Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008136.1 Hibiscus syriacus cultivar Beakdansim tig00110691_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: 1585607
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 9
Found at i:589985 original size:51 final size:51
Alignment explanation
Indices: 589929--590094 Score: 120
Period size: 51 Copynumber: 3.1 Consensus size: 51
589919 AAAAATATAT
589929 ATTTTTTCTCATCTTAACTTTTAAAATTTAATAAAATTGATATTATTACAC
1 ATTTTTTCTCATCTTAACTTTTAAAATTTAATAAAATTGATATTATTACAC
* * * * * * * * *
589980 ATTTTTTCATTTATACTCTATCAATTTAGTTGAAATTTTA-AAAACTAAAATTAATTATAT
1 ATTTTTTC---T-CA-TCT-T-AACTT--TTAAAATTTAATAAAATTGATATT-ATTACAC
* *
590040 ATTTTATCTCATCTTAACTTTTAAAATTTAATAAAATTTG-TATAATTACAC
1 ATTTTTTCTCATCTTAACTTTTAAAATTTAATAAAA-TTGATATTATTACAC
590091 ATTT
1 ATTT
590095 GGTCACTTTT
Statistics
Matches: 83, Mismatches: 20, Indels: 24
0.65 0.16 0.19
Matches are distributed among these distances:
51 26 0.31
52 6 0.07
53 5 0.06
54 2 0.02
55 4 0.05
56 4 0.05
57 2 0.02
58 4 0.05
59 9 0.11
60 21 0.25
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (51 bp):
ATTTTTTCTCATCTTAACTTTTAAAATTTAATAAAATTGATATTATTACAC
Found at i:590214 original size:118 final size:116
Alignment explanation
Indices: 589926--590277 Score: 420
Period size: 118 Copynumber: 3.0 Consensus size: 116
589916 CATAAAAATA
* *
589926 TATATTTTT-TCTCATCTTAACTTTTAAAATTTAATAAAATTGATATTATTACACATT--T--TT
1 TATATTTTTATCTCATCTTAACTTTTAAAATTTAATAAAATTGATATAATTACACTTTGGTCATT
* * * * *
589986 TCA-TT-TATACTCTATCAATTTAGTTGA-AATTTTAAAAACTAAAATTAAT
66 TTACTTATATATTCTATCAATTTAG-TCATAATTTTAAAAATTAAAATTATT
590035 TATATATTTTATCTCATCTTAACTTTTAAAATTTAATAAAATTTG-TATAATTACACATTTGGTC
1 TATAT-TTTTATCTCATCTTAACTTTTAAAATTTAATAAAA-TTGATATAATTACAC-TTTGGTC
* *
590099 ACTTTTACTTATATATTCTATCAATTTAGTCCTAATTTTAATAATTAAAATTACTT
63 A-TTTTACTTATATATTCTATCAATTTAGTCATAATTTTAAAAATTAAAATTA-TT
*
590155 TATATTTTTATCTCATATTAA-TTTTAAAATTTAATAAAATTGATATAATTACACGTTTGGTCAA
1 TATATTTTTATCTCATCTTAACTTTTAAAATTTAATAAAATTGATATAATTACAC-TTTGGTC-A
* * *
590219 TTATAC-TATTATATTCTATCAATTTAGTCATAAATTTAAAAATTAGAATTAATT
64 TTTTACTTA-TATATTCTATCAATTTAGTCATAATTTTAAAAATTAAAATT-ATT
590273 TATAT
1 TATAT
590278 ACTTTTAATA
Statistics
Matches: 210, Mismatches: 16, Indels: 25
0.84 0.06 0.10
Matches are distributed among these distances:
109 5 0.02
110 4 0.02
111 40 0.19
112 5 0.02
114 1 0.00
117 9 0.04
118 88 0.42
119 52 0.25
120 6 0.03
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (116 bp):
TATATTTTTATCTCATCTTAACTTTTAAAATTTAATAAAATTGATATAATTACACTTTGGTCATT
TTACTTATATATTCTATCAATTTAGTCATAATTTTAAAAATTAAAATTATT
Found at i:590607 original size:126 final size:120
Alignment explanation
Indices: 590432--590802 Score: 433
Period size: 123 Copynumber: 3.0 Consensus size: 120
590422 AACTTAAAAA
* * * *
590432 TATATATTTTATATCATCTTAGA-TTTTAAAA-TTATTCAAATTGATATAATTACACATTTGGTC
1 TATATATTTTATACCATATTA-ACTTTTAAAATTTAATAAAATTGATATAATTACACATTTGGTC
* *
590495 AGTTTGACTTATATATTCTATCAATTTAGTCATAATTTTAATAAATTAAAATTACTT
65 ACTTTGACTTATATATTCTATCAATTTAGTC-TAATTTTAATAAATTAAAATTAATT
* * *
590552 TATGTTTTTTACCTCACCCCGTATTAACTTTTAAAATTTAATAAAATTGATATAATTACACATTT
1 TATATATTTTA--T-A--CCATATTAACTTTTAAAATTTAATAAAATTGATATAATTACACATTT
* * * * *
590617 TGTCACTTATG-CTTTTATATTCTATCAATTTAGTCGTAATTTTAAAAAAAAATAGAATTAATT
61 GGTCACTT-TGACTTATATATTCTATCAATTTAGTC-TAATTTT--AATAAATTAAAATTAATT
* *
590680 TATATATTTTATATCATCTTAACTTTTAAAATTTAATAAAATTGATATAATTACACATTTGGTCA
1 TATATATTTTATACCATATTAACTTTTAAAATTTAATAAAATTGATATAATTACACATTTGGTCA
* * * *
590745 CTTTTACTTATAGATTCTATCAATTTAGTTCTAATTTTAATAACTTAAAACTAATT
66 CTTTGACTTATATATTCTATCAATTTAG-TCTAATTTTAATAAATTAAAATTAATT
590801 TA
1 TA
590803 ATCTTTGAAT
Statistics
Matches: 210, Mismatches: 29, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
120 9 0.04
121 15 0.07
122 2 0.01
123 79 0.38
124 3 0.01
125 14 0.07
126 63 0.30
127 2 0.01
128 23 0.11
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.46
Consensus pattern (120 bp):
TATATATTTTATACCATATTAACTTTTAAAATTTAATAAAATTGATATAATTACACATTTGGTCA
CTTTGACTTATATATTCTATCAATTTAGTCTAATTTTAATAAATTAAAATTAATT
Found at i:597742 original size:13 final size:13
Alignment explanation
Indices: 597724--597753 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
597714 AATGACACGC
*
597724 AATGTAAGTCGTA
1 AATGTAAGTCATA
597737 AATGTAAGTCATA
1 AATGTAAGTCATA
597750 AATG
1 AATG
597754 CGTGTCATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (13 bp):
AATGTAAGTCATA
Found at i:598324 original size:18 final size:18
Alignment explanation
Indices: 598301--598361 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
598291 CCCTAGCTCG
598301 CTAGCTCCTCTCGGACGC
1 CTAGCTCCTCTCGGACGC
* **
598319 CTAGCTCGC-CATAGCTCG-
1 CTAGCTC-CTC-TCGGACGC
598337 CTAGCTCCTCTCGGACGC
1 CTAGCTCCTCTCGGACGC
598355 CTAGCTC
1 CTAGCTC
598362 GCCACTCCCT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 5 0.15
18 23 0.70
19 5 0.15
ACGTcount: A:0.13, C:0.43, G:0.21, T:0.23
Consensus pattern (18 bp):
CTAGCTCCTCTCGGACGC
Found at i:598334 original size:36 final size:36
Alignment explanation
Indices: 598294--598365 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
598284 CGAACTGCCC
598294 TAGCTCGCTAGCTCCTCTCGGACGCCTAGCTCGCCA
1 TAGCTCGCTAGCTCCTCTCGGACGCCTAGCTCGCCA
598330 TAGCTCGCTAGCTCCTCTCGGACGCCTAGCTCGCCA
1 TAGCTCGCTAGCTCCTCTCGGACGCCTAGCTCGCCA
598366 CTCCCTCTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.14, C:0.42, G:0.22, T:0.22
Consensus pattern (36 bp):
TAGCTCGCTAGCTCCTCTCGGACGCCTAGCTCGCCA
Found at i:598973 original size:20 final size:20
Alignment explanation
Indices: 598947--598994 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
598937 ATATATTTCC
* *
598947 ACTATATGTAACTATATGCT
1 ACTATATGCAACTATATGAT
* *
598967 CCTATATGCATCTATATGAT
1 ACTATATGCAACTATATGAT
598987 ACTATATG
1 ACTATATG
598995 ATCTCTTAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (20 bp):
ACTATATGCAACTATATGAT
Found at i:598995 original size:10 final size:10
Alignment explanation
Indices: 598947--598996 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
598937 ATATATTTCC
598947 ACTATATG-T
1 ACTATATGAT
*
598956 AACTATATGCT
1 -ACTATATGAT
*
598967 CCTATATGCAT
1 ACTATATG-AT
598978 -CTATATGAT
1 ACTATATGAT
598987 ACTATATGAT
1 ACTATATGAT
598997 CTCTTAGACA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (10 bp):
ACTATATGAT
Found at i:599288 original size:18 final size:18
Alignment explanation
Indices: 599265--599310 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
599255 CAGGTAAAAT
599265 TATAAATAAAGAAATAAA
1 TATAAATAAAGAAATAAA
* * *
599283 TATAAAGAAATAAATGAA
1 TATAAATAAAGAAATAAA
*
599301 TTTAAATAAA
1 TATAAATAAA
599311 CTAAATTAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (18 bp):
TATAAATAAAGAAATAAA
Found at i:599289 original size:14 final size:14
Alignment explanation
Indices: 599270--599297 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
599260 AAAATTATAA
599270 ATAAAGAAATAAAT
1 ATAAAGAAATAAAT
599284 ATAAAGAAATAAAT
1 ATAAAGAAATAAAT
599298 GAATTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (14 bp):
ATAAAGAAATAAAT
Found at i:599345 original size:5 final size:5
Alignment explanation
Indices: 599339--599562 Score: 394
Period size: 5 Copynumber: 44.8 Consensus size: 5
599329 TATTATTATT
* * * * * *
599339 ATATT ATATT ATATC ATATT ATATC ATATT ATATT ATATC ATATT ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
599389 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
599439 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
599489 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
599539 ATATC ATATC ATATC ATATC ATAT
1 ATATC ATATC ATATC ATATC ATAT
599563 TATTTACCTT
Statistics
Matches: 212, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 212 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (5 bp):
ATATC
Found at i:604141 original size:21 final size:21
Alignment explanation
Indices: 604092--604134 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
604082 GAAAATCAAT
604092 AACAAAAAATCAAAACCCAAC
1 AACAAAAAATCAAAACCCAAC
604113 AACAAAAAATCAAAACCCAAC
1 AACAAAAAATCAAAACCCAAC
604134 A
1 A
604135 CGGAAAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.67, C:0.28, G:0.00, T:0.05
Consensus pattern (21 bp):
AACAAAAAATCAAAACCCAAC
Found at i:604804 original size:3 final size:3
Alignment explanation
Indices: 604792--604856 Score: 62
Period size: 3 Copynumber: 21.0 Consensus size: 3
604782 TGGTTGTTTC
* *
604792 CTT C-T CTT CTT CTT CTT CTT CTT CTT ATTT CTTT CTT CTT ATTT CTTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT -CTT C-TT CTT CTT -CTT C-TT
604840 CTT CTT CTT CTT -TT CTT
1 CTT CTT CTT CTT CTT CTT
604857 TATTCCTTCT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
2 4 0.08
3 38 0.73
4 10 0.19
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (3 bp):
CTT
Found at i:604827 original size:14 final size:13
Alignment explanation
Indices: 604793--604886 Score: 86
Period size: 14 Copynumber: 7.0 Consensus size: 13
604783 GGTTGTTTCC
*
604793 TTCTCTTCTTCTTC
1 TTCT-TTCTTCTTT
604807 TTC-TTCTTCTTAT
1 TTCTTTCTTCTT-T
604820 TTCTTTCTTCTTAT
1 TTCTTTCTTCTT-T
*
604834 TTCTTTCTTCTTC
1 TTCTTTCTTCTTT
604847 TTC-TT-TTCTTT
1 TTCTTTCTTCTTT
*
604858 ATTCCTTCTCCTCTTT
1 -TT-CTT-TCTTCTTT
604874 TTCTTTCTTCTTT
1 TTCTTTCTTCTTT
604887 CCAATGCCCC
Statistics
Matches: 68, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
11 5 0.07
12 12 0.18
13 14 0.21
14 29 0.43
15 3 0.04
16 5 0.07
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (13 bp):
TTCTTTCTTCTTT
Found at i:604842 original size:18 final size:18
Alignment explanation
Indices: 604819--604885 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
604809 CTTCTTCTTA
604819 TTTCTTTCTTCTTATTTC
1 TTTCTTTCTTCTTATTTC
*
604837 TTTC-TTCTTCTTCTTTTC
1 TTTCTTTCTTCTT-ATTTC
* * **
604855 TTTATTCCTTCTCCTCTT-
1 TTTCTTTCTTCTTAT-TTC
604873 TTTCTTTCTTCTT
1 TTTCTTTCTTCTT
604886 TCCAATGCCC
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
17 8 0.21
18 22 0.58
19 8 0.21
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTCTTTCTTCTTATTTC
Found at i:604849 original size:40 final size:40
Alignment explanation
Indices: 604793--604885 Score: 127
Period size: 40 Copynumber: 2.3 Consensus size: 40
604783 GGTTGTTTCC
* *
604793 TTCTCTTCTTCTTCTTCTTCTTC-TTATTTCTT-TCTTCTTAT
1 TTCT-TTCTTCTTCTTCTT-TTCTTTATTCCTTCTCCTCTT-T
604834 TTCTTTCTTCTTCTTCTTTTCTTTATTCCTTCTCCTCTTT
1 TTCTTTCTTCTTCTTCTTTTCTTTATTCCTTCTCCTCTTT
