Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 111 of 135
Found at i:37892919 original size:6 final size:6
Alignment explanation
Indices: 37892908--37892935 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
37892898 TTTCAGCTGG
37892908 AAGGTC AAGGTC AAGGTC AAGGTC AAGG
1 AAGGTC AAGGTC AAGGTC AAGGTC AAGG
37892936 GATACTGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.36, T:0.14
Consensus pattern (6 bp):
AAGGTC
Found at i:37899356 original size:15 final size:15
Alignment explanation
Indices: 37899336--37899368 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
37899326 TAAATCAAAT
37899336 TTTTATCATATA-TAA
1 TTTTATCAT-TACTAA
37899351 TTTTATCATTACTAA
1 TTTTATCATTACTAA
37899366 TTT
1 TTT
37899369 AAAATTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.12
15 15 0.88
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTATCATTACTAA
Found at i:37901681 original size:12 final size:12
Alignment explanation
Indices: 37901666--37901702 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
37901656 AATTTTATAA
37901666 TTTTTATAATTT
1 TTTTTATAATTT
*
37901678 TTTTTATAAATT
1 TTTTTATAATTT
*
37901690 TGTTTATAATTT
1 TTTTTATAATTT
37901702 T
1 T
37901703 ATGATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (12 bp):
TTTTTATAATTT
Found at i:37902577 original size:12 final size:12
Alignment explanation
Indices: 37902562--37902587 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37902552 AGAAAAAAGT
37902562 TGAAAATTTTGG
1 TGAAAATTTTGG
37902574 TGAAAATTTTGG
1 TGAAAATTTTGG
37902586 TG
1 TG
37902588 CAGGTCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (12 bp):
TGAAAATTTTGG
Found at i:37907161 original size:58 final size:60
Alignment explanation
Indices: 37907051--37907166 Score: 159
Period size: 58 Copynumber: 2.0 Consensus size: 60
37907041 AGTGATTATC
*
37907051 TTAATATTAATTTAATTTAATATTTATATTATTGATAAGTGATCTATTAATTTAATATAT
1 TTAATATTAATTTAATCTAATATTTATATTATTGATAAGTGATCTATTAATTTAATATAT
* *
37907111 TTAATATTAAATTTAATCTAATA-TT-TA-TCTTGATAAGT-ATTGTATTAATTTAATAT
1 TTAATATT-AATTTAATCTAATATTTATATTATTGATAAGTGA-TCTATTAATTTAATAT
37907167 TAAAATGATA
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
57 1 0.02
58 25 0.49
59 2 0.04
60 10 0.20
61 13 0.25
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (60 bp):
TTAATATTAATTTAATCTAATATTTATATTATTGATAAGTGATCTATTAATTTAATATAT
Found at i:37908786 original size:6 final size:6
Alignment explanation
Indices: 37908775--37908810 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
37908765 GAGAACATCG
37908775 AGGCTA AGGCTA AGGCTA AGGCTA AGGCTA AGGCTA
1 AGGCTA AGGCTA AGGCTA AGGCTA AGGCTA AGGCTA
37908811 TTTAATTCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (6 bp):
AGGCTA
Found at i:37921488 original size:99 final size:99
Alignment explanation
Indices: 37921357--37921554 Score: 396
Period size: 99 Copynumber: 2.0 Consensus size: 99
37921347 CTGAAGGTAT
37921357 TTCGGTTGACAAAGCTAAGATCGATATTATTAACTCACTTTCATACCCCACAACTATGAGGGAGA
1 TTCGGTTGACAAAGCTAAGATCGATATTATTAACTCACTTTCATACCCCACAACTATGAGGGAGA
37921422 TCCATTCTTTTCTTGGTCATGCAGGTTTCTACAG
66 TCCATTCTTTTCTTGGTCATGCAGGTTTCTACAG
37921456 TTCGGTTGACAAAGCTAAGATCGATATTATTAACTCACTTTCATACCCCACAACTATGAGGGAGA
1 TTCGGTTGACAAAGCTAAGATCGATATTATTAACTCACTTTCATACCCCACAACTATGAGGGAGA
37921521 TCCATTCTTTTCTTGGTCATGCAGGTTTCTACAG
66 TCCATTCTTTTCTTGGTCATGCAGGTTTCTACAG
37921555 ATGGTTTATC
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.33
Consensus pattern (99 bp):
TTCGGTTGACAAAGCTAAGATCGATATTATTAACTCACTTTCATACCCCACAACTATGAGGGAGA
TCCATTCTTTTCTTGGTCATGCAGGTTTCTACAG
Found at i:37923857 original size:17 final size:18
Alignment explanation
Indices: 37923828--37923864 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
37923818 AATAAATTTT
37923828 AAAACCAACCCAAAA-CC
1 AAAACCAACCCAAAATCC
37923845 AAAACACAA-CCAAAATCC
1 AAAAC-CAACCCAAAATCC
37923863 AA
1 AA
37923865 TTCATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.62, C:0.35, G:0.00, T:0.03
Consensus pattern (18 bp):
AAAACCAACCCAAAATCC
Found at i:37929414 original size:18 final size:17
Alignment explanation
Indices: 37929383--37929416 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
37929373 TTGTGTTCTT
*
37929383 TGTTCTTTGTGCCTTTC
1 TGTTCTTTGAGCCTTTC
37929400 TGTTCTTTTGAGCCTTT
1 TGTTC-TTTGAGCCTTT
37929417 TTTTGGCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.03, C:0.21, G:0.18, T:0.59
Consensus pattern (17 bp):
TGTTCTTTGAGCCTTTC
Found at i:37933506 original size:18 final size:18
Alignment explanation
Indices: 37933483--37933520 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
37933473 TAATATTGCC
37933483 TCCTGACTCTCCTCTCAT
1 TCCTGACTCTCCTCTCAT
37933501 TCCTGACTCTCCTCTCAT
1 TCCTGACTCTCCTCTCAT
37933519 TC
1 TC
37933521 GCAAGGGGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.11, C:0.45, G:0.05, T:0.39
Consensus pattern (18 bp):
TCCTGACTCTCCTCTCAT
Found at i:37937349 original size:5 final size:5
Alignment explanation
