATCATATCTGAGGGATTTGATCCTTTGAATCGGGGC
65 TCTAAGGGAATATCAGATCTGAGGGAGTTGATCCATTGAATCGGGGC
* *
724471 AGACTTGTTCCGCTGTCACTCATGGAATATCAAATCTTGGAAGAGAGTGATGTGTTCCGCTTCTT
1 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAGAGAGTGATATGTTCCGCTTCTT
*
724536 CTAAGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGC
66 CTAAGGGAATATCAGATCTGAGGGAGTTGATCCATTGAATCGGGGC
* * *
724582 AAACTTGTTCCGCTGTCACTCAGGGAATATAAAATATTGGAAGAGAGTGATATGTTCCGCTTCTT
1 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAGAGAGTGATATGTTCCGCTTCTT
*
724647 CCAAGGGAATATCAGATCT-AGGGGAGTTGATC
66 CTAAGGGAATATCAGATCTGA-GGGAGTTGATC
724679 ATATTTGCAA
Statistics
Matches: 186, Mismatches: 20, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
110 15 0.08
111 171 0.92
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (111 bp):
AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAGAGAGTGATATGTTCCGCTTCTT
CTAAGGGAATATCAGATCTGAGGGAGTTGATCCATTGAATCGGGGC
Found at i:732012 original size:19 final size:19
Alignment explanation
Indices: 731988--732026 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
731978 ATTGTGTATT
731988 TTTTTCTTTTTGCTTTTAC
1 TTTTTCTTTTTGCTTTTAC
732007 TTTTTCTTTTTGCTTTTAC
1 TTTTTCTTTTTGCTTTTAC
732026 T
1 T
732027 GAAACATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTTCTTTTTGCTTTTAC
Found at i:737898 original size:90 final size:90
Alignment explanation
Indices: 737714--737878 Score: 296
Period size: 90 Copynumber: 1.8 Consensus size: 90
737704 TAATCCCGAA
*
737714 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
* *
737779 TAGGGTAAGTTGGAAATAAGAGGAT
66 TAGGGTAACTTGGAAATAAAAGGAT
737804 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
737868 TAGGGTAACTT
66 TAGGGTAACTT
737879 TGCTATAAAA
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
89 22 0.30
90 51 0.70
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (90 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
TAGGGTAACTTGGAAATAAAAGGAT
Found at i:746959 original size:22 final size:22
Alignment explanation
Indices: 746933--746997 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
746923 CCACTCATGA
746933 AACTTGGACTTACCTCCATAGC
1 AACTTGGACTTACCTCCATAGC
*
746955 AACTTGGACTTACCTCCATAAC
1 AACTTGGACTTACCTCCATAGC
** *
746977 TGCTTGGACTTAACTCCATAG
1 AACTTGGACTTACCTCCATAG
746998 ATTACATCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (22 bp):
AACTTGGACTTACCTCCATAGC
Found at i:747746 original size:13 final size:14
Alignment explanation
Indices: 747712--747770 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 14
747702 TTATGAATTA
*
747712 ATTAAATATCATTTCA
1 ATTAAATATC-TTT-T
747728 ATTAAAT-TCTTTT
1 ATTAAATATCTTTT
747741 ATTAAAGTATCTTTT
1 ATTAAA-TATCTTTT
*
747756 ATTCAAATATATTTT
1 ATT-AAATATCTTTT
747771 TCCTCAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
13 6 0.16
14 4 0.11
15 18 0.47
16 10 0.26
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (14 bp):
ATTAAATATCTTTT
Found at i:747935 original size:15 final size:15
Alignment explanation
Indices: 747915--747976 Score: 115
Period size: 15 Copynumber: 4.1 Consensus size: 15
747905 CGGGTTTTGG
*
747915 TCGAGTTATTTTGGA
1 TCGAGTTATTTCGGA
747930 TCGAGTTATTTCGGA
1 TCGAGTTATTTCGGA
747945 TCGAGTTATTTCGGA
1 TCGAGTTATTTCGGA
747960 TCGAGTTATTTCGGA
1 TCGAGTTATTTCGGA
747975 TC
1 TC
747977 TATATTATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.19, C:0.13, G:0.26, T:0.42
Consensus pattern (15 bp):
TCGAGTTATTTCGGA
Found at i:749025 original size:21 final size:21
Alignment explanation
Indices: 749001--749043 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
748991 TTTTTATCTC
749001 ACATGTAATTATTCTATACTA
1 ACATGTAATTATTCTATACTA
*
749022 ACATGTAATTATTCTATCCTA
1 ACATGTAATTATTCTATACTA
749043 A
1 A
749044 AAATTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (21 bp):
ACATGTAATTATTCTATACTA
Found at i:770711 original size:11 final size:11
Alignment explanation
Indices: 770695--770721 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
770685 TTTAACATGA
770695 ATATATAATAT
1 ATATATAATAT
770706 ATATATAATAT
1 ATATATAATAT
770717 ATATA
1 ATATA
770722 ATTACATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATATAATAT
Found at i:772456 original size:29 final size:28
Alignment explanation
Indices: 772413--772478 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 28
772403 CTCACCTAAC
*
772413 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATC-TTAAT
772443 TAAATGATGTAAGCAATGACATCTTAAT
1 TAAATGATGTAAGCAATGACATCTTAAT
772471 TAAATGAT
1 TAAATGAT
772479 AAGTACATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 12 0.34
29 19 0.54
30 4 0.11
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (28 bp):
TAAATGATGTAAGCAATGACATCTTAAT