604874 TTCTTTCTTCTT
1 TTCTTTCTTCTT
604886 TCCAATGCCC
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
39 3 0.06
40 35 0.73
41 10 0.21
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (40 bp):
TTCTTTCTTCTTCTTCTTTTCTTTATTCCTTCTCCTCTTT
Found at i:606386 original size:23 final size:23
Alignment explanation
Indices: 606360--606415 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
606350 GGTTTGACCG
*
606360 ACCCGACCCGGTCTGACCCGATT
1 ACCCGACCCGATCTGACCCGATT
* *
606383 ACCCAACCCGATTTGACCCGATT
1 ACCCGACCCGATCTGACCCGATT
*
606406 GCCCGACCCG
1 ACCCGACCCG
606416 TTAACCGTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.20, C:0.45, G:0.20, T:0.16
Consensus pattern (23 bp):
ACCCGACCCGATCTGACCCGATT
Found at i:624049 original size:2 final size:2
Alignment explanation
Indices: 624042--624075 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
624032 ATTTTTATTA
624042 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
624076 TCATATGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:626087 original size:30 final size:30
Alignment explanation
Indices: 626053--626112 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
626043 CCTATGTTCC
*
626053 AAATAATTTCTTTTCTTGTATCCTCCCAGA
1 AAATAATTTATTTTCTTGTATCCTCCCAGA
626083 AAATAATTTATTTTCTTGTATCCTCCCAGA
1 AAATAATTTATTTTCTTGTATCCTCCCAGA
626113 CTCTCGTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (30 bp):
AAATAATTTATTTTCTTGTATCCTCCCAGA
Found at i:630643 original size:138 final size:137
Alignment explanation
Indices: 630395--631174 Score: 945
Period size: 138 Copynumber: 5.6 Consensus size: 137
630385 ACATGAAGGT
* ** * * * *
630395 GCGTTCCCGAAGGCGTGCCTTCCATTATTTTTTCAGAGAATATGTTATCATTGCCCTATTATATC
1 GCGTTCCCGAGGGCGCACCTTCGATTATTATGTCAGAGAATATGTTATCATTGCCCTATTATGTC
630460 ACTCATGTCCCCCAGGGAACTATTCATGTCAGTACCTATTATGTTTGAGGGGACTTGGCAAAGTG
66 ACTCATGTCCCCC-GGGAACTATTCATGTCAGTACCTATTATGTTTGAGGGGACTTGGCAAAGTG
630525 GTGAAAGC
130 GTGAAAGC
* * * * * *
630533 GCGTTTCCGAGGGCGTACCTTCTATTATTTTGTCAGAGAATATATTATCATTGCCATATTATGTC
1 GCGTTCCCGAGGGCGCACCTTCGATTATTATGTCAGAGAATATGTTATCATTGCCCTATTATGTC
630598 ACTCATGTCCCCCGGTGAACTATTCATGTCAGTACCTATTATGTTTGAGGGGACTTGGCAAAGTG
66 ACTCATGTCCCCCGG-GAACTATTCATGTCAGTACCTATTATGTTTGAGGGGACTTGGCAAAGTG
*
630663 GTGAAAGT
130 GTGAAAGC
* * * *
630671 GCGTTTCCGAGGGCGCGCCTTCGATTGTTATGTCAGAGAATATGTTATCATTGCTCTATTATGTC
1 GCGTTCCCGAGGGCGCACCTTCGATTATTATGTCAGAGAATATGTTATCATTGCCCTATTATGTC
** *
630736 ACTCATGTCCCCTAAGGAACTATTCATGTCAGTACCTATTATGTTTGAGGGGACTTGACAAAGTG
66 ACTCATGTCCCC-CGGGAACTATTCATGTCAGTACCTATTATGTTTGAGGGGACTTGGCAAAGTG
630801 GTGAAAGC
130 GTGAAAGC
* ** * * * * * *
630809 GCGTTCCCGGGGGTACGCCTTC-ACGTGAATAGGTCAGAGACTATGTTATCATTGCCCCATTATG
1 GCGTTCCCGAGGGCGCACCTTCGA--TTATTATGTCAGAGAATATGTTATCATTGCCCTATTATG
* * * **
630873 TCACTCATGTCCCTCGAAGAACTATTCATGTCAGTATCTATTATGTTTGAGGACACTTGGCAAAG
64 TCACTCATGTCCCCCG-GGAACTATTCATGTCAGTACCTATTATGTTTGAGGGGACTTGGCAAAG
630938 TGGTGAAAGC
128 TGGTGAAAGC
* * * * *
630948 GCGTTCCCGGGGGCGCACCTTCACGTGAATCACGTGAATAGGTCATAGAATATGTTATTATTGCC
1 GCGTTCCCGAGGGCGCACCTT--C--G-AT----T-ATTATGTCAGAGAATATGTTATCATTGCC
* *
631013 CTATTATATCACTCATGTCCCCCGGCGAACTATTCATGTCAGTACCTATTAT-TTTTAGGGGACT
56 CTATTATGTCACTCATGTCCCCCGG-GAACTATTCATGTCAGTACCTATTATGTTTGAGGGGACT
*
631077 TGGCAAAGTGGTGAAACC
120 TGGCAAAGTGGTGAAAGC
* * * * *
631095 GCGTT-TCAAGGGGCGCGCCTTCGATTGTTATGTCAGAGAATATGTTATCATTGGCCTATTATGT
1 GCGTTCCCGA-GGGCGCACCTTCGATTATTATGTCAGAGAATATGTTATCATTGCCCTATTATGT
631159 CACTCATGTCCCCCGG
65 CACTCATGTCCCCCGG
631175 AGACACAGAG
Statistics
Matches: 557, Mismatches: 67, Indels: 37
0.84 0.10 0.06
Matches are distributed among these distances:
137 50 0.09
138 269 0.48
139 117 0.21
141 1 0.00
142 2 0.00
143 2 0.00
145 2 0.00
146 1 0.00
147 41 0.07
148 72 0.13
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (137 bp):
GCGTTCCCGAGGGCGCACCTTCGATTATTATGTCAGAGAATATGTTATCATTGCCCTATTATGTC
ACTCATGTCCCCCGGGAACTATTCATGTCAGTACCTATTATGTTTGAGGGGACTTGGCAAAGTGG
TGAAAGC
Found at i:631156 original size:148 final size:147
Alignment explanation
Indices: 630829--631116 Score: 362
Period size: 148 Copynumber: 2.0 Consensus size: 147
630819 GGGTACGCCT
* * * * * * *
630829 TCACGTGAATAGGTCAGAGACTATGTTATCATTGCCCCATTATGTCACTCATGTCCCTCGAAGAA
1 TCACGAGAATAGGT-ATAGAATATGCTATTATTGCCCCATTATATCACTCATGTCCCCCGAAGAA
* * **
630894 CTATTCATGTCAGTATCTATTATGTTTGAGGACACTTGGCAAAGTGGTGAAAGCGCGTTCCCGGG
65 CTATTCATGTCAGTACCTATTATGTTTGAGGACACTTGGCAAAGTGGTGAAACCGCGTTCCAAGG
630959 GGCGCACCTTCACGTGAA
130 GGCGCACCTTCACGTGAA
* * * **
630977 TCACGTGAATAGGTCATAGAATATGTTATTATTGCCCTATTATATCACTCATGTCCCCCGGCGAA
1 TCACGAGAATAGGT-ATAGAATATGCTATTATTGCCCCATTATATCACTCATGTCCCCCGAAGAA
* ** *
631042 CTATTCATGTCAGTACCTATTAT-TTTTAGGGGACTTGGCAAAGTGGTGAAACCGCGTTTCAAGG
65 CTATTCATGTCAGTACCTATTATGTTTGAGGACACTTGGCAAAGTGGTGAAACCGCGTTCCAAGG
*
631106 GGCGCGCCTTC
130 GGCGCACCTTC
631117 GATTGTTATG
Statistics
Matches: 123, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
147 44 0.36
148 79 0.64
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (147 bp):
TCACGAGAATAGGTATAGAATATGCTATTATTGCCCCATTATATCACTCATGTCCCCCGAAGAAC
TATTCATGTCAGTACCTATTATGTTTGAGGACACTTGGCAAAGTGGTGAAACCGCGTTCCAAGGG
GCGCACCTTCACGTGAA
Found at i:631290 original size:29 final size:29
Alignment explanation
Indices: 631254--631312 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
631244 AAGTTAAGGA
631254 TAAAATCATACATATGAATAAATTTAAGT
1 TAAAATCATACATATGAATAAATTTAAGT
*
631283 TAAAATCATACATATGGATAAATTTAAGT
1 TAAAATCATACATATGAATAAATTTAAGT
631312 T
1 T
631313 TGTAACTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (29 bp):
TAAAATCATACATATGAATAAATTTAAGT
Found at i:631677 original size:34 final size:34
Alignment explanation
Indices: 631632--631704 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
631622 TTAAGTTGAA
631632 TTTAATGTTAAATTTCGAATACTATAATTTGTAT
1 TTTAATGTTAAATTTCGAATACTATAATTTGTAT
*
631666 TTTAATTTTAAATTTCGAATACTATAATTTGTAT
1 TTTAATGTTAAATTTCGAATACTATAATTTGTAT
631700 TTTAA
1 TTTAA
631705 AAACATTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (34 bp):
TTTAATGTTAAATTTCGAATACTATAATTTGTAT
Found at i:632341 original size:42 final size:42
Alignment explanation
Indices: 632295--632376 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
632285 TAGCCCTATA
* *
632295 GAGATGGA-ATATAAACTGGTGGGCTTGGCATATACCCCTGAG
1 GAGAT-GACATATAAACTGGAGGGCTAGGCATATACCCCTGAG
* * *
632337 GAGATGACATCTAATCTGGAGGGCTAGGCATGTACCCCTG
1 GAGATGACATATAAACTGGAGGGCTAGGCATATACCCCTG
632377 TGGCATCATC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 2 0.06
42 32 0.94
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (42 bp):
GAGATGACATATAAACTGGAGGGCTAGGCATATACCCCTGAG
Found at i:634128 original size:25 final size:25
Alignment explanation
Indices: 634100--634155 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
634090 AATAATAATT
* *
634100 ATATAAATATTATTTTAATAAAAAA
1 ATATAAATATAATTATAATAAAAAA
** * *
634125 ATATTTATATAATTATATTAATAAA
1 ATATAAATATAATTATAATAAAAAA
634150 ATATAA
1 ATATAA
634156 CAACTATTTA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
ATATAAATATAATTATAATAAAAAA
Found at i:634459 original size:60 final size:61
Alignment explanation
Indices: 634362--634492 Score: 194
Period size: 60 Copynumber: 2.2 Consensus size: 61
634352 TTAATGGAAG
* * * * *
634362 GCGCGTCCTCGGGGATGCGCCTTACCCCCGTGTCATCCGACTCAGC-AAAACCC-CGTGAAA
1 GCGCGTCCCCGGGGATGCGCCTTACCCACGTGGCATCCAACTCAGCAAAAACCCAGGT-AAA
634422 GCGCGTCCCCGGGGATGCGCCTTACCCACGTGGCATCCAACTCAGCAAAAACCCAGGTAAA
1 GCGCGTCCCCGGGGATGCGCCTTACCCACGTGGCATCCAACTCAGCAAAAACCCAGGTAAA
634483 GCGCGTCCCC
1 GCGCGTCCCC
634493 AAGGATGCAC
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
60 42 0.66
61 20 0.31
62 2 0.03
ACGTcount: A:0.21, C:0.39, G:0.25, T:0.15
Consensus pattern (61 bp):
GCGCGTCCCCGGGGATGCGCCTTACCCACGTGGCATCCAACTCAGCAAAAACCCAGGTAAA
Found at i:640676 original size:20 final size:20
Alignment explanation
Indices: 640651--640693 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
640641 TCTAAGAGCC
640651 CATTTAGGACCATATAGATG
1 CATTTAGGACCATATAGATG
* * *
640671 CATTTATGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
640691 CAT
1 CAT
640694 GTGTGGAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:642251 original size:20 final size:22
Alignment explanation
Indices: 642226--642266 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
642216 ATACTACCAT
642226 CATTTCA-TTT-CCACAACATA
1 CATTTCATTTTGCCACAACATA
642246 CATTTCATTTTGCCACAACAT
1 CATTTCATTTTGCCACAACAT
642267 TATCATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.37
21 3 0.16
22 9 0.47
ACGTcount: A:0.32, C:0.29, G:0.02, T:0.37
Consensus pattern (22 bp):
CATTTCATTTTGCCACAACATA
Found at i:655469 original size:19 final size:19
Alignment explanation
Indices: 655438--655494 Score: 87
Period size: 19 Copynumber: 3.0 Consensus size: 19
655428 ACACATCAGC
*
655438 TAACAGCTCCATCATTCAA
1 TAACAGCTTCATCATTCAA
*
655457 TAATAGCTTCATCATTCAA
1 TAACAGCTTCATCATTCAA
*
655476 TAACAACTTCATCATTCAA
1 TAACAGCTTCATCATTCAA
655495 CATTCTCCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.39, C:0.26, G:0.04, T:0.32
Consensus pattern (19 bp):
TAACAGCTTCATCATTCAA
Found at i:659131 original size:18 final size:18
Alignment explanation
Indices: 659090--659134 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
659080 TCCACAATTG
* *
659090 AAGAACAAGGGTCAATCC
1 AAGAAGAAGAGTCAATCC
659108 AAGAAGAAGAGTCAATCC
1 AAGAAGAAGAGTCAATCC
659126 AAGAAGAAG
1 AAGAAGAAG
659135 CACAAGGCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.51, C:0.16, G:0.24, T:0.09
Consensus pattern (18 bp):
AAGAAGAAGAGTCAATCC
Found at i:659908 original size:17 final size:17
Alignment explanation
Indices: 659886--659919 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
659876 TATAATCGGA
*
659886 GACAAGAGCTGGTTCAT
1 GACAAGAGCCGGTTCAT
659903 GACAAGAGCCGGTTCAT
1 GACAAGAGCCGGTTCAT
659920 AGAGCTTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (17 bp):
GACAAGAGCCGGTTCAT
Found at i:663748 original size:13 final size:13
Alignment explanation
Indices: 663730--663767 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
663720 ATAATATGAT
663730 TTTTCAAATATTG
1 TTTTCAAATATTG
663743 TTTTCAAATA--G
1 TTTTCAAATATTG
*
663754 TTTTCAAATTTTG
1 TTTTCAAATATTG
663767 T
1 T
663768 CCATTAGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
11 10 0.45
13 12 0.55
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (13 bp):
TTTTCAAATATTG
Found at i:663758 original size:11 final size:12