Indices: 37937339--37937363 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
37937329 AAACCTACTT
37937339 GAACA GAACA GAACA GAACA GAACA
1 GAACA GAACA GAACA GAACA GAACA
37937364 ACACAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.20, T:0.00
Consensus pattern (5 bp):
GAACA
Found at i:37937732 original size:19 final size:19
Alignment explanation
Indices: 37937708--37937746 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
37937698 TTACAAAAGG
37937708 TTTTTTTAATATATTAATA
1 TTTTTTTAATATATTAATA
37937727 TTTTTTTAATATATTAATA
1 TTTTTTTAATATATTAATA
37937746 T
1 T
37937747 AATTATATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTTTAATATATTAATA
Found at i:37938293 original size:29 final size:29
Alignment explanation
Indices: 37938237--37938293 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
37938227 TAGTTAAATT
* *
37938237 ATCATTTTGGTATATGTATTATTTTTTTA
1 ATCAATTTGGTATATGTATTATTATTTTA
*
37938266 ATCAATTTGGTTTATGTATT-TTCATTTT
1 ATCAATTTGGTATATGTATTATT-ATTTT
37938294 GTATATATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.23, C:0.05, G:0.11, T:0.61
Consensus pattern (29 bp):
ATCAATTTGGTATATGTATTATTATTTTA
Found at i:37938573 original size:19 final size:18
Alignment explanation
Indices: 37938546--37938581 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
37938536 TCTAGATGTT
37938546 TTTAGAAAATCTTTTAAAC
1 TTTAGAAAAT-TTTTAAAC
*
37938565 TTTATAAAATTTTTAAA
1 TTTAGAAAATTTTTAAA
37938582 TAATTTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (18 bp):
TTTAGAAAATTTTTAAAC
Found at i:37941456 original size:27 final size:27
Alignment explanation
Indices: 37941426--37941481 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
37941416 AATTTAGTCC
37941426 TTTTT-ATTTTAGTACCTTTACTTTCT
1 TTTTTAATTTTAGTACCTTTACTTTCT
* *
37941452 TTTTTAATTTTTGTACCTTTATTTTCT
1 TTTTTAATTTTAGTACCTTTACTTTCT
37941479 TTT
1 TTT
37941482 ATTTTGCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.14, C:0.12, G:0.04, T:0.70
Consensus pattern (27 bp):
TTTTTAATTTTAGTACCTTTACTTTCT
Found at i:37941789 original size:3 final size:3
Alignment explanation
Indices: 37941769--37941927 Score: 65
Period size: 3 Copynumber: 53.7 Consensus size: 3
37941759 CATGATTGCA
* * * * **
37941769 ATT ATT TTT TTT ATTT ATT ATT ATT -TT TTT ATT ATT ATT TTT AGC
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * ** * * *
37941814 ATA ATT GATT AAT GTT ATT ATT GCT ATT ATC ATG ATA ATT A-T ATT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
37941859 ATT ATT TTT ATT ATT GTT ATA ATT ATT ATT CTT GTT -TT ATT GTT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
37941905 ATT ACT AGT ATT ATT ATT GTT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
37941928 ATTTATGAAT
Statistics
Matches: 114, Mismatches: 36, Indels: 12
0.70 0.22 0.07
Matches are distributed among these distances:
2 8 0.07
3 100 0.88
4 6 0.05
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:37941801 original size:14 final size:14
Alignment explanation
Indices: 37941777--37941810 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
37941767 CAATTATTTT
37941777 TTTTATTTATTATTA
1 TTTT-TTTATTATTA
37941792 TTTTTTTATTATTA
1 TTTTTTTATTATTA
37941806 TTTTT
1 TTTTT
37941811 AGCATAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTTATTATTA
Found at i:37943978 original size:20 final size:20
Alignment explanation
Indices: 37943953--37943995 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
37943943 TTGTTAATGA
37943953 AAGATTAAGTTAATATAATT
1 AAGATTAAGTTAATATAATT
*
37943973 AAGATTAAGTTAATTTAATT
1 AAGATTAAGTTAATATAATT
37943993 AAG
1 AAG
37943996 CAATTAAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.40
Consensus pattern (20 bp):
AAGATTAAGTTAATATAATT
Found at i:37952070 original size:30 final size:29
Alignment explanation
Indices: 37951977--37952080 Score: 122
Period size: 29 Copynumber: 3.5 Consensus size: 29
37951967 TTGCGGGGGC
*
37951977 AAAATGGTAATTTTCGGTGAAATCAAGGTCG
1 AAAATGG-AATTTT-GGTGAAATCAAGGTCA
**
37952008 AAAATGGAATTTTGG-GAAATTC-AGGTGT
1 AAAATGGAATTTTGGTGAAA-TCAAGGTCA
37952036 AAAATGGTAATTTTGGTGAAATCAAGGTCA
1 AAAATGG-AATTTTGGTGAAATCAAGGTCA
*
37952066 AAAATGGAATCTTGG
1 AAAATGGAATTTTGG
37952081 AAAGTTTGGG
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
28 15 0.23
29 21 0.33
30 21 0.33
31 7 0.11
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.30
Consensus pattern (29 bp):
AAAATGGAATTTTGGTGAAATCAAGGTCA
Found at i:37952074 original size:58 final size:57
Alignment explanation
Indices: 37951977--37952458 Score: 493
Period size: 58 Copynumber: 8.2 Consensus size: 57
37951967 TTGCGGGGGC
* **
37951977 AAAATGGTAATTTTCGGTGAAATCAAGGTCGAAAATGGAATTTTGGGAAA-TTCAGGTGT
1 AAAATGGTAATTTT-GGTGAAATCGAGGTTAAAAATGGAATTTT-GGAAAGTTCAGG-GT
* * * **
37952036 AAAATGGTAATTTTGGTGAAATCAAGGTCAAAAATGGAATCTTGGAAAGTTTGGGGGT
1 AAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAG-TTCAGGGT
* * * * *
37952094 AAAATGGTAATTTTGATAAAATTGGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGT
1 AAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTC-AGGGT
* * * * *
37952152 AAAATGGTAATTTTTGGTAAAATTGGGGTTAAAAATGGAATCTTGGAAAGTTTAGGGGT
1 AAAATGGTAA-TTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCA-GGGT
** * * * * * *
37952211 AAAATGGTAATTTTGACGAAATTGGGGTTAAAAATAGAGTTTTAGAAAGTTTGAGGGT
1 AAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAG-TTCAGGGT
* *
37952269 AAAATGGTAATTTTTGGTGAAACCGAGGTTAAAAATGGAATTTTGGAAAAGTTTGAGGGT
1 AAAATGGTAA-TTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGG-AAAG-TTCAGGGT
* * * *
37952329 GAAATGGTAATTTTTG-GAAGTCGAGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGT
1 AAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTC-AGGGT
* *
37952386 AAAATGGTAATTTTTAGTGAAATCG-GGTTAAAAATGGAATTTTGGAAAAGTTCGGGGGT
1 AAAATGGTAA-TTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGG-AAAGTTC-AGGGT
*
37952445 GAAATGGTAATTTT
1 AAAATGGTAATTTT
37952459 TGGAAGTTTC
Statistics
Matches: 365, Mismatches: 46, Indels: 25
0.84 0.11 0.06
Matches are distributed among these distances:
56 2 0.01
57 25 0.07
58 184 0.50
59 132 0.36
60 22 0.06
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.32
Consensus pattern (57 bp):
AAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCAGGGT
Found at i:37952186 original size:117 final size:118
Alignment explanation
Indices: 37951971--37952458 Score: 614
Period size: 117 Copynumber: 4.2 Consensus size: 118
37951961 TGGGACTTGC
* * *** ** *
37951971 GGGGGCAAAATGGTAATTTTCGGTGAAATCAAGGTCGAAAATGGAATTTTGGGAAA-TTC-AGGT
1 GGGGGTAAAATGGTAATTTT-GATGAAATTGGGGTTAAAAATGGAATTTT-AGAAAGTTCGAGG-
* *
37952034 GTAAAATGGTAA-TTTTGGTGAAATCAAGGTCAAAAATGGAATCTTGG-AAAGTTT
63 GTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATCTTGGAAAAGTTT
*
37952088 GGGGGTAAAATGGTAATTTTGATAAAATTGGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGTA
1 GGGGGTAAAATGGTAATTTTGATGAAATTGGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGTA
* * *
37952153 AAATGGTAATTTTTGGTAAAATTGGGGTTAAAAATGGAATCTTGG-AAAGTTT
66 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATCTTGGAAAAGTTT
* * * * *
37952205 AGGGGTAAAATGGTAATTTTGACGAAATTGGGGTTAAAAATAGAGTTTTAGAAAGTTTGAGGGTA
1 GGGGGTAAAATGGTAATTTTGATGAAATTGGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGTA
* *
37952270 AAATGGTAATTTTTGGTGAAACCGAGGTTAAAAATGGAATTTTGGAAAAGTTT
66 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATCTTGGAAAAGTTT
* * * * *
37952323 GAGGGTGAAATGGTAATTTT--TGGAAGTCGAGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGT
1 GGGGGTAAAATGGTAATTTTGAT-GAAATTGGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGT
* * *
37952386 AAAATGGTAATTTTTAGTGAAATCG-GGTTAAAAATGGAATTTTGGAAAAGTTC
65 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATCTTGGAAAAGTTT
*
37952439 GGGGGTGAAATGGTAATTTT
1 GGGGGTAAAATGGTAATTTT
37952459 TGGAAGTTTC
Statistics
Matches: 327, Mismatches: 39, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
115 4 0.01
116 83 0.25
117 216 0.66
118 24 0.07
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (118 bp):
GGGGGTAAAATGGTAATTTTGATGAAATTGGGGTTAAAAATGGAATTTTAGAAAGTTCGAGGGTA
AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATCTTGGAAAAGTTT
Found at i:37952271 original size:175 final size:174
Alignment explanation
Indices: 37951977--37952458 Score: 540
Period size: 175 Copynumber: 2.7 Consensus size: 174
37951967 TTGCGGGGGC
* * ** * *
37951977 AAAATGGTAATTTTCGGTGAAATCAAGGTCGAAAATGGAATTTTGGGAAA-TTCAGGTGTAAAAT
1 AAAATGGTAATTTT-TG-GAAATCGAGGTTAAAAATGGAATTTT-GGAAAGTTTAGGGGTAAAAT
* * * * *
37952041 GGTAATTTTGGTGAAATCAAGGTCAAAAATGGAATCTTGGAAAGTTTGGGGGTAAAATGGTAATT
63 GGTAATTTTGATGAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATT
** *
37952106 TTGATAAAATTGGGGTTAAAAATGGAATTTTAG-AAAGTTCGAGGGT
128 TTGATAAAACCGAGGTTAAAAATGGAATTTTAGAAAAGTTCGAGGGT
* * *
37952152 AAAATGGTAATTTTTGGTAAAATTGGGGTTAAAAATGGAATCTTGGAAAGTTTAGGGGTAAAATG
1 AAAATGGTAATTTTTGG--AAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATG
* * * * * *
37952217 GTAATTTTGACGAAATTGGGGTTAAAAATAGAGTTTTAGAAAGTTTGAGGGTAAAATGGTAATTT
64 GTAATTTTGATGAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAA-TT
* * * *
37952282 TTGGTGAAACCGAGGTTAAAAATGGAATTTTGGAAAAGTTTGAGGGT
128 TTGATAAAACCGAGGTTAAAAATGGAATTTTAGAAAAGTTCGAGGGT
* * * *
37952329 GAAATGGTAATTTTTGGAAGTCGAGGTTAAAAATGGAATTTTAGAAAG-TTCGAGGGTAAAATGG
1 AAAATGGTAATTTTTGGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAG-GGGTAAAATGG
* * * *
37952393 TAATTTTTAGTGAAA-TCGGGTTAAAAATGGAATTTTGGAAAAGTTCGGGGGTGAAATGGTAATT
65 TAATTTTGA-TGAAATTAGGGTTAAAAATGGAATTTTGG-AAAGTTTGGGGGTAAAATGGTAATT
37952457 TT
128 TT
37952459 TGGAAGTTTC
Statistics
Matches: 256, Mismatches: 43, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
173 1 0.00
174 9 0.04
175 165 0.64
176 53 0.21
177 28 0.11
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.32
Consensus pattern (174 bp):
AAAATGGTAATTTTTGGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGT
AATTTTGATGAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTG
ATAAAACCGAGGTTAAAAATGGAATTTTAGAAAAGTTCGAGGGT
Found at i:37952282 original size:29 final size:28
Alignment explanation
Indices: 37952066--37952399 Score: 168
Period size: 29 Copynumber: 11.5 Consensus size: 28
37952056 ATCAAGGTCA
* * *
37952066 AAAATGGAATCTTGGAAAGTTTGGGGGT
1 AAAATGGAATTTTAGAAAGTTTGAGGGT
**
37952094 AAAATGGTAATTTT-GATAAAATTG-GGGTT
1 AAAATGG-AATTTTAGA-AAGTTTGAGGG-T
*
37952123 AAAAATGGAATTTTAGAAAGTTCGAGGGT
1 -AAAATGGAATTTTAGAAAGTTTGAGGGT
* *
37952152 AAAATGGTAATTTTTGGTAAA-ATTG-GGGTT
1 AAAATGG-AA-TTTTAG-AAAGTTTGAGGG-T
* *
37952182 AAAAATGGAATCTTGGAAAGTTT-AGGGGT
1 -AAAATGGAATTTTAGAAAGTTTGA-GGGT
37952211 AAAATGGTAATTTTGACGAAA--TTG-GGGTT
1 AAAATGG-AATTTT-A-GAAAGTTTGAGGG-T
* *
37952240 AAAAATAGAGTTTTAGAAAGTTTGAGGGT
1 -AAAATGGAATTTTAGAAAGTTTGAGGGT
* ** *
37952269 AAAATGGTAATTTTTGGTGAAA--CCGAGGTT
1 AAAATGG-AA-TTTT--AGAAAGTTTGAGGGT
*
37952299 AAAAATGGAATTTTGGAAAAGTTTGAGGGT
1 -AAAATGGAATTTTAG-AAAGTTTGAGGGT
* * * * *
37952329 GAAATGGTAATTTTTGGAAG-TCGAGGTT
1 AAAATGG-AATTTTAGAAAGTTTGAGGGT
*
37952357 AAAAATGGAATTTTAGAAAGTTCGAGGGT
1 -AAAATGGAATTTTAGAAAGTTTGAGGGT
37952386 AAAATGGTAATTTT
1 AAAATGG-AATTTT
37952400 TAGTGAAATC
Statistics
Matches: 237, Mismatches: 34, Indels: 69
0.70 0.10 0.20
Matches are distributed among these distances:
27 5 0.02
28 65 0.27
29 85 0.36
30 57 0.24
31 21 0.09
32 4 0.02
ACGTcount: A:0.37, C:0.02, G:0.28, T:0.33
Consensus pattern (28 bp):
AAAATGGAATTTTAGAAAGTTTGAGGGT
Found at i:37952302 original size:30 final size:28
Alignment explanation
Indices: 37952263--37952433 Score: 113
Period size: 29 Copynumber: 5.9 Consensus size: 28
37952253 TAGAAAGTTT
*
37952263 GAGGGT-AAAATGGTAATTTTTGGTGAAACC
1 GAGGGTAAAAATGG-AATTTTT-G-GAAATC
* *
37952293 GAGGTTAAAAATGGAA-TTTTGGAAAAGTTT
1 GAGGGTAAAAATGGAATTTTTGG-AAA--TC
* *
37952323 GAGGGT-GAAATGGTAATTTTTGGAAGTC
1 GAGGGTAAAAATGG-AATTTTTGGAAATC
* *
37952351 GAGGTTAAAAATGGAA-TTTTAGAAAGTTC
1 GAGGGTAAAAATGGAATTTTTGGAAA--TC
37952380 GAGGGT-AAAATGGTAATTTTTAGTGAAATC
1 GAGGGTAAAAATGG-AATTTTT-G-GAAATC
*
37952410 G-GGTTAAAAATGGAA-TTTTGGAAA
1 GAGGGTAAAAATGGAATTTTTGGAAA
37952434 AGTTCGGGGG
Statistics
Matches: 113, Mismatches: 14, Indels: 32
0.71 0.09 0.20
Matches are distributed among these distances:
26 4 0.04
27 9 0.08
28 23 0.20
29 30 0.27
30 30 0.27
31 13 0.12
32 4 0.04
ACGTcount: A:0.37, C:0.03, G:0.29, T:0.32
Consensus pattern (28 bp):
GAGGGTAAAAATGGAATTTTTGGAAATC
Found at i:37952449 original size:29 final size:30
Alignment explanation
Indices: 37952416--37952489 Score: 68
Period size: 29 Copynumber: 2.5 Consensus size: 30
37952406 AATCGGGTTA
*
37952416 AAAATGG-AA-TTTTGGAAAAGTTCGGGGGT
1 AAAATGGTAATTTTTGG-AAAGTTCGAGGGT
*
37952445 GAAATGGTAATTTTTGG-AAGTTTCG-GGGT
1 AAAATGGTAATTTTTGGAAAG-TTCGAGGGT
37952474 CAAAAT-GTAATTTTTG
1 -AAAATGGTAATTTTTG
37952490 AATAATTTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
29 23 0.59
30 10 0.26
31 6 0.15
ACGTcount: A:0.31, C:0.04, G:0.30, T:0.35
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGAAAGTTCGAGGGT
Found at i:37953237 original size:15 final size:15
Alignment explanation
Indices: 37953212--37953250 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
37953202 CGTTTTTTAT
*
37953212 TATTATTAATAATTAA
1 TATT-TTAATAAATAA
37953228 TATTTTAATAAATAA
1 TATTTTAATAAATAA
37953243 TATATTTA
1 TAT-TTTA
37953251 TTATTATTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTTTAATAAATAA
Found at i:37954076 original size:17 final size:16
Alignment explanation
Indices: 37954052--37954109 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 16
37954042 TTTTAATCCA
*
37954052 AAATAAATTCAAATTT
1 AAATAAATTTAAATTT
37954068 AACATAAATTTAAATTCT
1 AA-ATAAATTTAAATT-T
*
37954086 AAATGAATTTAAATTT
1 AAATAAATTTAAATTT
37954102 AAAATAAA
1 -AAATAAA
37954110 CTAAGATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 3 0.08
17 30 0.83
18 3 0.08
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (16 bp):
AAATAAATTTAAATTT
Found at i:37954513 original size:76 final size:76
Alignment explanation
Indices: 37954402--37955013 Score: 1037
Period size: 76 Copynumber: 8.0 Consensus size: 76
37954392 TCGAGGCTTC
* * *
37954402 ATCTTGCTCTTA-GTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTC--AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAG
*
37954466 AGGAAAGGAAATG
64 AGGATAGGAAATG
* *
37954479 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTATTATCCAACTCTACTTCAATTTTAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
37954544 GATAGGAAATG
66 GATAGGAAATG
*
37954555 ATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
37954620 GATAGGAAATG
66 GATAGGAAATG
37954631 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
37954696 GATAGGAAATG
66 GATAGGAAATG
* * *
37954707 ATGTTGCTTTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
*
37954772 GATAAGAAATG
66 GATAGGAAATG
* *