Found at i:776911 original size:29 final size:29
Alignment explanation
Indices: 776868--777008 Score: 228
Period size: 29 Copynumber: 4.8 Consensus size: 29
776858 CTCACCTAAC
776868 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTACT
776898 TAAATGATGTAAGCAATGACATCATTACT
1 TAAATGATGTAAGCAATGACATCATTACT
776927 TAAATGATGTAAGCAATGACATCATTACT
1 TAAATGATGTAAGCAATGACATCATTACT
* ** *
776956 TAAATGATATAAGCAATGACATTTTTAAT
1 TAAATGATGTAAGCAATGACATCATTACT
*
776985 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
777009 ATTTAGTTTG
Statistics
Matches: 103, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
29 99 0.96
30 4 0.04
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTACT
Found at i:777802 original size:119 final size:118
Alignment explanation
Indices: 777596--777822 Score: 363
Period size: 119 Copynumber: 1.9 Consensus size: 118
777586 AGTTTTACAG
777596 CATGAATAATTGGTTGCTTTTCTTCCTTATGTATTGGTGTACTATTCGTCAATAAAAGTTATTTG
1 CATGAATAA-TGGTTGCTTTTCTTCCTTATG-ATTGGTGTACTATTCGTCAATAAAAGTTATTTG
777661 TTCTGCTAAACATTGGCTACATTTCATTGTTTCTTAAATTTTATTTTTATTTTATTAGT
64 TTCTGCTAAACATTGGCTACA--T--TTGTTTCTTAAATTTTATTTTTATTTTATTAGT
777720 CATGAATAA-GGTTGC-TTTCTTCCTTATG-TTGGTGTACTA-TCGTCAATAAAAGTTAATTTGT
1 CATGAATAATGGTTGCTTTTCTTCCTTATGATTGGTGTACTATTCGTCAATAAAAGTT-ATTTGT
777781 TCTGCTAAACATTGGCTACATTTGTTTCTTAAATTTTATTTT
65 TCTGCTAAACATTGGCTACATTTGTTTCTTAAATTTTATTTT
777823 ATTAATATCA
Statistics
Matches: 102, Mismatches: 0, Indels: 11
0.90 0.00 0.10
Matches are distributed among these distances:
115 21 0.21
117 1 0.01
118 15 0.15
119 37 0.36
121 13 0.13
122 6 0.06
124 9 0.09
ACGTcount: A:0.25, C:0.13, G:0.14, T:0.49
Consensus pattern (118 bp):
CATGAATAATGGTTGCTTTTCTTCCTTATGATTGGTGTACTATTCGTCAATAAAAGTTATTTGTT
CTGCTAAACATTGGCTACATTTGTTTCTTAAATTTTATTTTTATTTTATTAGT
Found at i:778110 original size:37 final size:37
Alignment explanation
Indices: 778061--778147 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
778051 CGGGATTTAA
778061 ATTTAATTTATTTAAAATTGAGCATAATAAAACTTTG
1 ATTTAATTTATTTAAAATTGAGCATAATAAAACTTTG
* *
778098 ATTTTATTTATTTAAAATTGAGCATAATCAAAC-TTG
1 ATTTAATTTATTTAAAATTGAGCATAATAAAACTTTG
*
778134 ATATAATTTTATTT
1 ATTTAA-TTTATTT
778148 TATTTATAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 7 0.16
37 38 0.84
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (37 bp):
ATTTAATTTATTTAAAATTGAGCATAATAAAACTTTG
Found at i:779508 original size:10 final size:12
Alignment explanation
Indices: 779481--779507 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
779471 AATGCATGTC
779481 TATATTCCAAAA
1 TATATTCCAAAA
779493 TATATTCCAAAA
1 TATATTCCAAAA
779505 TAT
1 TAT
779508 TTAGATCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (12 bp):
TATATTCCAAAA
Found at i:781388 original size:21 final size:22
Alignment explanation
Indices: 781363--781407 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
781353 TATTACAAAG
*
781363 AGGGTACCAAT-TACCTGCTAC
1 AGGGTACCAATACACCTGCTAC
* *
781384 AGGGTAGCGATACACCTGCTAC
1 AGGGTACCAATACACCTGCTAC
781406 AG
1 AG
781408 TACTGCAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (22 bp):
AGGGTACCAATACACCTGCTAC
Found at i:785192 original size:16 final size:16
Alignment explanation
Indices: 785171--785201 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
785161 CCACTCACAT
785171 GCATCTTTCTATATAG
1 GCATCTTTCTATATAG
785187 GCATCTTTCTATATA
1 GCATCTTTCTATATA
785202 ATCACCAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (16 bp):
GCATCTTTCTATATAG
Found at i:786525 original size:21 final size:21
Alignment explanation
Indices: 786476--786539 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
786466 CATATGAAAT
*
786476 TTGTCCCGAAGGACCTGTGAA
1 TTGTCCCGAAGGACCTATGAA
* *
786497 TGTGTCCCGAATGACCTATGAG
1 T-TGTCCCGAAGGACCTATGAA
*
786519 TTGTCCCGGAGGACCTATGAA
1 TTGTCCCGAAGGACCTATGAA
786540 ACCCTCGACT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
21 18 0.50
22 18 0.50
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTATGAA
Found at i:788804 original size:2 final size:2
Alignment explanation
Indices: 788797--788822 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
788787 TATGCGACGA
788797 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
788823 TATCACACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:791305 original size:25 final size:25
Alignment explanation
Indices: 791277--791325 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
791267 AAACTCCAAC
791277 TTTTTCATTCTTGAAATTGAATTTA
1 TTTTTCATTCTTGAAATTGAATTTA
791302 TTTTTCATTCTTGAAATTGAATTT
1 TTTTTCATTCTTGAAATTGAATTT
791326 TTCAATCCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (25 bp):
TTTTTCATTCTTGAAATTGAATTTA
Done.