Alignment explanation
Indices: 663730--663762 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
663720 ATAATATGAT
663730 TTTTCAAATATTG
1 TTTTCAAATA-TG
663743 TTTTCAAATA-G
1 TTTTCAAATATG
663754 TTTTCAAAT
1 TTTTCAAAT
663763 TTTGTCCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
13 10 0.50
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (12 bp):
TTTTCAAATATG
Found at i:665194 original size:23 final size:24
Alignment explanation
Indices: 665163--665228 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 24
665153 TGTTAAAACA
**
665163 TTTTAGATGTTTTTGG-ATTTGTG
1 TTTTAGATGGATTTGGAATTTGTG
*
665186 TTTTGGATGGATTTGGATATTTGTG
1 TTTTAGATGGATTTGGA-ATTTGTG
*
665211 TTTGA-AT-GATTT-GAATTT
1 TTTTAGATGGATTTGGAATTT
665229 TAACTTGAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
21 4 0.11
22 2 0.06
23 18 0.50
24 2 0.06
25 10 0.28
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.56
Consensus pattern (24 bp):
TTTTAGATGGATTTGGAATTTGTG
Found at i:669745 original size:19 final size:19
Alignment explanation
Indices: 669721--669758 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
669711 ACACATCAGC
669721 TAACAGCTCCATCATTCAA
1 TAACAGCTCCATCATTCAA
*
669740 TAACAGCTTCATCATTCAA
1 TAACAGCTCCATCATTCAA
669759 CACTAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.29, G:0.05, T:0.29
Consensus pattern (19 bp):
TAACAGCTCCATCATTCAA
Found at i:671140 original size:15 final size:15
Alignment explanation
Indices: 671120--671158 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
671110 ATTTCAGAAT
*
671120 ATATTAATTAATAAA
1 ATATTAAATAATAAA
*
671135 ATATTAAATAATAAC
1 ATATTAAATAATAAA
*
671150 ATATAAAAT
1 ATATTAAAT
671159 GAAATAGTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (15 bp):
ATATTAAATAATAAA
Found at i:671318 original size:24 final size:24
Alignment explanation
Indices: 671291--671336 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
671281 AATAGAAATG
* *
671291 AATGTTACTTTCATATATAATAAA
1 AATGTTACTTTAATAGATAATAAA
*
671315 AATGTTATTTTAATAGATAATA
1 AATGTTACTTTAATAGATAATA
671337 TATTAGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (24 bp):
AATGTTACTTTAATAGATAATAAA
Found at i:672636 original size:19 final size:19
Alignment explanation
Indices: 672612--672651 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
672602 GCCCACACGT
672612 AATTGACTCATCAAAATCA
1 AATTGACTCATCAAAATCA
672631 AATTGACTCATCAAAATCA
1 AATTGACTCATCAAAATCA
672650 AA
1 AA
672652 GTTATCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.50, C:0.20, G:0.05, T:0.25
Consensus pattern (19 bp):
AATTGACTCATCAAAATCA
Found at i:678590 original size:17 final size:17
Alignment explanation
Indices: 678554--678586 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
678544 TTGGATTCTT
678554 TAAATATATTATTATAA
1 TAAATATATTATTATAA
678571 TAAATATATTA-TATAA
1 TAAATATATTATTATAA
678587 ATAAGTTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATATATTATTATAA
Found at i:679158 original size:13 final size:13
Alignment explanation
Indices: 679140--679166 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
679130 CATAGTTGAA
679140 CAGTCTTCATATG
1 CAGTCTTCATATG
679153 CAGTCTTCATATG
1 CAGTCTTCATATG
679166 C
1 C
679167 GCGTCTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:683329 original size:13 final size:13
Alignment explanation
Indices: 683311--683335 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
683301 GCAAACTTTG
683311 AGTTGCTAAAACA
1 AGTTGCTAAAACA
683324 AGTTGCTAAAAC
1 AGTTGCTAAAAC
683336 CCATTAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (13 bp):
AGTTGCTAAAACA
Found at i:683725 original size:23 final size:23
Alignment explanation
Indices: 683696--683739 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
683686 AAAAATCAGT
683696 TTTTGAAAATATATATAATATGG
1 TTTTGAAAATATATATAATATGG
*
683719 TTTTGAAAATATATATTATAT
1 TTTTGAAAATATATATAATAT
683740 AATTTCGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (23 bp):
TTTTGAAAATATATATAATATGG
Found at i:683749 original size:23 final size:23
Alignment explanation
Indices: 683700--683750 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
683690 ATCAGTTTTT
** *
683700 GAAAATATATATAATATGGTTTT
1 GAAAATATATATAATATAATTTC
*
683723 GAAAATATATATTATATAATTTC
1 GAAAATATATATAATATAATTTC
683746 GAAAA
1 GAAAA
683751 CATTTTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (23 bp):
GAAAATATATATAATATAATTTC
Found at i:683782 original size:2 final size:2
Alignment explanation
Indices: 683777--683826 Score: 70
Period size: 2 Copynumber: 26.5 Consensus size: 2
683767 GACATATTAT
*
683777 TA TA TA T- TA TA T- TA TA TT TA TA T- TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
683816 TA TA TA TA TA T
1 TA TA TA TA TA T
683827 TATGTATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
1 3 0.07
2 40 0.93
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:683783 original size:10 final size:10
Alignment explanation
Indices: 683770--683837 Score: 63
Period size: 12 Copynumber: 6.8 Consensus size: 10
683760 TTTTTTTGAC
683770 ATATTATTAT
1 ATATTATTAT
683780 ATATTA-TAT
1 ATATTATTAT
683789 -TA-TATT-T
1 ATATTATTAT
683796 ATATTATATAT
1 ATATTAT-TAT
683807 ATATATATATAT
1 ATAT-TAT-TAT
683819 ATATATATTAT
1 ATAT-TATTAT
*
683830 GTATTATT
1 ATATTATT
683838 TTATGTTTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
7 3 0.06
8 5 0.10
9 6 0.12
10 11 0.22
11 11 0.22
12 15 0.29
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (10 bp):
ATATTATTAT
Found at i:683801 original size:23 final size:23
Alignment explanation
Indices: 683774--683847 Score: 85
Period size: 23 Copynumber: 3.0 Consensus size: 23
683764 TTTGACATAT
683774 TATTATATATTATATTATATTTA
1 TATTATATATTATATTATATTTA
683797 TATTATATATATATATATATATATATA
1 TATTATATAT-TATAT-TATAT-T-TA
* * *
683824 TATTATGTATTATTTTATGTTTA
1 TATTATATATTATATTATATTTA
683847 T
1 T
683848 TTTTTTTATT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
23 13 0.30
24 6 0.14
25 9 0.20
26 5 0.11
27 11 0.25
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (23 bp):
TATTATATATTATATTATATTTA
Found at i:683857 original size:9 final size:9
Alignment explanation
Indices: 683833--683868 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
683823 ATATTATGTA
683833 TTATTTTATGT
1 TTATTTT-T-T
683844 TTATTTTTT
1 TTATTTTTT
683853 TTATTTTTT
1 TTATTTTTT
683862 TTATTTT
1 TTATTTT
683869 GATCCAGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 17 0.68
10 1 0.04
11 7 0.28
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (9 bp):
TTATTTTTT
Found at i:685037 original size:10 final size:10
Alignment explanation
Indices: 685024--685068 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
685014 TTTTCTTCGT
685024 TTTTTATTTA
1 TTTTTATTTA
685034 TTTTTATTTA
1 TTTTTATTTA
*
685044 TTTTTATTTT
1 TTTTTATTTA
*
685054 TATTTTATTTC
1 T-TTTTATTTA
685065 TTTT
1 TTTT
685069 GAAATTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 23 0.72
11 9 0.28
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:685049 original size:16 final size:17
Alignment explanation
Indices: 685030--685063 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
685020 TCGTTTTTTA
685030 TTTATTTTTA-TTTATT
1 TTTATTTTTATTTTATT
685046 TTTATTTTTATTTTATT
1 TTTATTTTTATTTTATT
685063 T
1 T
685064 CTTTTGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTATTTTTATTTTATT
Found at i:685076 original size:21 final size:22
Alignment explanation
Indices: 685029--685076 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
685019 TTCGTTTTTT
* *
685029 ATTTATTTTTATTTATTTTTAT
1 ATTTATTTTTATTTATTTTGAA
* *
685051 TTTTA-TTTTATTTCTTTTGAA
1 ATTTATTTTTATTTATTTTGAA
685072 ATTTA
1 ATTTA
685077 ATATTTATAC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (22 bp):
ATTTATTTTTATTTATTTTGAA
Found at i:685300 original size:12 final size:12
Alignment explanation
Indices: 685283--685316 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
685273 GAATTGAATT
*
685283 TTTAAATTTTGA
1 TTTAAATTTTAA
685295 TTTAAATTTTAA
1 TTTAAATTTTAA
685307 TTTAAATTTT
1 TTTAAATTTT
685317 CGCAACTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (12 bp):
TTTAAATTTTAA
Found at i:686729 original size:40 final size:40
Alignment explanation
Indices: 686674--686753 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
686664 AGCAAAAAGT
*
686674 AAAGGAAAGAGATGCAGTCATTCGAGACTTCTTGGAACAA
1 AAAGGAAAGAGATGCAGTCATCCGAGACTTCTTGGAACAA
*
686714 AAAGGCAAGAGATGCAGTCATCCGAGACTTCTTGGAACAA
1 AAAGGAAAGAGATGCAGTCATCCGAGACTTCTTGGAACAA
686754 GTACAAAAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (40 bp):
AAAGGAAAGAGATGCAGTCATCCGAGACTTCTTGGAACAA
Found at i:688011 original size:99 final size:99
Alignment explanation
Indices: 687896--688074 Score: 272
Period size: 99 Copynumber: 1.8 Consensus size: 99
687886 TTATAATATT
* * * * *
687896 ATATGTATACAATAAAGCTTGA-G-CTGTCCCTCTAGAGCAATTGGTTAAATGCCCCAGCTTTAT
1 ATATCTATACAATAAAGCTT-ATGTC-CTCCCTATAAAGCAATTGGTTAAATGCCACAGCTTTAT
687959 GGATAAGATTCAGCTAGTCTGCTAAAGGTGATTATA
64 GGATAAGATTCAGCTAGTCTGCTAAAGGTGATTATA
*
687995 ATATCTATACAATAAAGCTTATGTCCTCCCTATAAAGCAATTGGTTAAATGCCACGGCTTTATGG
1 ATATCTATACAATAAAGCTTATGTCCTCCCTATAAAGCAATTGGTTAAATGCCACAGCTTTATGG
688060 ATAAGATTCAGCTAG
66 ATAAGATTCAGCTAG
688075 CTAGACAATG
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
98 1 0.01
99 70 0.97
100 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Consensus pattern (99 bp):
ATATCTATACAATAAAGCTTATGTCCTCCCTATAAAGCAATTGGTTAAATGCCACAGCTTTATGG
ATAAGATTCAGCTAGTCTGCTAAAGGTGATTATA
Found at i:689613 original size:85 final size:85
Alignment explanation
Indices: 689388--690045 Score: 949
Period size: 85 Copynumber: 7.7 Consensus size: 85
689378 CGCAGTATAA
* * * * **
689388 CTCAAGGCGAGAAGGGTTATATGTCAACAAAAACCTTCGATTTCGATTACATTCAGCTAAAGAAC
1 CTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAGGGC
*
689453 ATATCAAATTTATAGCATAG
66 ATATCAAATTTACAGCATAG
* * * * *
689473 CTCAAGGCAAGAATGGC-ATCTGTCAACAAAAACCATCGAGTTCGATTACATTCAGCTCAATGAC
1 CTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAGGGC
689537 ATATCAAATTTACAGCATAG
66 ATATCAAATTTACAGCATAG
* * * * *
689557 CTCAAGGTGAGAAGGACTATCTGTCAACAAAAACCTTTGAGTTTGATTAAATTCAGCTCAAGGGC
1 CTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAGGGC
689622 ATATCAAATTTACAGCATAG
66 ATATCAAATTTACAGCATAG
* * * *
689642 CTCAAGGCGAAAAGGGCTATATGTCAACAAAAACCTTCGAGTTTGATTACATTCAGCTCAAGGGT
1 CTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAGGGC
* * * *
689707 ATATTAAATTTATAACATAT