37954783 ATGTTGCTCTTACTTCAATTTCAAAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
37954848 GATAGGAAATG
66 GATAGGAAATG
37954859 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
37954924 GATAGGAAATG
66 GATAGGAAATG
* * * *
37954935 ATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCTATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
37955000 GATAGGAAAATG
66 GATAGG-AAATG
37955012 AT
1 AT
37955014 GTTGGTGCTT
Statistics
Matches: 509, Mismatches: 24, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
76 482 0.95
77 19 0.04
78 8 0.02
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (76 bp):
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
GATAGGAAATG
Found at i:37967205 original size:29 final size:29
Alignment explanation
Indices: 37967156--37967556 Score: 130
Period size: 29 Copynumber: 13.8 Consensus size: 29
37967146 TTTGGATACC
37967156 CGAGG-CAAAATGGTAATTTTTGGTGAAAT
1 CGAGGTCAAAATGGTAA-TTTTGGTGAAAT
*
37967185 CGAGGTCGAAAATGG-AATTTTAG-GAAATTT
1 CGAGGTC-AAAATGGTAATTTTGGTGAAA--T
* *
37967215 TGGGGT-AAAATGGTAATTTTGGTGAAAT
1 CGAGGTCAAAATGGTAATTTTGGTGAAAT
*
37967243 CGAGGTCAAAAATGG-AATCTT-G-GAAAGTTT
1 CGAGGTC-AAAATGGTAATTTTGGTGAAA---T
* * *
37967273 GGGGGT-AAAATGGTAATTTTGATGAAAT
1 CGAGGTCAAAATGGTAATTTTGGTGAAAT
* * * *
37967301 CGGGGTTAAAAAT-GAAATTTT--AGAAAGT
1 CGAGG-TCAAAATGGTAATTTTGGTGAAA-T
* *
37967329 GCAGGGGT-AAAATGGTAATTTTGGTAAAAT
1 -C-GAGGTCAAAATGGTAATTTTGGTGAAAT
* * * *
37967359 CGGGGTTAAAAATGG-AATCTT--AGAAAGTT
1 CGAGG-TCAAAATGGTAATTTTGGTGAAA--T
* *
37967388 CGGGGGT-AAAATGGTAATTTTGATGAAAT
1 C-GAGGTCAAAATGGTAATTTTGGTGAAAT
* * *
37967417 CGGGGTTAAAAAT-GTAATTTT--AGAAAGT
1 CGAGG-TCAAAATGGTAATTTTGGTGAAA-T
** *** *
37967445 TTAGGGGTAAATGGTAATTTTTGGTTAAAT
1 CGAGGTCAAAATGGTAA-TTTTGGTGAAAT
*
37967475 CGAGGTTAAAAATGG-AATTTT-G-GAAAGTT
1 CGAGG-TCAAAATGGTAATTTTGGTGAAA--T
37967504 CAGAGGT-AAAATGGTAATTTTTGGTGAAAT
1 C-GAGGTCAAAATGGTAA-TTTTGGTGAAAT
* *
37967534 CGGGGTTAAAAATGG-AATTTTGG
1 CGAGG-TCAAAATGGTAATTTTGG
37967557 AAAAGTTTGG
Statistics
Matches: 287, Mismatches: 38, Indels: 94
0.68 0.09 0.22
Matches are distributed among these distances:
27 22 0.08
28 65 0.23
29 92 0.32
30 69 0.24
31 35 0.12
32 4 0.01
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (29 bp):
CGAGGTCAAAATGGTAATTTTGGTGAAAT
Found at i:37967575 original size:29 final size:29
Alignment explanation
Indices: 37967484--37967732 Score: 153
Period size: 29 Copynumber: 8.6 Consensus size: 29
37967474 TCGAGGTTAA
* * * *
37967484 AAATGG-AATTTTGGAAAGTTCAGAGGTA
1 AAATGGTAATTTTTGAAAGTTCGGGGGTG
* *
37967512 AAATGGTAATTTTTGGTGAAA--TCGGGGTTAA
1 AAATGGTAA-TTTT--TGAAAGTTCGGGGGT-G
* *
37967543 AAATGG-AATTTTGGAAAAGTTTGGGGGTG
1 AAATGGTAATTTTTG-AAAGTTCGGGGGTG
* *
37967572 AAATGGTAATTTTTGAAAG-TCGGGGTTAA
1 AAATGGTAATTTTTGAAAGTTCGGGGGT-G
*
37967601 AAATGG-AATTTTAGAAAGTTCGGGGGTG
1 AAATGGTAATTTTTGAAAGTTCGGGGGTG
* *
37967629 -AATGGTAATTTTTGGTGAAA--TCGGGGTTA
1 AAATGGTAA-TTTT--TGAAAGTTCGGGGGTG
* *
37967658 AAATGG-AATTTTTGAAAAGTTTGTGGGTG
1 AAATGGTAATTTTTG-AAAGTTCGGGGGTG
* *
37967687 AAATGGTAATTTTTGAAAGTTTC-GGAGTCA
1 AAATGGTAATTTTTGAAAG-TTCGGGGGT-G
37967717 AAAT-GTAATTTTTGAA
1 AAATGGTAATTTTTGAA
37967733 TAATTTAGGG
Statistics
Matches: 173, Mismatches: 26, Indels: 43
0.71 0.11 0.18
Matches are distributed among these distances:
26 2 0.01
27 9 0.05
28 32 0.18
29 72 0.42
30 43 0.25
31 11 0.06
32 4 0.02
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.35
Consensus pattern (29 bp):
AAATGGTAATTTTTGAAAGTTCGGGGGTG
Found at i:37967653 original size:58 final size:58
Alignment explanation
Indices: 37967162--37967699 Score: 674
Period size: 58 Copynumber: 9.2 Consensus size: 58
37967152 TACCCGAGGC
* ** *
37967162 AAAATGGTAATTTTTGGTGAAATCGAGGTCGAAAATGGAATTTTAGGAAA-TTTTGGGGT
1 AAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTA-GAAAGTTTGGGGGT
* * * *
37967221 AAAATGGTAATTTTGGTGAAATCGAGGTCAAAAATGGAATCTTGGAAAGTTTGGGGGT
1 AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTTGGGGGT
* * ***
37967279 AAAATGGTAATTTTGATGAAATCGGGGTTAAAAATGAAATTTTAGAAAGTGCAGGGGT
1 AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTTGGGGGT
* * *
37967337 AAAATGGTAATTTTGGTAAAATCGGGGTTAAAAATGGAATCTTAGAAAGTTCGGGGGT
1 AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTTGGGGGT
* * *
37967395 AAAATGGTAATTTTGATGAAATCGGGGTTAAAAATGTAATTTTAGAAAGTTTAGGGGT
1 AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTTGGGGGT
* * * ** *
37967453 -AAATGGTAATTTTTGGTTAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCAGAGGT
1 AAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTTGGGGGT
*
37967511 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAAGTTTGGGGGT
1 AAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAG-AAAGTTTGGGGGT
* *
37967571 GAAATGGTAATTTT--TGAAAGTCGGGGTTAAAAATGGAATTTTAGAAAGTTCGGGGGT
1 AAAATGGTAATTTTGGTGAAA-TCGGGGTTAAAAATGGAATTTTAGAAAGTTTGGGGGT
* * *
37967628 -GAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGAATTTTTGAAAAGTTTGTGGGT
1 AAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAG-AAAGTTTGGGGGT
*
37967686 GAAATGGTAATTTT
1 AAAATGGTAATTTT
37967700 TGAAAGTTTC
Statistics
Matches: 424, Mismatches: 45, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
56 8 0.02
57 48 0.11
58 279 0.66
59 70 0.17
60 19 0.04
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (58 bp):
AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTTGGGGGT
Found at i:37968200 original size:162 final size:162
Alignment explanation
Indices: 37967875--37968223 Score: 377
Period size: 162 Copynumber: 2.2 Consensus size: 162
37967865 TTGATTTAAT
* * * ** *
37967875 GATTAGATTAAAACAAATTAAAAATAAAAGGTACTAATTGCACAAATAAGCCAAAATAGTGCCAC
1 GATTAAATTAAAACAAATTAAAAATAAAAGGGACTAATTGCACAAATAAGCCAAAACAACGACAC
* * * * *
37967940 GTGACAGCCTCTGATGCATTCAAAAAGTTAAAGGATCAAATTGAAAAGCGAACAAAATTACTGAG
66 GTGACAGCCTCTGATGCAATCAAAAAGTCAAAGGATCAAATTGAAAAACCAACAAAATTACAGAG
* * *
37968005 CCAAATTAAAAAATAGTTCAAAGTATGAAAAG
131 CAAAATTAAAAAATAATTCAAAGAATGAAAAG
* * *
37968037 GATTAAATTAAAACAAATTAAAAATAAAAGGGACTAATTTCATAAATATGCCAAAACAACGACAC
1 GATTAAATTAAAACAAATTAAAAATAAAAGGGACTAATTGCACAAATAAGCCAAAACAACGACAC
* * * * *
37968102 GTGGCGGCCTCTGGTGCAATCAAACAGTCAAAGGATTAAATT-AAAAACCAATCAAAATTACCAG
66 GTGACAGCCTCTGATGCAATCAAAAAGTCAAAGGATCAAATTGAAAAACCAA-CAAAATTA-CAG
**
37968166 -GCAAAATT-GCAAATAATT-AGAA-AATGCAAAAAG
129 AGCAAAATTAAAAAATAATTCA-AAGAATG--AAAAG
* *
37968199 GACTAAATTGAAACAAA-TAAAAATA
1 GATTAAATTAAAACAAATTAAAAATA
37968224 TGGAAGGACC
Statistics
Matches: 156, Mismatches: 26, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
160 4 0.03
161 24 0.15
162 126 0.81
163 2 0.01
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.21
Consensus pattern (162 bp):
GATTAAATTAAAACAAATTAAAAATAAAAGGGACTAATTGCACAAATAAGCCAAAACAACGACAC
GTGACAGCCTCTGATGCAATCAAAAAGTCAAAGGATCAAATTGAAAAACCAACAAAATTACAGAG
CAAAATTAAAAAATAATTCAAAGAATGAAAAG
Found at i:37968922 original size:15 final size:15
Alignment explanation
Indices: 37968897--37968935 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
37968887 CGTTTTTTAT
*
37968897 TATTATTAATAATTAA
1 TATT-TTAATAAATAA
37968913 TATTTTAATAAATAA
1 TATTTTAATAAATAA
37968928 TATATTTA
1 TAT-TTTA
37968936 TTATTATTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTTTAATAAATAA
Found at i:37969748 original size:17 final size:16
Alignment explanation
Indices: 37969724--37969781 Score: 80
Period size: 17 Copynumber: 3.4 Consensus size: 16
37969714 TTTTAATCCA
*
37969724 AAATAAATTCAAATTT
1 AAATAAATTTAAATTT
37969740 AACATAAATTTAAATTCT
1 AA-ATAAATTTAAATT-T
37969758 AAATAAATTTAAATTT
1 AAATAAATTTAAATTT
37969774 AAAATAAA
1 -AAATAAA
37969782 CTAAGATTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
16 3 0.08
17 32 0.84
18 3 0.08
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATAAATTTAAATTT
Found at i:37971271 original size:53 final size:53
Alignment explanation
Indices: 37971188--37971381 Score: 271
Period size: 53 Copynumber: 3.6 Consensus size: 53
37971178 CAAAAATGCA
* * * *
37971188 AAAGGTCCGATGACTTTGTGTCATCTTGAGTTATATGAATCCTATTACAGATT
1 AAAGGTCCGATGACTCTATGTCATCGTGAGTTATATGAATCCTATTACGGATT
* * *
37971241 AAAGGTCCGATGACTCTGTGTCATCATGAGTTATATAAATCCTATTACGGATT
1 AAAGGTCCGATGACTCTATGTCATCGTGAGTTATATGAATCCTATTACGGATT
* * *
37971294 AAATGTCCGAGGACTCTATGTCAACGTGAGTTATATGAATCCTATTACGGATT
1 AAAGGTCCGATGACTCTATGTCATCGTGAGTTATATGAATCCTATTACGGATT
* *
37971347 AAAGGGTCCGATGACTTTATGTCATCGTGAATTAT
1 AAA-GGTCCGATGACTCTATGTCATCGTGAGTTAT
37971382 CAAACGTGAA
Statistics
Matches: 125, Mismatches: 15, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
53 99 0.79
54 26 0.21
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (53 bp):
AAAGGTCCGATGACTCTATGTCATCGTGAGTTATATGAATCCTATTACGGATT
Found at i:37974655 original size:19 final size:20
Alignment explanation
Indices: 37974633--37974678 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
37974623 TTTAAAAAAC
37974633 ATTTTGAAGT-GTTAAAATT
1 ATTTTGAAGTGGTTAAAATT
* * *
37974652 ATTTTAAATTGGTTCAAATT
1 ATTTTGAAGTGGTTAAAATT
37974672 ATTTTGA
1 ATTTTGA
37974679 CTTATTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (20 bp):
ATTTTGAAGTGGTTAAAATT
Found at i:37974690 original size:20 final size:20
Alignment explanation
Indices: 37974644--37974720 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
37974634 TTTTGAAGTG
* **
37974644 TTAAAATTATTTTAAATTGG
1 TTAAAATTATTTTAACTTAT
* *
37974664 TTCAAATTATTTTGACTTAT
1 TTAAAATTATTTTAACTTAT
37974684 TTAAAATTATTTTAACTTGATT
1 TTAAAATTATTTTAACTT-A-T
*
37974706 TTAAAATTGTTTTAA
1 TTAAAATTATTTTAA
37974721 ACTTTTCTAC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 31 0.66
21 1 0.02
22 15 0.32
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.53
Consensus pattern (20 bp):
TTAAAATTATTTTAACTTAT
Found at i:37974818 original size:22 final size:23
Alignment explanation
Indices: 37974793--37974843 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
37974783 TATTTTGTCA