66 ATATCAAATTTACAGCATAG
* * * **
689727 CTCAAGGCGAGAAGGGATATTTGTCAACAAAAACCTTTGAGTTCGATTACATTCAGCTCAAGGTT
1 CTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAGGGC
689792 ATATCAAATTTACAGCATAG
66 ATATCAAATTTACAGCATAG
* *
689812 CTCAAGGCGAGAAGGGCTATCTGTCAACAAAAAACCTTCGAGTTCGATTACATTAAGCTAAAGGG
1 CTCAAGGCGAGAAGGGCTATCTGTCAAC-AAAAACCTTCGAGTTCGATTACATTCAGCTCAAGGG
*
689877 CATATCAAATTTACAACATAG
65 CATATCAAATTTACAGCATAG
* * *
689898 CTCAAGGCGAGAAGGGTTATATGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGGGC
1 CTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAGGGC
689963 ATATCAAATTTACAGCATAG
66 ATATCAAATTTACAGCATAG
* * *
689983 CTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCAAGTTCGATTCCATTAAGCTCAAGG
1 CTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAGG
690046 CGAGAAGGGC
Statistics
Matches: 512, Mismatches: 59, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
84 73 0.14
85 362 0.71
86 77 0.15
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (85 bp):
CTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAGGGC
ATATCAAATTTACAGCATAG
Found at i:689974 original size:256 final size:254
Alignment explanation
Indices: 689388--690045 Score: 992
Period size: 256 Copynumber: 2.6 Consensus size: 254
689378 CGCAGTATAA
* * **
689388 CTCAAGGCGAGAAGGGTTATATGTCAACAAAAACCTTCGATTTCGATTACATTCAGCTAAAGAAC
1 CTCAAGGCGAGAAGGGTTATATGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAGGGC
* * * *
689453 ATATCAAATTTATAGCATAGCTCAAGGCAAGAATGGCATCTGTCAACAAAAACCATCGAGTTCGA
66 ATATCAAATTTATAGCATAGCTCAAGGCGAGAAGGGTATCTGTCAACAAAAACCTTCGAGTTCGA
* *
689518 TTACATTCAGCTCAATGACATATCAAATTTACAGCATAGCTCAAGGTGAGAAGGACTATCTGTCA
131 TTACATTCAGCTCAAGGACATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGACTATCTGTCA
* * * * *
689583 ACAAAAACCTTTGAGTTTGATTAAATTCAGCTCAAGGGCATATCAAATTTACAGCATAG
196 ACAAAAACCTTCGAGTTCGATTAAATTAAGCTAAAGGGCATATCAAATTTACAACATAG
* * * *
689642 CTCAAGGCGAAAAGGGCTATATGTCAACAAAAACCTTCGAGTTTGATTACATTCAGCTCAAGGGT
1 CTCAAGGCGAGAAGGGTTATATGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAGGGC
* * * * *
689707 ATATTAAATTTATAACATATCTCAAGGCGAGAAGGGATATTTGTCAACAAAAACCTTTGAGTTCG
66 ATATCAAATTTATAGCATAGCTCAAGGCGAGAAGGG-TATCTGTCAACAAAAACCTTCGAGTTCG
** *
689772 ATTACATTCAGCTCAAGGTTATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTC
130 ATTACATTCAGCTCAAGGACATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGACTATCTGTC
*
689837 AACAAAAAACCTTCGAGTTCGATTACATTAAGCTAAAGGGCATATCAAATTTACAACATAG
195 AAC-AAAAACCTTCGAGTTCGATTAAATTAAGCTAAAGGGCATATCAAATTTACAACATAG
*
689898 CTCAAGGCGAGAAGGGTTATATGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGGGC
1 CTCAAGGCGAGAAGGGTTATATGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAGGGC
* *
689963 ATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCAAGTTCG
66 ATATCAAATTTATAGCATAGCTCAAGGCGAGAAGGG-TATCTGTCAACAAAAACCTTCGAGTTCG
* *
690028 ATTCCATTAAGCTCAAGG
130 ATTACATTCAGCTCAAGG
690046 CGAGAAGGGC
Statistics
Matches: 359, Mismatches: 43, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
254 88 0.25
255 87 0.24
256 184 0.51
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (254 bp):
CTCAAGGCGAGAAGGGTTATATGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAGGGC
ATATCAAATTTATAGCATAGCTCAAGGCGAGAAGGGTATCTGTCAACAAAAACCTTCGAGTTCGA
TTACATTCAGCTCAAGGACATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGACTATCTGTCA
ACAAAAACCTTCGAGTTCGATTAAATTAAGCTAAAGGGCATATCAAATTTACAACATAG
Found at i:690085 original size:139 final size:141
Alignment explanation
Indices: 689896--690184 Score: 456
Period size: 139 Copynumber: 2.1 Consensus size: 141
689886 TTTACAACAT
* * * *
689896 AGCTCAAGGCGAGAAGGGTTATATGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAGG
1 AGCTCAAGGCGAGAAGGGCTATATGTCAACAAAAACCTTCAAGTTCGATTCCATTAAGCTCAAAG
* *
689961 GCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCAAGTT
66 GCATATCAAATTTACAGCATAACTCAAGGAGAGAAGGGCTATCTGTCAACAAAAACCTTCAAGTT
690026 CGATTCCATTA
131 CGATTCCATTA
* **
690037 AGCTCAAGGCGAGAAGGGCTATCT-TTTA-AAAAACCTTCAAGTTCGATTCCATTAAGCTCAAAG
1 AGCTCAAGGCGAGAAGGGCTATATGTCAACAAAAACCTTCAAGTTCGATTCCATTAAGCTCAAAG
690100 GCATATCAAATTTACAGCATAACTCAAGGAGAGAAGGGCTATCTGTCAACAAAAACCTTCAAGTT
66 GCATATCAAATTTACAGCATAACTCAAGGAGAGAAGGGCTATCTGTCAACAAAAACCTTCAAGTT
** *
690165 CGATTTTATTT
131 CGATTCCATTA
690176 AGCTCAAGG
1 AGCTCAAGG
690185 GCATATCAAA
Statistics
Matches: 136, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
139 112 0.82
140 2 0.01
141 22 0.16
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (141 bp):
AGCTCAAGGCGAGAAGGGCTATATGTCAACAAAAACCTTCAAGTTCGATTCCATTAAGCTCAAAG
GCATATCAAATTTACAGCATAACTCAAGGAGAGAAGGGCTATCTGTCAACAAAAACCTTCAAGTT
CGATTCCATTA
Found at i:690088 original size:54 final size:56
Alignment explanation
Indices: 689981--690097 Score: 202
Period size: 54 Copynumber: 2.1 Consensus size: 56
689971 TTTACAGCAT
689981 AGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCAAGTTCGATTCCATTA
1 AGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCAAGTTCGATTCCATTA
**
690037 AGCTCAAGGCGAGAAGGGCTATCT-TTTA-AAAAACCTTCAAGTTCGATTCCATTA
1 AGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCAAGTTCGATTCCATTA
690091 AGCTCAA
1 AGCTCAA
690098 AGGCATATCA
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
54 33 0.56
55 2 0.03
56 24 0.41
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (56 bp):
AGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCAAGTTCGATTCCATTA
Found at i:690128 original size:224 final size:226
Alignment explanation
Indices: 689810--690265 Score: 720
Period size: 224 Copynumber: 2.0 Consensus size: 226
689800 TTTACAGCAT
*
689810 AGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAAACCTTCGAGTTCGATTACATTAAGCTAAAG
1 AGCTCAAGGCGAGAAGGGCTATCTGT-AACAAAAAACCTTCAAGTTCGATTACATTAAGCTAAAG
* * * *
689875 GGCATATCAAATTTACAACATAGCTCAAGGCGAGAAGGGTTATATGTCAACAAAAACCTTCGAGT
65 GGCATATCAAATTTACAACATAACTCAAGGAGAGAAGGGCTATATGTCAACAAAAACCTTCAAGT
689940 TCGATTCCATTCAGCTCAAGGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCT
130 TCGATTCCATTCAGCTCAAGGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCT
690005 GTCAACAAAAACCTTCAAGTTCGATTCCATTA
195 GTCAACAAAAACCTTCAAGTTCGATTCCATTA
** *
690037 AGCTCAAGGCGAGAAGGGCTATCT-T-TTAAAAAACCTTCAAGTTCGATTCCATTAAGCTCAAA-
1 AGCTCAAGGCGAGAAGGGCTATCTGTAACAAAAAACCTTCAAGTTCGATTACATTAAGCT-AAAG
* *
690099 GGCATATCAAATTTACAGCATAACTCAAGGAGAGAAGGGCTATCTGTCAACAAAAACCTTCAAGT
65 GGCATATCAAATTTACAACATAACTCAAGGAGAGAAGGGCTATATGTCAACAAAAACCTTCAAGT
** * * *
690164 TCGATTTTATTTAGCTCAAGGGCATATCAAATTTACAGCATAGCTCAAGGCTAGAAGGGTTATCT
130 TCGATTCCATTCAGCTCAAGGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCT
* *
690229 GTCAACAAAAACCTTCGAGTTCGATTCCATTC
195 GTCAACAAAAACCTTCAAGTTCGATTCCATTA
690261 AGCTC
1 AGCTC
690266 GATGACAGTG
Statistics
Matches: 211, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
224 183 0.87
225 3 0.01
226 1 0.00
227 24 0.11
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (226 bp):
AGCTCAAGGCGAGAAGGGCTATCTGTAACAAAAAACCTTCAAGTTCGATTACATTAAGCTAAAGG
GCATATCAAATTTACAACATAACTCAAGGAGAGAAGGGCTATATGTCAACAAAAACCTTCAAGTT
CGATTCCATTCAGCTCAAGGGCATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTG
TCAACAAAAACCTTCAAGTTCGATTCCATTA
Found at i:690180 original size:85 final size:85
Alignment explanation
Indices: 690039--690265 Score: 332
Period size: 85 Copynumber: 2.7 Consensus size: 85
690029 TTCCATTAAG
**
690039 CTCAAGGCGAGAAGGGCTATCT-TTTA-AAAAACCTTCAAGTTCGATTCCATTAAGCTCAAAGGC
1 CTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCAAGTTCGATTCCATTAAGCTCAAAGGC
690102 ATATCAAATTTACAGCATAA
66 ATATCAAATTTACAGCATAA
* ** * *
690122 CTCAAGGAGAGAAGGGCTATCTGTCAACAAAAACCTTCAAGTTCGATTTTATTTAGCTCAAGGGC
1 CTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCAAGTTCGATTCCATTAAGCTCAAAGGC
*
690187 ATATCAAATTTACAGCATAG
66 ATATCAAATTTACAGCATAA
* * * *
690207 CTCAAGGCTAGAAGGGTTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTC
1 CTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCAAGTTCGATTCCATTAAGCTC
690266 GATGACAGTG
Statistics
Matches: 127, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
83 21 0.17
84 2 0.02
85 104 0.82
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (85 bp):
CTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCAAGTTCGATTCCATTAAGCTCAAAGGC
ATATCAAATTTACAGCATAA
Found at i:691074 original size:37 final size:36
Alignment explanation
Indices: 690846--691272 Score: 247
Period size: 37 Copynumber: 11.6 Consensus size: 36
690836 AATAATATAG
* * *
690846 TATAGTTTTTGAAAATATTTTTTGAAAAATGTATAACA
1 TATAG-TTTTGAAAATA-TTTTTGAAAATTATATAATA
* * ** *
690884 TATATTTTTTAAAACGGTTATTGAAAA-TATATAATA
1 TATAGTTTTGAAAA-TATTTTTGAAAATTATATAATA
* * *
690920 TATAATTTTTAAAAAAAACGGTTTTTGAAAA-TATAT-ATAA
1 TAT-AGTTTT-GAAAATA---TTTTTGAAAATTATATAAT-A
* * *
690960 TATGGTTTTGAAAACA-TTTTAAAAATATATATATTATA
1 TATAGTTTTGAAAATATTTTTGAAAAT-TATATA--ATA
* * *
690998 TATA-TTTTTAAAACATTTTTAAAAATATATATAATA
1 TATAGTTTTGAAAATATTTTTGAAAAT-TATATAATA
691034 TATAGTTTTGAAAATATTTTTGAAAATGTATATAATA
1 TATAGTTTTGAAAATATTTTTGAAAAT-TATATAATA
* *
691071 TATAGTTTTTAAAA-ATGTTTTAAATATATATATATATATAATA
1 TATAGTTTTGAAAATAT-TTTT---GA-A-A-AT-TATATAATA
691114 TATAGTTTTGAAAATATTTTTGAAAA-TATAT--TA
1 TATAGTTTTGAAAATATTTTTGAAAATTATATAATA
* *
691147 TATAGTTTTAAAAACAATTTTTGAAAA-TATAT--TA
1 TATAGTTTTGAAAA-TATTTTTGAAAATTATATAATA
* *
691181 TATAGTTTTGAAAATCAACTTTTG--AA-TATATATTA
1 TATAGTTTTGAAAAT--ATTTTTGAAAATTATATAATA
* *
691216 TATAGTTTTGAAAATCAATTTTTGAAAA-CATATATTA
1 TATAGTTTTGAAAAT--ATTTTTGAAAATTATATAATA
* * *
691253 TATAATTTAGAAAACATTTT
1 TATAGTTTTGAAAATATTTT
691273 ATTTTTTCGA
Statistics
Matches: 323, Mismatches: 37, Indels: 61
0.77 0.09 0.14
Matches are distributed among these distances:
33 22 0.07
34 39 0.12
35 41 0.13
36 24 0.07
37 101 0.31
38 35 0.11
39 9 0.03
40 20 0.06
41 1 0.00
42 1 0.00
43 28 0.09
44 2 0.01
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (36 bp):
TATAGTTTTGAAAATATTTTTGAAAATTATATAATA
Found at i:691122 original size:31 final size:31
Alignment explanation
Indices: 691087--691195 Score: 76
Period size: 34 Copynumber: 3.3 Consensus size: 31
691077 TTTTAAAAAT
*
691087 GTTTT-AAATATATATATATATATAATATATA
1 GTTTTAAAATATATATA-AAATATAATATATA
* * *
691118 GTTTTGAAAATATTTTTGAAAATATATTATATA
1 GTTTT-AAAATATATAT-AAAATATAATATATA
* * * *
691151 GTTTTAAAAACAATTTTTGAAAATATATTATATA
1 GTTTT-AAAA-TATATAT-AAAATATAATATATA
691185 GTTTTGAAAAT
1 GTTTT-AAAAT
691196 CAACTTTTGA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
31 5 0.08
33 29 0.44
34 32 0.48
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.47
Consensus pattern (31 bp):
GTTTTAAAATATATATAAAATATAATATATA
Found at i:691150 original size:35 final size:33
Alignment explanation
Indices: 691106--691272 Score: 199
Period size: 35 Copynumber: 4.8 Consensus size: 33
691096 ATATATATAT
*
691106 ATATAATATATAGTTTTGAAAATATTTTTGAAA
1 ATATATTATATAGTTTTGAAAATATTTTTGAAA
* *
691139 ATATATTATATAGTTTTAAAAACAATTTTTGAAA
1 ATATATTATATAGTTTTGAAAA-TATTTTTGAAA
* *
691173 ATATATTATATAGTTTTGAAAATCAACTTTTGAAT
1 ATATATTATATAGTTTTGAAAAT--ATTTTTGAAA
691208 ATATATTATATAGTTTTGAAAATCAATTTTTGAAAA
1 ATATATTATATAGTTTTGAAAAT--ATTTTTG-AAA
* * *
691244 CATATATTATATAATTTAGAAAACATTTT
1 -ATATATTATATAGTTTTGAAAATATTTT
691273 ATTTTTTCGA
Statistics
Matches: 117, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
33 20 0.17
34 31 0.26
35 44 0.38
36 2 0.02
37 20 0.17
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (33 bp):
ATATATTATATAGTTTTGAAAATATTTTTGAAA
Found at i:691155 original size:21 final size:21
Alignment explanation
Indices: 691131--691195 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 21
691121 TTGAAAATAT
691131 TTTTGAAAATATATTATATAG
1 TTTTGAAAATATATTATATAG
*
691152 TTTT--AAA-A-A-CA-AT--
1 TTTTGAAAATATATTATATAG
691165 TTTTGAAAATATATTATATAG
1 TTTTGAAAATATATTATATAG
691186 TTTTGAAAAT
1 TTTTGAAAAT
691196 CAACTTTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 16
0.65 0.04 0.31
Matches are distributed among these distances:
13 4 0.12
15 5 0.15
16 2 0.06
17 2 0.06
18 2 0.06
19 5 0.15
21 14 0.41
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.46
Consensus pattern (21 bp):
TTTTGAAAATATATTATATAG
Found at i:691205 original size:69 final size:70
Alignment explanation
Indices: 690904--691266 Score: 245
Period size: 80 Copynumber: 4.9 Consensus size: 70
690894 AAAACGGTTA
* * * * * *
690904 TTGAAAATATATAATATATAATTTTTAAAAAAAACGGTTTTTGAAAATATATATAATATGGTTTT
1 TTGAAAATATAT--TATATAGTTTTGAAAAACAA---TTTTTGAAAACATATATTATATAGTTTT
*
690969 GAAAACA-TT
61 GAAAATACTT
* * ** * *
690978 TTAAAAATATATATATTATATATATTTTTAAAAC-ATTTTTAAAAATATATATAATATATAGTTT
1 TTGAAAATATAT-TA-TATA-GT-TTTGAAAAACAATTTTTGAAAACATATAT--TATATAGTTT
*
691042 TGAAAATATTT
60 TGAAAATACTT
* ** *
691053 TTGAAAATGTATATAATATATAGTTTTTAAAAA-TGTTTTAAAT-ATATATATATATATAATATA
1 TTGAAAA--TATAT--TATATAGTTTTGAAAAACAATTTT---TGA-A-A-ACATATAT--TATA
*
691116 TAGTTTTGAAAATATTT
54 TAGTTTTGAAAATACTT
691133 TTGAAAATATATTATATAGTTTT-AAAAACAATTTTTG-AAA-ATATATTATATAGTTTTGAAAA
1 TTGAAAATATATTATATAGTTTTGAAAAACAATTTTTGAAAACATATATTATATAGTTTTGAAAA
691195 TCAACTT
66 T--ACTT
* * * *
691202 TTGAATATATATTATATAGTTTTGAAAATCAATTTTTGAAAACATATATTATATAATTTAGAAAA
1 TTGAAAATATATTATATAGTTTTGAAAAACAATTTTTGAAAACATATATTATATAGTTTTGAAAA
691267 CATTTTATTT
Statistics
Matches: 248, Mismatches: 18, Indels: 48
0.79 0.06 0.15
Matches are distributed among these distances:
67 17 0.07
69 31 0.12
70 14 0.06
71 4 0.02
72 37 0.15
73 4 0.02
74 30 0.12
75 28 0.11
76 24 0.10
77 10 0.04
78 10 0.04
79 1 0.00
80 38 0.15
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.45
Consensus pattern (70 bp):
TTGAAAATATATTATATAGTTTTGAAAAACAATTTTTGAAAACATATATTATATAGTTTTGAAAA
TACTT
Found at i:691323 original size:15 final size:13
Alignment explanation
Indices: 691285--691333 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 13
691275 TTTTTCGACA
691285 TATTATTATATAT
1 TATTATTATATAT
691298 TA-TATTA-ATAT
1 TATTATTATATAT
691309 TAGTTATATATATAT
1 TA-TTAT-TATATAT
691324 TATGTATTAT
1 TAT-TATTAT
691334 TTTATGTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
11 6 0.19
12 5 0.16
13 5 0.16
14 6 0.19
15 9 0.29
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (13 bp):
TATTATTATATAT
Found at i:695241 original size:182 final size:182
Alignment explanation
Indices: 694931--695285 Score: 595
Period size: 182 Copynumber: 2.0 Consensus size: 182
694921 TTATTCATCC
*
694931 GAAGTAGGTTAGCATGCTACATTTAAACCAACATACTCTAATGGTTTTGGTTTGCTTCATAACAT
1 GAAGTAGGTTAGCATGCTACATTTAAACCAACATACTCTAAAGGTTTTGGTTTGCTTCATAACAT
* * *
694996 TACAGGCTGTTTTTATTGATATATATGTCTGTGCCGGATGCAAGCTTTCAAACTATGTTGAGTGA
66 CACAGCCTGTTTTTATTGATATATATGTCTGTGCCGGATGCAAGATTTCAAACTATGTTGAGTGA
*
695061 TGCACGTTTGAGGCAGTTTTGTCAAACAATTTATTATTGAGTTTCAAACTAT
131 TGCACGTTTGAGGCAGTTTTGTCAAACAATTTATAATTGAGTTTCAAACTAT
* * *
695113 GAAGTAGGTTAGTATGCTACATTTAAACCAACATACTGTAAAGGTTTTGGTTTGCTTCATAGCAT
1 GAAGTAGGTTAGCATGCTACATTTAAACCAACATACTCTAAAGGTTTTGGTTTGCTTCATAACAT
* * *
695178 CACAGCCTTTTTTTATTGATA-ATTATGTCTGTGCCGGATGCAGGATTTCAAACTATTTTGAGTG
66 CACAGCCTGTTTTTATTGATATA-TATGTCTGTGCCGGATGCAAGATTTCAAACTATGTTGAGTG
695242 ATGCACGTTTGAGGCAGTTTTGTCAAACAATTTATAATTGAGTT
130 ATGCACGTTTGAGGCAGTTTTGTCAAACAATTTATAATTGAGTT
695286 CCGAACTGAG
Statistics
Matches: 161, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
181 1 0.01
182 160 0.99
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (182 bp):
GAAGTAGGTTAGCATGCTACATTTAAACCAACATACTCTAAAGGTTTTGGTTTGCTTCATAACAT
CACAGCCTGTTTTTATTGATATATATGTCTGTGCCGGATGCAAGATTTCAAACTATGTTGAGTGA
TGCACGTTTGAGGCAGTTTTGTCAAACAATTTATAATTGAGTTTCAAACTAT
Found at i:696764 original size:24 final size:23
Alignment explanation
Indices: 696711--696766 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
696701 TGAAAGATAC
* *
696711 ATTATATA-AAAAGATTTTTTAA
1 ATTATATATAAAAGATTATTGAA
* *
696733 AATCTATATAAAAGTATTATTGAA
1 ATTATATATAAAAG-ATTATTGAA
696757 ATTATATATA
1 ATTATATATA
696767 TGACAAAAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 6 0.23
23 5 0.19
24 15 0.58
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (23 bp):
ATTATATATAAAAGATTATTGAA
Found at i:696809 original size:76 final size:79
Alignment explanation
Indices: 696675--696828 Score: 217
Period size: 76 Copynumber: 2.0 Consensus size: 79
696665 TATAATTTAA
* * *
696675 AAATTATATATGTATGACAAAAAACATGAAAGATACATTATATAAAAAGATTTTTTAAAATCTAT
1 AAATTATATA-GTATGACAAAAAACATGAAAAATACATAATATAAAAAGATTTGTTAAAATCTAT
696740 ATAAA-AGTATTATTG
65 ATAAACA-TATTATTG
* *
696755 AAATTATATA-TATGAC-AAAAACAT-AAAAATATATAATATAAAAAGATTTGTTAAAATCTGTA
1 AAATTATATAGTATGACAAAAAACATGAAAAATACATAATATAAAAAGATTTGTTAAAATCTATA
696817 TAAACATATTAT
66 TAAACATATTAT
696829 CATTGGTCAC
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
76 43 0.63
77 9 0.13
78 6 0.09
80 10 0.15
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.34
Consensus pattern (79 bp):
AAATTATATAGTATGACAAAAAACATGAAAAATACATAATATAAAAAGATTTGTTAAAATCTATA
TAAACATATTATTG
Found at i:696989 original size:77 final size:80
Alignment explanation
Indices: 696852--697007 Score: 178
Period size: 77 Copynumber: 2.0 Consensus size: 80
696842 ACTAAAAATA
* * * **
696852 AATTAAAGTATTAACGATGGAGAAATGATTATCCGAATAATTATTTATTAAATCCGTAAAA-A-A
1 AATTAAAGTATTAACGATAGAGAAATGATAATCCGAATAATCATTTATTAAATCAATAAAATATA
696915 ATATTTAAA-CACTC
66 ATATTTAAATCACTC
* * *
696929 AATTAAAGTATTAATC-TTAGAGAAATGATCAAT-CGAATTATCATTTGTTAAATCAATAAAATA
1 AATTAAAGTATTAA-CGATAGAGAAATGAT-AATCCGAATAATCATTTATTAAATCAATAAAATA
*
696992 TTATATTTAAATCACT
64 TAATATTTAAATCACT
697008 AAAGTCTGTA
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
77 48 0.74
78 4 0.06
79 9 0.14
80 4 0.06
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.35
Consensus pattern (80 bp):
AATTAAAGTATTAACGATAGAGAAATGATAATCCGAATAATCATTTATTAAATCAATAAAATATA
ATATTTAAATCACTC
Found at i:698473 original size:34 final size:32
Alignment explanation
Indices: 698410--698543 Score: 118
Period size: 32 Copynumber: 4.1 Consensus size: 32
698400 ATTTTAACAT
698410 TTTTTTATTTTGTTTTT-T-ATTATATTTTATTA
1 TTTTTTATTTT-TTTTTATCATTATA-TTTATTA
* *
698442 TTTTTTAGTTTTTTTTACTCAATTTTATTTATCTA
1 TTTTTTATTTTTTTTTA-TC-ATTATATTTAT-TA
*
698477 TTTTATTTATTTTTTTATTATCATTATA-TTAATA
1 -TTT-TTTATTTTTTT-TTATCATTATATTTATTA
*
698511 TTTTTTATTATTTTTT-TCATT-TATTT-TTA
1 TTTTTTATTTTTTTTTATCATTATATTTATTA
698540 TTTT
1 TTTT
698544 ACAATCTAAC
Statistics
Matches: 86, Mismatches: 7, Indels: 21
0.75 0.06 0.18
Matches are distributed among these distances:
29 8 0.09
30 7 0.08
31 7 0.08
32 20 0.23
33 4 0.05
34 7 0.08
35 10 0.12
36 8 0.09
37 12 0.14
38 3 0.03
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (32 bp):
TTTTTTATTTTTTTTTATCATTATATTTATTA
Found at i:698479 original size:13 final size:12
Alignment explanation
Indices: 698463--698535 Score: 53
Period size: 13 Copynumber: 6.0 Consensus size: 12
698453 TTTTTACTCA
698463 ATTTTATTTATCT
1 ATTTTATTTAT-T
698476 ATTTTATTTATT
1 ATTTTATTTATT
*
698488 TTTTTATTATCATT
1 ATTTTATT-T-ATT
* *
698502 ATATTA-ATATT
1 ATTTTATTTATT
698513 -TTTTA-TTATT
1 ATTTTATTTATT
*
698523 TTTTTCATTTATT
1 ATTTT-ATTTATT
698536 TTTATTTTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
10 8 0.16
11 7 0.14
12 10 0.20
13 17 0.35
14 7 0.14
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (12 bp):
ATTTTATTTATT
Found at i:698503 original size:21 final size:24
Alignment explanation
Indices: 698464--698521 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
698454 TTTTACTCAA
* *
698464 TTTTATTTATCTATTTTATTTAT-TT
1 TTTTA-TTATC-ATTATATTAATATT
698489 TTTTATTATCATTATATTAATATT
1 TTTTATTATCATTATATTAATATT
698513 TTTTATTAT
1 TTTTATTAT
698522 TTTTTTCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 9 0.30
24 16 0.53
25 5 0.17
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTATTATCATTATATTAATATT
Found at i:698525 original size:10 final size:10
Alignment explanation
Indices: 698422--698543 Score: 63
Period size: 10 Copynumber: 11.4 Consensus size: 10
698412 TTTTATTTTG
698422 TTTTTTATTA
1 TTTTTTATTA
*
698432 TATTTTATTA
1 TTTTTTATTA
698442 TTTTTTAGTT-
1 TTTTTTA-TTA
*
698452 TTTTTTACTCA
1 TTTTTTA-TTA
*
698463 -ATTTTATTTA
1 TTTTTTA-TTA
698473 TCTATTTTATTTA
1 T-T-TTTTA-TTA
698486 TTTTTTTATTA
1 -TTTTTTATTA
*
698497 TCATTATATTAATA
1 T--TT-T-TTATTA
698511 TTTTTTATTA
1 TTTTTTATTA
*
698521 TTTTTT-TCA
1 TTTTTTATTA
698530 TTTATTT-TTA
1 TTT-TTTATTA
698540 TTTT
1 TTTT
698544 ACAATCTAAC
Statistics
Matches: 89, Mismatches: 12, Indels: 23
0.72 0.10 0.19
Matches are distributed among these distances:
9 6 0.07
10 50 0.56
11 6 0.07
12 9 0.10
13 11 0.12
14 7 0.08
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:701518 original size:12 final size:11
Alignment explanation
Indices: 701498--701576 Score: 68
Period size: 12 Copynumber: 6.6 Consensus size: 11
701488 AGATTTAATC
*
701498 AAAACAAAAAG
1 AAAAAAAAAAG
701509 AAAAAGAAAAAAG
1 -AAAA-AAAAAAG
701522 AAAAAAGAAAAG
1 AAAAAA-AAAAG
*
701534 AAGGAAAAAAAG
1 AA-AAAAAAAAG