37974793 ATTTTAACTT-ATAT-TCAAAAAT
1 ATTTTAACTTGATATATC-AAAAT
* *
37974815 ATTTTAATTTGTTATATCAAAAT
1 ATTTTAACTTGATATATCAAAAT
37974838 ATTTTA
1 ATTTTA
37974844 TCAAATAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.36
23 14 0.56
24 2 0.08
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (23 bp):
ATTTTAACTTGATATATCAAAAT
Found at i:37977890 original size:50 final size:50
Alignment explanation
Indices: 37977835--37977934 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
37977825 TCTTCCATAC
37977835 TTTGTATTTTCGGCACCACTTCTTCCCTATTTCGCATGCTGACCCATTTT
1 TTTGTATTTTCGGCACCACTTCTTCCCTATTTCGCATGCTGACCCATTTT
37977885 TTTGTATTTTCGGCACCACTTCTTCCCTATTTCGCATGCTGACCCATTTT
1 TTTGTATTTTCGGCACCACTTCTTCCCTATTTCGCATGCTGACCCATTTT
37977935 GTCTTTAAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.14, C:0.30, G:0.12, T:0.44
Consensus pattern (50 bp):
TTTGTATTTTCGGCACCACTTCTTCCCTATTTCGCATGCTGACCCATTTT
Found at i:37983200 original size:2 final size:2
Alignment explanation
Indices: 37983193--37983220 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
37983183 AACATAAAAG
37983193 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
37983221 ACATACAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37985419 original size:23 final size:25
Alignment explanation
Indices: 37985365--37985419 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
37985355 CACTAAATAG
*
37985365 AGAGAGAGAGAGAGAGAGAAATGAA
1 AGAGAGAAAGAGAGAGAGAAATGAA
*
37985390 AGGGAGAAAGAGAG-GA-AAAT-AA
1 AGAGAGAAAGAGAGAGAGAAATGAA
37985412 CAGAGAGA
1 -AGAGAGA
37985420 GGACGCGAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 2 0.08
23 10 0.38
24 2 0.08
25 12 0.46
ACGTcount: A:0.56, C:0.02, G:0.38, T:0.04
Consensus pattern (25 bp):
AGAGAGAAAGAGAGAGAGAAATGAA
Found at i:37986570 original size:29 final size:29
Alignment explanation
Indices: 37986530--37986607 Score: 77
Period size: 31 Copynumber: 2.6 Consensus size: 29
37986520 AAGTTGTAGA
* * *
37986530 TTTAGT-TCTTGTACTTTTATTTGATTAAT
1 TTTAGTCT-TTGTACTTTTAATCGATCAAT
*
37986559 TTTAGTCTTTGTACTTTGCAAATCGATCAAT
1 TTTAGTCTTTGTACTTT--TAATCGATCAAT
*
37986590 TTTAGTCCTTGTACTTTT
1 TTTAGTCTTTGTACTTTT
37986608 CAGAATTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
29 15 0.38
30 1 0.03
31 24 0.60
ACGTcount: A:0.21, C:0.13, G:0.12, T:0.55
Consensus pattern (29 bp):
TTTAGTCTTTGTACTTTTAATCGATCAAT
Found at i:37991827 original size:12 final size:12
Alignment explanation
Indices: 37991809--37991838 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
37991799 TTAATCTCAC
37991809 GAAGAAACAAAG
1 GAAGAAACAAAG
*
37991821 TAAGAAACAAAG
1 GAAGAAACAAAG
37991833 GAAGAA
1 GAAGAA
37991839 CTTCAGGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.67, C:0.07, G:0.23, T:0.03
Consensus pattern (12 bp):
GAAGAAACAAAG
Found at i:37992400 original size:20 final size:22
Alignment explanation
Indices: 37992364--37992405 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
37992354 CAATGTTCTA
*
37992364 AAAAATGCAATTGAAA-TCACC
1 AAAAATGCAACTGAAATTCACC
37992385 AAAAATGCAACT-AAATTCACC
1 AAAAATGCAACTGAAATTCACC
37992406 TAAGTCCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.19
Consensus pattern (22 bp):
AAAAATGCAACTGAAATTCACC
Found at i:37992678 original size:2 final size:2
Alignment explanation
Indices: 37992671--37992706 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
37992661 TCGTAGGTTG
37992671 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37992707 CTTTTGGATT
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):
AT
Found at i:37999114 original size:52 final size:52
Alignment explanation
Indices: 37998951--37999103 Score: 200
Period size: 52 Copynumber: 2.9 Consensus size: 52
37998941 AAAAGGGGTC
* *
37998951 CGATGACTAAGTGTCATCGTGAGTAA-ATGAATCCTTTATGGATTAAAAGGTT
1 CGATGACTAAGTGTCATCGTGAG-AATATGAATCCTTTACGGATTAAGAGGTT
* * * * * *
37999003 CGATGAATAAGTATCATCGTGAGTATATGAATCCTTTACGAATTATGAGGTA
1 CGATGACTAAGTGTCATCGTGAGAATATGAATCCTTTACGGATTAAGAGGTT
* *
37999055 CGATGACTAAGTGTCATCGTAAGAATATGGATCCTTTACGGATTAAGAG
1 CGATGACTAAGTGTCATCGTGAGAATATGAATCCTTTACGGATTAAGAG
37999104 TTCTAATGAC
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
51 1 0.01
52 84 0.99
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.31
Consensus pattern (52 bp):
CGATGACTAAGTGTCATCGTGAGAATATGAATCCTTTACGGATTAAGAGGTT
Found at i:37999131 original size:104 final size:104
Alignment explanation
Indices: 37998951--37999140 Score: 235
Period size: 104 Copynumber: 1.8 Consensus size: 104
37998941 AAAAGGGGTC
* * *
37998951 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAAAAGGTTCGATGAATAAGTA
1 CGATGACTAAGTGTCATCGTAAGTAAATGAATCCTTTACGGATTAAAAGGTTCAATGAATAAGTA
* *
37999016 TCATCGTGAGTATATGAATCCTTTACGAATTATGAGGTA
66 TCATCATGAGTATACGAATCCTTTACGAATTATGAGGTA
* * *
37999055 CGATGACTAAGTGTCATCGTAAG-AATATGGATCCTTTACGGATTAAGA-GTTCTAATGACTTTA
1 CGATGACTAAGTGTCATCGTAAGTAA-ATGAATCCTTTACGGATTAAAAGGTTC-AATGA--ATA
*