*
701546 AAGGAAAAAAAG
1 AA-AAAAAAAAG
*
701558 AAAAAAGAAAG
1 AAAAAAAAAAG
701569 AACAAAAA
1 AA-AAAAA
701577 TCAAAAAGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
11 11 0.19
12 38 0.66
13 9 0.16
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:701519 original size:7 final size:7
Alignment explanation
Indices: 701503--701589 Score: 72
Period size: 7 Copynumber: 12.6 Consensus size: 7
701493 TAATCAAAAC
701503 AAAAAG-
1 AAAAAGA
701509 AAAAAGA
1 AAAAAGA
701516 AAAAAGA
1 AAAAAGA
701523 AAAAAGA
1 AAAAAGA
*
701530 AAAGAAGG
1 AAA-AAGA
701538 AAAAA-A
1 AAAAAGA
* *
701544 AGAAGGAA
1 AAAAAG-A
701552 AAAAAGA
1 AAAAAGA
701559 AAAAAGA
1 AAAAAGA
* *
701566 AAGAA-C
1 AAAAAGA
**
701572 AAAAATC
1 AAAAAGA
701579 AAAAAGA
1 AAAAAGA
701586 AAAA
1 AAAA
701590 GGAACAAAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
6 13 0.20
7 41 0.63
8 11 0.17
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.01
Consensus pattern (7 bp):
AAAAAGA
Found at i:701528 original size:20 final size:20
Alignment explanation
Indices: 701503--701589 Score: 77
Period size: 20 Copynumber: 4.2 Consensus size: 20
701493 TAATCAAAAC
701503 AAAAAGAAAAAGAAAAAAGA
1 AAAAAGAAAAAGAAAAAAGA
701523 AAAAAGAAAAGAAGGAAAAAAAGA
1 AAAAAG-AAA-AA-G-AAAAAAGA
**
701547 AGGAA-AAAAAGAAAAAAGA
1 AAAAAGAAAAAGAAAAAAGA
* * **
701566 AAGAACAAAAATCAAAAAGA
1 AAAAAGAAAAAGAAAAAAGA
701586 AAAA
1 AAAA
701590 GGAACAAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
19 12 0.21
20 22 0.39
21 5 0.09
22 5 0.09
23 1 0.02
24 11 0.20
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.01
Consensus pattern (20 bp):
AAAAAGAAAAAGAAAAAAGA
Found at i:701599 original size:43 final size:43
Alignment explanation
Indices: 701509--701599 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 43
701499 AAACAAAAAG
* *
701509 AAAAAGAAAAAAGAAAAAAGAAAAGAAGGAAAAAAAGAAGGAA
1 AAAAAGAAAAAAGAAAAAAGAAAAGAAGCAAAAAAAAAAGGAA
* * *
701552 AAAAAGAAAAAAGAAAGAA-CAAA-AATCAAAAAGAAAAAGGAA
1 AAAAAGAAAAAAGAAAAAAGAAAAGAAGCAAAAA-AAAAAGGAA
701594 CAAAAA
1 -AAAAA
701600 AGCACATGCA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 7 0.17
42 11 0.27
43 23 0.56
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.01
Consensus pattern (43 bp):
AAAAAGAAAAAAGAAAAAAGAAAAGAAGCAAAAAAAAAAGGAA
Found at i:702228 original size:22 final size:22
Alignment explanation
Indices: 702200--702250 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
702190 CCCCATCAAT
702200 CCTTTGAGCATCAAATACCAAA
1 CCTTTGAGCATCAAATACCAAA
*
702222 CCTTTGAGCATCAAATGCCAAA
1 CCTTTGAGCATCAAATACCAAA
702244 CCTTTGA
1 CCTTTGA
702251 CCAAACACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (22 bp):
CCTTTGAGCATCAAATACCAAA
Found at i:703180 original size:106 final size:106
Alignment explanation
Indices: 702995--704253 Score: 2234
Period size: 106 Copynumber: 11.9 Consensus size: 106
702985 TCGAGAGCGG
* ** * *
702995 AGTTCAACTTCACAACGAAGGGATGGATGGTTGTCAACAAACAACTTATCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAAT
703060 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* *
703101 AGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCATAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAAT
703166 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
*
703207 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGTCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAAT
* *
703272 TTCAACTTCACAACGAAGGATATTGGAATCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
*
703313 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTAAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAAT
703378 TTCAACTTCACAGCGAAGGATATT-GACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* *
703418 AGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAACAACTTATCAATTTCAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAAT
703483 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
*
703524 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCATAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAAT
703589 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* *
703630 AGTTCAAATTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGTCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAAT
*
703695 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
*
703736 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAAT
703801 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
*
703842 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGTCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAAT
*
703907 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
* * *
703948 AGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAACAAACAACTTCTCAATTTTAGAGTCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAAT
704013 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
** *
704054 AGTTCAACTTCATAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCATAGCCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAAT
704119 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
*
704160 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC-ATTTCAGAGTCAAT
1 AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAAT
* * *
704224 TTTAACTTCACGGCGGAGGATATTGGACTC
66 TTCAACTTCACAGCGAAGGATATTGGACTC
704254 GAAACAGTAC
Statistics
Matches: 1105, Mismatches: 47, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
105 140 0.13
106 965 0.87
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
AGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAAT
TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCA
Found at i:704664 original size:252 final size:251
Alignment explanation
Indices: 704211--704666 Score: 528
Period size: 252 Copynumber: 1.8 Consensus size: 251
704201 CAACTTCTCA
* * * *
704211 TTTCAGAGTCAATTTTAACTTCACGGCGGAGGATATTGGACTCGAAACAGTACAACTTACTTGGA
1 TTTCAGAGTCAATTTCAACTTCACGGCGAAGAATATTGGACTCGAAACAGCACAACTTACTTGGA
* * * * * * *
704276 TTTCAACTTCACGACGAAGGATATCCAATTACAGGCTCAACTTCACGACGAAGGGGCTACCCGCG
66 TTTCAACTTCACGACGAAGGATATCCAATTACAAGCTCAAATTCACGACGAAAGAGCCACACACG
* * * * * * ***
704341 GTTTCAACTTCACGACGAAGGGAATCGTGCACACAAGCAGCATCCATCTTTAGATTGGATTTCAA
131 ATTACAACTTCACGACGAAGGGAATCGTGCACACAACCACCA-CAATCTTAAGACAAGATTTCAA
704406 CTTCACGACGGAGGATATTCAACTCGAAGAAGGAGTGTCTGTCAATAAATTTTCCAG
195 CTTCACGACGGAGGATATTCAACTCGAAGAAGGAGTGTCTGTCAATAAATTTTCCAG
* * **
704463 TTTCAGAGTCAATTTCAACTTCACGGCGAAGAATATTGGCCTTGAAACAGCGTAACTTACATTGG
1 TTTCAGAGTCAATTTCAACTTCACGGCGAAGAATATTGGACTCGAAACAGCACAACTTAC-TTGG
* * *
704528 ATTTCAACTTCCCGACGAAGGATATCCAATTTTCAAGCTCAAATTCACGACGAAAGAGCCACATA
65 ATTTCAACTTCACGACGAAGGATATCCAA-TTACAAGCTCAAATTCACGACGAAAGAGCCACACA
* *
704593 C-ATATACAACTTCACGACGAAGGGGTCATC-TGTA-AC-ACCACCA-AAGTCTTCAAGACAAG-
129 CGAT-TACAACTTCACGACGAA-GGG-AATCGTGCACACAACCACCACAA-TCTT-AAGACAAGA
*
704652 TTTCACCTTCACGAC
189 TTTCAACTTCACGAC
704667 AAAGTATCTT
Statistics
Matches: 167, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
251 1 0.01
252 70 0.42
253 42 0.25
254 45 0.27
255 6 0.04
256 3 0.02
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (251 bp):
TTTCAGAGTCAATTTCAACTTCACGGCGAAGAATATTGGACTCGAAACAGCACAACTTACTTGGA
TTTCAACTTCACGACGAAGGATATCCAATTACAAGCTCAAATTCACGACGAAAGAGCCACACACG
ATTACAACTTCACGACGAAGGGAATCGTGCACACAACCACCACAATCTTAAGACAAGATTTCAAC
TTCACGACGGAGGATATTCAACTCGAAGAAGGAGTGTCTGTCAATAAATTTTCCAG
Found at i:706152 original size:34 final size:31
Alignment explanation
Indices: 706089--706221 Score: 114
Period size: 32 Copynumber: 4.1 Consensus size: 31
706079 ATTTTAACAT
*
706089 TTTTTTATTTTGTTTT-TTATTATATTTTATTA
1 TTTTTTATTTT-TTTTATCATTATA-TTTATTA
*
706121 TTTTTTAGTTTTTTTTACTCAATTTTATTTATCTAA
1 TTTTTTA-TTTTTTTTA-TC-ATTATATTTAT-T-A
*
706157 TTTATTTATTTTTTATTATCATTATA-TTAATA
1 TTT-TTTATTTTTT-TTATCATTATATTTATTA
706189 TTTTTTATTATTTTTT-TCATT-TATTT-TTA
1 TTTTTTATT-TTTTTTATCATTATATTTATTA
706218 TTTT
1 TTTT
706222 ACAATCTAAC
Statistics
Matches: 86, Mismatches: 5, Indels: 23
0.75 0.04 0.20
Matches are distributed among these distances:
29 8 0.09
30 7 0.08
31 8 0.09
32 19 0.22
33 5 0.06
34 9 0.10
35 11 0.13
36 12 0.14
37 7 0.08
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.73
Consensus pattern (31 bp):
TTTTTTATTTTTTTTATCATTATATTTATTA
Found at i:706170 original size:24 final size:24
Alignment explanation
Indices: 706143--706197 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
706133 TTTTACTCAA
706143 TTTTATTTATCTAATT-TATT-TATT
1 TTTTATTTATC--ATTATATTATATT
706167 TTTTA-TTATCATTATATTAATATT
1 TTTTATTTATCATTATATT-ATATT
706191 TTTTATT
1 TTTTATT
706198 ATTTTTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
21 3 0.11
22 4 0.15
23 5 0.19
24 14 0.52
25 1 0.04
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTATTTATCATTATATTATATT
Found at i:706203 original size:10 final size:10
Alignment explanation
Indices: 706101--706221 Score: 61
Period size: 10 Copynumber: 11.4 Consensus size: 10
706091 TTTTATTTTG
706101 TTTTTTATTA
1 TTTTTTATTA
*
706111 TATTTTATTA
1 TTTTTTATTA
706121 TTTTTTAGTT-
1 TTTTTTA-TTA
*
706131 TTTTTTACTCAA
1 TTTTTTA-T-TA
706143 TTTTATTTATCTAA
1 -TTT-TTTAT-T-A
706157 TTTATTTATT-
1 TTT-TTTATTA
*
706167 TTTTATTATCA
1 TTTT-TTATTA
* *
706178 TTATATTAATA
1 TT-TTTTATTA
706189 TTTTTTATTA
1 TTTTTTATTA
*
706199 TTTTTT-TCA
1 TTTTTTATTA
706208 TTTATTT-TTA
1 TTT-TTTATTA
706218 TTTT
1 TTTT
706222 ACAATCTAAC
Statistics
Matches: 88, Mismatches: 13, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
9 7 0.08
10 50 0.57
11 10 0.11
12 2 0.02
13 14 0.16
14 5 0.06
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.72
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:708380 original size:42 final size:42
Alignment explanation
Indices: 708324--708443 Score: 161
Period size: 42 Copynumber: 2.9 Consensus size: 42
708314 TTTCCTTAAA
*
708324 TTTT-CGTGTTTGTTTTACGTAATTCGTTTTCCAGAAAATAT
1 TTTTCCGTGTTTGTTTAACGTAATTCGTTTTCCAGAAAATAT
* * * *
708365 TTTTCCGTGTTTGTTTCACGTAATTCTTTTTCCGGAAAATGT
1 TTTTCCGTGTTTGTTTAACGTAATTCGTTTTCCAGAAAATAT
* * *
708407 TTTCCCATGTTTGTTTAACGTAATTGGTTTTCCAGAA
1 TTTTCCGTGTTTGTTTAACGTAATTCGTTTTCCAGAA
708444 TGTAATTCAT
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
41 4 0.06
42 64 0.94
ACGTcount: A:0.20, C:0.15, G:0.16, T:0.49
Consensus pattern (42 bp):
TTTTCCGTGTTTGTTTAACGTAATTCGTTTTCCAGAAAATAT
Found at i:708639 original size:22 final size:22
Alignment explanation
Indices: 708614--708694 Score: 65
Period size: 22 Copynumber: 3.5 Consensus size: 22
708604 ATTTATTTAT
708614 TAATATTTATAATAATATAATA
1 TAATATTTATAATAATATAATA
* *
708636 TAATATTTTTAATATTATATAAAA
1 TAATATTTATAATA--ATATAATA
* *
708660 TAATCAATTAT-ATTATAATAATA
1 TAAT-ATTTATAATAAT-ATAATA
*
708683 TAAGATATTATA
1 TAATAT-TTATA
708695 TTTTTATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
22 16 0.36
23 12 0.27
24 13 0.29
25 4 0.09
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (22 bp):
TAATATTTATAATAATATAATA
Found at i:708800 original size:23 final size:23
Alignment explanation
Indices: 708774--708818 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
708764 AATAATATTT
708774 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
708797 TAATTAATATGTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
708819 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:709463 original size:14 final size:15
Alignment explanation
Indices: 709438--709466 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
709428 ACTTATTGTT
709438 TATATATATTATAAA
1 TATATATATTATAAA
709453 TATAT-TATTATAAA
1 TATATATATTATAAA
709467 AATAATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TATATATATTATAAA
Found at i:709473 original size:3 final size:3
Alignment explanation
Indices: 709462--709492 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
709452 ATATATTATT
*
709462 ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
709493 ATGCATTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:713876 original size:48 final size:48
Alignment explanation
Indices: 713820--713929 Score: 211
Period size: 48 Copynumber: 2.3 Consensus size: 48
713810 ATAAATCAAA
*
713820 ACATAAGAGATTAATTGTTAAGCTTTTGTACATATGCAATTCAATATC
1 ACATAAGAGATTAATTGGTAAGCTTTTGTACATATGCAATTCAATATC
713868 ACATAAGAGATTAATTGGTAAGCTTTTGTACATATGCAATTCAATATC
1 ACATAAGAGATTAATTGGTAAGCTTTTGTACATATGCAATTCAATATC
713916 ACATAAGAGATTAA
1 ACATAAGAGATTAA
713930 ATTAGGGGAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 61 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (48 bp):
ACATAAGAGATTAATTGGTAAGCTTTTGTACATATGCAATTCAATATC
Found at i:714219 original size:27 final size:27
Alignment explanation
Indices: 714189--714244 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
714179 TTCATTATAG
714189 AAAAGATACAAAGTTTGATCAAAACTA
1 AAAAGATACAAAGTTTGATCAAAACTA
714216 AAAAGATACAAAGTTTGATCAAAACTA
1 AAAAGATACAAAGTTTGATCAAAACTA
714243 AA
1 AA
714245 CATATGAGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.21
Consensus pattern (27 bp):
AAAAGATACAAAGTTTGATCAAAACTA
Found at i:714677 original size:37 final size:37
Alignment explanation
Indices: 714636--714707 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
714626 GGGATACATG
* *
714636 ATAACCAACAATGAACACATTACATGATAAACCAGTT
1 ATAACCAACAATGAACACAATACACGATAAACCAGTT
*
714673 ATAACCAACAATGAACACAATACACGATCAACCAG
1 ATAACCAACAATGAACACAATACACGATAAACCAG
714708 CCAAAACAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.50, C:0.25, G:0.08, T:0.17
Consensus pattern (37 bp):
ATAACCAACAATGAACACAATACACGATAAACCAGTT
Found at i:718867 original size:15 final size:14
Alignment explanation
Indices: 718835--718873 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
718825 ATATAATTAA
*
718835 TATATATTTATGTT
1 TATATATTTATGTG
718849 TATATATTATATGTG
1 TATATATT-TATGTG
718864 TATATTATTT
1 TATA-TATTT
718874 GTAATATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 10 0.45
16 4 0.18
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (14 bp):
TATATATTTATGTG
Found at i:719336 original size:2 final size:2
Alignment explanation
Indices: 719329--719364 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
719319 GTCCATTTCT
719329 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
719365 CACAATTACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:720362 original size:20 final size:18
Alignment explanation
Indices: 720336--720398 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
720326 TAAATATATG
720336 AATATTTAAATTTATATAA
1 AATATTTAAATTTAT-TAA
*
720355 AATGATTTATTAATGTATTAA
1 AAT-ATTTA--AATTTATTAA
*
720376 AATATTTAAATTTATTTA
1 AATATTTAAATTTATTAA
720394 AATAT
1 AATAT
720399 AAACTCATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 13 0.34
19 3 0.08
20 10 0.26
21 6 0.16
22 6 0.16
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
AATATTTAAATTTATTAA
Found at i:721957 original size:29 final size:29
Alignment explanation
Indices: 721924--722008 Score: 100
Period size: 32 Copynumber: 2.8 Consensus size: 29
721914 TAGATAGTGA
721924 CAAATCTCCATCTTCTCTGCGGCAGTTAC
1 CAAATCTCCATCTTCTCTGCGGCAGTTAC
*
721953 CAAATCTCCATTTTCTTCTCTGCGACAGTTAC
1 CAAATCTCCA---TCTTCTCTGCGGCAGTTAC
* *
721985 CAAATCTGC-TCAATCTCTGCGGCA
1 CAAATCTCCATC-TTCTCTGCGGCA
722009 ATTCAGAAGT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
28 2 0.04
29 20 0.42
32 26 0.54
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.32
Consensus pattern (29 bp):
CAAATCTCCATCTTCTCTGCGGCAGTTAC
Found at i:722135 original size:22 final size:22
Alignment explanation
Indices: 722110--722163 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
722100 CGTTATATTC
722110 TTTTACTTTTA-C-TAGTTTTCAA
1 TTTTACTTTTATCATAG-TTT-AA
*
722132 TTTTAGTTTTATCATAGTTTAA
1 TTTTACTTTTATCATAGTTTAA
*
722154 TATTACTTTT
1 TTTTACTTTT
722164 TTTTCTTGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 20 0.74
23 4 0.15
24 3 0.11
ACGTcount: A:0.24, C:0.09, G:0.06, T:0.61
Consensus pattern (22 bp):
TTTTACTTTTATCATAGTTTAA
Found at i:723525 original size:39 final size:40
Alignment explanation
Indices: 723450--723544 Score: 104
Period size: 39 Copynumber: 2.4 Consensus size: 40
723440 CCAGTAAGGG
* * * *
723450 CTTACCCTGTGCACAAAGCAGATGAACCTCCGATAA-GAT
1 CTTACCCTGTGCACAAAACAGAGGAACATCCAATAAGGAT
* * *
723489 CTTATCCTGTGCACAAAACAGAGGAGCATGCAATAAGGAT
1 CTTACCCTGTGCACAAAACAGAGGAACATCCAATAAGGAT
*
723529 -TTACCCTGAGCACAAA
1 CTTACCCTGTGCACAAA
723545 GTCGAGGAGC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
39 43 0.93
40 3 0.07
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (40 bp):
CTTACCCTGTGCACAAAACAGAGGAACATCCAATAAGGAT
Found at i:723552 original size:39 final size:39
Alignment explanation
Indices: 723509--723636 Score: 149
Period size: 39 Copynumber: 3.3 Consensus size: 39
723499 GCACAAAACA
* *
723509 GAGGAG-CATGCAATAAGGATTTACCCTGAGCACAAAGTC
1 GAGGAGCCATGC-GTAAGGACTTACCCTGAGCACAAAGTC
*
723548 GAGGAGCCTATG-GTAAGGACTTACCCTGAGCACAAAGTT
1 GAGGAGCC-ATGCGTAAGGACTTACCCTGAGCACAAAGTC
* *
723587 GAGGAGTC-TGCGGTAAGGACTTATCCTGAGCACAAAG-C
1 GAGGAGCCATGC-GTAAGGACTTACCCTGAGCACAAAGTC
723625 GAGGAGCC-TGCG
1 GAGGAGCCATGCG
723637 GAAAGCGATA
Statistics
Matches: 78, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
37 3 0.04
38 10 0.13
39 61 0.78
40 1 0.01
41 3 0.04
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.18
Consensus pattern (39 bp):
GAGGAGCCATGCGTAAGGACTTACCCTGAGCACAAAGTC
Found at i:723583 original size:78 final size:77
Alignment explanation
Indices: 723444--723633 Score: 186
Period size: 78 Copynumber: 2.4 Consensus size: 77
723434 GTACACCCAG
* * * * ** * * *
723444 TAAGGGCTTACCCTGTGCACAAAGCAGATGAACCTCCGATAA-GATCTTATCCTGTGCACAAAAC
1 TAAGGACTTACCCTGAGCACAAAGC-GAGGAGCCTATGGTAAGGA-CTTACCCTGAGCACAAAAC
723508 AGAGGAG-CATGCAA
64 AGAGGAGTC-TGCAA
* ***
723522 TAAGGATTTACCCTGAGCACAAAGTCGAGGAGCCTATGGTAAGGACTTACCCTGAGCACAAAGTT
1 TAAGGACTTACCCTGAGCACAAAG-CGAGGAGCCTATGGTAAGGACTTACCCTGAGCACAAAACA
**
723587 GAGGAGTCTGCGG
65 GAGGAGTCTGCAA
*
723600 TAAGGACTTATCCTGAGCACAAAGCGAGGAGCCT
1 TAAGGACTTACCCTGAGCACAAAGCGAGGAGCCT
723634 GCGGAAAGCG
Statistics
Matches: 92, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
77 10 0.11
78 78 0.85
79 4 0.04
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (77 bp):
TAAGGACTTACCCTGAGCACAAAGCGAGGAGCCTATGGTAAGGACTTACCCTGAGCACAAAACAG
AGGAGTCTGCAA
Found at i:724986 original size:28 final size:30
Alignment explanation
Indices: 724941--725002 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
724931 AATTTGGATA
* * *
724941 CGAATTTAATCAAAAATTCACTTTGGT-CT
1 CGAATTAAATCAAAAATTCAATTTAGTCCT
724970 CGAATTAAATC-AAAATTCAATTTAGTCCT
1 CGAATTAAATCAAAAATTCAATTTAGTCCT
724999 CGAA
1 CGAA
725003 ATATTTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 13 0.45
29 16 0.55
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.34
Consensus pattern (30 bp):
CGAATTAAATCAAAAATTCAATTTAGTCCT
Found at i:730492 original size:39 final size:39
Alignment explanation
Indices: 730428--730560 Score: 133
Period size: 39 Copynumber: 3.4 Consensus size: 39
730418 ACCATACACC
* * * * *
730428 CAGTAAGGGCTTACCCTGTGCACAAAGCATAGGAGCTTG
1 CAGTAAGGTCTTACCCTATGCACAAAGCAGAGAAGCCTG
* *
730467 CAGTAAGGTCTTATCCTATGGACAAAGCAGAGAAGCCTG
1 CAGTAAGGTCTTACCCTATGCACAAAGCAGAGAAGCCTG
** * * *
730506 CAGTAAGGTCTTACCCTAACCACAAAGCCGAGGAGCTTG
1 CAGTAAGGTCTTACCCTATGCACAAAGCAGAGAAGCCTG
*
730545 CTA-TAAGGACTTACCC
1 C-AGTAAGGTCTTACCC
730561 CGAGCACAAA
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 77 0.99
40 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.20
Consensus pattern (39 bp):
CAGTAAGGTCTTACCCTATGCACAAAGCAGAGAAGCCTG
Found at i:731358 original size:14 final size:14
Alignment explanation
Indices: 731339--731371 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
731329 TAGGGTCAAA
731339 GTCAATGGTTAATG
1 GTCAATGGTTAATG
*
731353 GTCAATGGTTAGTG
1 GTCAATGGTTAATG
731367 GTCAA
1 GTCAA
731372 CGGTCGGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.27, C:0.09, G:0.30, T:0.33
Consensus pattern (14 bp):
GTCAATGGTTAATG
Found at i:737266 original size:24 final size:24
Alignment explanation
Indices: 737239--737307 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 24
737229 AAACGGTGAT
*
737239 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* * *
737263 ATCAGATATCAGAACAGAATCCAT
1 ATCAGAAATCAGAACAGAATTCAG
* *
737287 ATTAGAAATCAGAACAAAATT
1 ATCAGAAATCAGAACAGAATT
737308 TAGGTAATGT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.52, C:0.16, G:0.12, T:0.20
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:743845 original size:2 final size:2
Alignment explanation
Indices: 743840--743883 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
743830 TATATAAAGA
743840 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
743881 AT A
1 AT A
743884 ATAATAATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:748039 original size:25 final size:25
Alignment explanation
Indices: 748009--748059 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
747999 ATTTATCTTT
748009 TAAATTTTA-TAAAAAAAATTATATA
1 TAAATTTTATTAAAAAAAA-TATATA
*
748034 TAAATTTTATTAAAAATAATATATA
1 TAAATTTTATTAAAAAAAATATATA
748059 T
1 T
748060 TAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
TAAATTTTATTAAAAAAAATATATA
Found at i:749080 original size:2 final size:2
Alignment explanation
Indices: 749073--749102 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
749063 GTGGGCATAG
749073 TA TA TA TA TA TA TA TA TA TA TA TA GTA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA T
749103 TTTAGGTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:749279 original size:25 final size:25
Alignment explanation
Indices: 749207--749284 Score: 111
Period size: 25 Copynumber: 3.1 Consensus size: 25
749197 TTAAATAATA
* * *
749207 ATTGCATGTTATTAATTCATGTGGT
1 ATTGCATGCTATTAATTCATGTTGC
*
749232 ATTGCACGCTATTAATTCATGTTGC
1 ATTGCATGCTATTAATTCATGTTGC
*
749257 ATTGCATGCTATTAATTCATGTTAC
1 ATTGCATGCTATTAATTCATGTTGC
749282 ATT
1 ATT
749285 AGGTGTTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (25 bp):
ATTGCATGCTATTAATTCATGTTGC
Found at i:752401 original size:18 final size:18
Alignment explanation
Indices: 752352--752405 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 18
752342 AAAATAGAAA
*
752352 AATAATAATCATAACAATAAT
1 AATAGTAAT-ATAA-AAT-AT
752373 AATAGTAATATGAAAATAT
1 AATAGTAATAT-AAAATAT
752392 AATA-TAATATAAAA
1 AATAGTAATATAAAA
752406 AAACCAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 4 0.13
18 6 0.19
19 6 0.19
20 5 0.16
21 10 0.32
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (18 bp):
AATAGTAATATAAAATAT
Found at i:752406 original size:18 final size:19
Alignment explanation
Indices: 752356--752406 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
752346 TAGAAAAATA
*
752356 ATAATCATAACAATAATAAT
1 ATAAT-ATAAAAATAATAAT
*
752376 AGTAATATGAAAAT-ATAAT
1 A-TAATATAAAAATAATAAT
752395 ATAATATAAAAA
1 ATAATATAAAAA
752407 AACCAAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 10 0.37
19 6 0.22
20 7 0.26
21 4 0.15
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (19 bp):
ATAATATAAAAATAATAAT
Found at i:752423 original size:33 final size:33
Alignment explanation
Indices: 752385--752467 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 33
752375 TAGTAATATG
752385 AAAATATAATATAATATAAAAAAACCAAAAACA
1 AAAATATAATATAATATAAAAAAACCAAAAACA
* * *
752418 AAAATA-AATA-AATAT--ATAAACCAAATATA
1 AAAATATAATATAATATAAAAAAACCAAAAACA
*
752447 AAAGTATACATATAATGATAA
1 AAAATATA-ATATAAT-ATAA
752468 TTGACTTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
29 16 0.40
30 1 0.03
31 8 0.20
32 7 0.17
33 8 0.20
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.23
Consensus pattern (33 bp):
AAAATATAATATAATATAAAAAAACCAAAAACA
Found at i:752697 original size:23 final size:24
Alignment explanation
Indices: 752666--752714 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
752656 ACCAAATGAA
752666 TATAAATAAATAA-AAAATATA-TG
1 TATAAAT-AATAATAAAATATAGTG
* *
752689 TATAGATAATAATAATATATAGTG
1 TATAAATAATAATAAAATATAGTG
752713 TA
1 TA
752715 AAAAAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (24 bp):
TATAAATAATAATAAAATATAGTG
Found at i:753229 original size:37 final size:37
Alignment explanation
Indices: 753188--753284 Score: 149
Period size: 37 Copynumber: 2.6 Consensus size: 37
753178 GGATCTTATC
753188 TTTAGGAGTTTAAATCATAGTAGAACTCTATCCTATT
1 TTTAGGAGTTTAAATCATAGTAGAACTCTATCCTATT
* * *
753225 TTTAGGAGTTTAAATCATAGCAAAATTCTATCCTATT
1 TTTAGGAGTTTAAATCATAGTAGAACTCTATCCTATT
* *
753262 TTTAGGAGTTTGAATCCTAGTAG
1 TTTAGGAGTTTAAATCATAGTAG
753285 GACGAAAAGG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.40
Consensus pattern (37 bp):
TTTAGGAGTTTAAATCATAGTAGAACTCTATCCTATT
Found at i:754258 original size:106 final size:106
Alignment explanation
Indices: 753933--755401 Score: 2059
Period size: 106 Copynumber: 14.0 Consensus size: 106
753923 GCATTGTTCT
* * ** *
753933 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGACTCT-AGAACCGGGAAATTGTTTGTTGAC
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGA-AATTGGGAAGTTGTTTGTTGAC
* * *
753996 AACCAGCCGTCCCTTCGTTC-TGAAGTTGAACTTGTGTTGTCTC
64 AACCAGCGGTCCCTTCG-TCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
754039 TAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * * *
754098 TCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGCCTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * * *
754140 G-GTTCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
754204 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
754245 GAGTCCAATATCCTAT-GCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
1 GAGTCCAATATCCT-TCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
754309 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
754351 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
754416 CCAGCGGTCCCTTCGTCTTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
754457 GAGTCCAATATCCTTCGCCGTGAAGTTGAAATTGGCTATGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
754522 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
754563 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
754628 TCAGCGGTCCCTTCGTCGTGAAGTTGAAGTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
754669 GAGCCCAATATCTTTCG-T-T---G-TG-AA---G-T-TGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
754722 CCAGCGATCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
754763 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
754828 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
754869 GAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
754934 CCAGCGGTCCCTTCGTCGTGAAGTTAAACCTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
754975 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
755040 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
755081 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
755146 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
755187 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGATCTGAAATTGGGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
755252 CCAGCGGTCCCTTCTTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
755293 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGAAAATT-ATTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
755357 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
755398 GAGT
1 GAGT
755402 GGCACGATAT
Statistics
Matches: 1230, Mismatches: 108, Indels: 51
0.89 0.08 0.04
Matches are distributed among these distances:
94 77 0.06
95 2 0.00
96 2 0.00
99 5 0.00
100 79 0.06
101 7 0.01
102 4 0.00
104 5 0.00
105 57 0.05
106 990 0.80
107 2 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:756233 original size:22 final size:22
Alignment explanation
Indices: 756207--756283 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
756197 TTATGTTTGG
756207 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
756229 TCAAAGGTTTGGCATTTAATGC
1 TCAAAGGTTTGGCATTTGATGC
*
756251 TCATAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
756273 TCAACGGTTTG
1 TCAAAGGTTTG
756284 ATGGGGTAGC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:756982 original size:172 final size:173
Alignment explanation
Indices: 756678--757024 Score: 556
Period size: 172 Copynumber: 2.0 Consensus size: 173
756668 TAAATAGGCC
* *
756678 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTCTGATGCCTTCAATCATGTCCTG
1 CAAACAAGTGTTTCAGGGTATTGAACCAAGGATCAATTCATTATGATGCCTTCAA-CA-GTCCTG
756743 CTCAAAATGTCTCTCCCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGGAATG
64 CTCAAAATGTCTCTCCCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGGAATG
*
756808 ATTTTGCTTGATCAATCTCATAGTTTGAAGCTTGATGGGCCATTT
129 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGGGCCATTT
*
756853 CAAACAAGTGTTTCAGGGTATTGAACCAAGGATCAATTCATTATGATGTCTTC-A-A-TCCTGCT
1 CAAACAAGTGTTTCAGGGTATTGAACCAAGGATCAATTCATTATGATGCCTTCAACAGTCCTGCT
* * * *
756915 CAAAATGTTTCTCTCTCTTGATGTTCTATGATCTTTGAGTGAAGTGATTCAGTGATTCGGGAATG
66 CAAAATG--TCTCTCCCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGGAATG
*
756980 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
129 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGGGCCATTT
757025 TTTTAGGGAA
Statistics
Matches: 161, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
170 14 0.09
172 96 0.60
174 1 0.01
175 50 0.31
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (173 bp):
CAAACAAGTGTTTCAGGGTATTGAACCAAGGATCAATTCATTATGATGCCTTCAACAGTCCTGCT
CAAAATGTCTCTCCCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGGAATGAT
TGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGGGCCATTT
Found at i:757112 original size:16 final size:15
Alignment explanation
Indices: 757071--757129 Score: 50
Period size: 17 Copynumber: 3.7 Consensus size: 15
757061 TTCTTTTTGA
757071 TTTTTGTTCTTAT-TT
1 TTTTTGTTCTT-TCTT
*
757086 CTCTTTT-TTCTTTGTT
1 -T-TTTTGTTCTTTCTT
757102 TTTTTGCTTCTTTTCTT
1 TTTTTG-TTC-TTTCTT
757119 TTTTTGTTCTT
1 TTTTTGTTCTT
757130 GATTGGATCT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
14 4 0.11
15 4 0.11
16 14 0.38
17 15 0.41
ACGTcount: A:0.02, C:0.14, G:0.07, T:0.78
Consensus pattern (15 bp):
TTTTTGTTCTTTCTT
Found at i:761702 original size:4 final size:4
Alignment explanation
Indices: 761695--761724 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
761685 ATAAAAGGAA
761695 AAAT AAAT AAAT AAAT AAAT AAAT GAAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT A
761725 TTATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:761733 original size:2 final size:2
Alignment explanation
Indices: 761722--761759 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
761712 AATAAATGAA
761722 AT AT -T 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
761760 AATGAGTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:762061 original size:15 final size:15
Alignment explanation
Indices: 762034--762066 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
762024 GTATATATAT
762034 ATATATATATAAAAA
1 ATATATATATAAAAA
762049 ATATAGTAT-TAAAAA
1 ATATA-TATATAAAAA
762064 ATA
1 ATA
762067 ACCAATGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
ATATATATATAAAAA
Found at i:762107 original size:23 final size:24
Alignment explanation
Indices: 762076--762124 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
762066 AACCAATGAA
762076 TATAAATAAATAA-AAAATATA-TG
1 TATAAAT-AATAATAAAATATAGTG
* *
762099 TATAGATAATAATAATATATAGTG
1 TATAAATAATAATAAAATATAGTG
762123 TA
1 TA
762125 AAAAAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (24 bp):
TATAAATAATAATAAAATATAGTG
Done.