37999118 TGT-T-ATCATGAGTATACGAATCC
62 AGTATCATCATGAGTATACGAATCC
37999141 CTCGTGGATT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
103 6 0.08
104 62 0.85
105 1 0.01
106 4 0.05
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (104 bp):
CGATGACTAAGTGTCATCGTAAGTAAATGAATCCTTTACGGATTAAAAGGTTCAATGAATAAGTA
TCATCATGAGTATACGAATCCTTTACGAATTATGAGGTA
Found at i:38003459 original size:20 final size:20
Alignment explanation
Indices: 38003430--38003476 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
38003420 CTTATTTCGA
* * *
38003430 TAGAATTGAAGTTGTATCGG
1 TAGAAGTGAAGTTCTACCGG
38003450 TAGAAGTGAAGTTCTACCGG
1 TAGAAGTGAAGTTCTACCGG
*
38003470 TAAAAGT
1 TAGAAGT
38003477 CCCAAGCCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.30
Consensus pattern (20 bp):
TAGAAGTGAAGTTCTACCGG
Found at i:38007557 original size:3 final size:3
Alignment explanation
Indices: 38007549--38007577 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
38007539 TCTTTCATCC
38007549 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
38007578 CTTTTCTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:38011328 original size:31 final size:31
Alignment explanation
Indices: 38011293--38011358 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
38011283 TTAATTTATA
38011293 CCAACCATTTTTCTTATTAATTTATATAAAT
1 CCAACCATTTTTCTTATTAATTTATATAAAT
38011324 CCAACCATTTTTCTTATTAATTTATATAAAT
1 CCAACCATTTTTCTTATTAATTTATATAAAT
38011355 CCAA
1 CCAA
38011359 TAATAAAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.45
Consensus pattern (31 bp):
CCAACCATTTTTCTTATTAATTTATATAAAT
Found at i:38016424 original size:12 final size:13
Alignment explanation
Indices: 38016401--38016434 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
38016391 TTTATCAAGA
38016401 TAAATATT-ATAT
1 TAAATATTAATAT
38016413 TAAAT-TTAATAT
1 TAAATATTAATAT
38016425 TAAATATTAA
1 TAAATATTAA
38016435 AATAATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 2 0.10
12 14 0.70
13 4 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TAAATATTAATAT
Found at i:38018128 original size:16 final size:16
Alignment explanation
Indices: 38018107--38018137 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38018097 CTACGCATGC
*
38018107 AAAATATGAAAGACAA
1 AAAATACGAAAGACAA
38018123 AAAATACGAAAGACA
1 AAAATACGAAAGACA
38018138 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.10, G:0.13, T:0.10
Consensus pattern (16 bp):
AAAATACGAAAGACAA
Found at i:38029066 original size:16 final size:16
Alignment explanation
Indices: 38029029--38029070 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
38029019 CTATAAAATT
*
38029029 TGTTGTAATAGCGAAA
1 TGTTGTTATAGCGAAA
38029045 TGTTGTTATAGCG-AA
1 TGTTGTTATAGCGAAA
38029060 TGATTGTTATA
1 TG-TTGTTATA
38029071 AAAAGGCTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.31, C:0.05, G:0.24, T:0.40
Consensus pattern (16 bp):
TGTTGTTATAGCGAAA
Found at i:38036081 original size:10 final size:10
Alignment explanation
Indices: 38036066--38036090 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
38036056 AAATGACATG
38036066 AAAATAAATA
1 AAAATAAATA
38036076 AAAATAAATA
1 AAAATAAATA
38036086 AAAAT
1 AAAAT
38036091 TAAAAGCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATAAATA
Found at i:38037306 original size:98 final size:98
Alignment explanation
Indices: 38037179--38037835 Score: 590
Period size: 98 Copynumber: 6.8 Consensus size: 98
38037169 TAATATTTGT
* *
38037179 CGTTACTACTTTAATCTGTCCCTCTTTAGTTTTAAGGTGTAAGATCTATCATTGTGGCTTTAATC
1 CGTTACGACTTTAATCTATCCCTCTTTAGTTTTAAGGTGTAAGATCTATCATTGTGGCTTTAATC
* *
38037244 TTTTCCTCTTCGATTTTAGGGTGTTAGATCCAC
66 TTTCCCTCTTCGATTTTAAGGTGTTAGATCCAC
** ** * * * *
38037277 TATTGTGACTTTAATGTATCCCTATTTAGTTTT-AGAGTGTAAGAT-TCACCA-TGACGGCTTTA
1 CGTTACGACTTTAATCTATCCCTCTTTAGTTTTAAG-GTGTAAGATCT-ATCATTG-TGGCTTTA
**
38037339 ATCTTTCCCTCTTCGATTTTAAGGTGTTAGATCTGC
63 ATCTTTCCCTCTTCGATTTTAAGGTGTTAGATCCAC
* *
38037375 CGTAACGACTTTAATCTATCCCT-TTTCAGTTTT-AGAGTGTAAG-TCGT-TACA-----ACTTT
1 CGTTACGACTTTAATCTATCCCTCTTT-AGTTTTAAG-GTGTAAGATC-TAT-CATTGTGGCTTT
* * *
38037431 AATCTTTCCCTCTTCGGTTTTAGGGTATTAGATCCAC
62 AATCTTTCCCTCTTCGATTTTAAGGTGTTAGATCCAC
* * * * * * * * * *
38037468 CATTATGGC-TTAATCCATCTCTCTTTAATTTTAGGGTGTAAGATTTATCTTTATGGCTTTAATC
1 CGTTACGACTTTAATCTATCCCTCTTTAGTTTTAAGGTGTAAGATCTATCATTGTGGCTTTAATC
****
38037532 TTTCCCTCTTCGATTTTAAGGTGTTAGATATGT
66 TTTCCCTCTTCGATTTTAAGGTGTTAGATCCAC
* * * * *
38037565 CGTTGCGGCTTTAATCTATCCCT-TTTCAATTTTAAGGTGTAAGATCCATCATT-AGGCTTTAAT
1 CGTTACGACTTTAATCTATCCCTCTTT-AGTTTTAAGGTGTAAGATCTATCATTGTGGCTTTAAT
*
38037628 CTTTCCCTCTTCGATTTTAAGGTGTTAGATCCAT
65 CTTTCCCTCTTCGATTTTAAGGTGTTAGATCCAC
* * * * * * *
38037662 CGTTACGACTTTAATCTATCTCTCTTCATTTTTAGGGTGTAAGATTTACCGTTGTGGCTTTAATC
1 CGTTACGACTTTAATCTATCCCTCTTTAGTTTTAAGGTGTAAGATCTATCATTGTGGCTTTAATC
* ** * *
38037727 TTTCTCTCTTTAATTTTAGGGTG-TATGATTCAC
66 TTTCCCTCTTCGATTTTAAGGTGTTA-GATCCAC
* * * * ** *
38037760 CGTTACGGCTTTAATCTATTCCTCTTCAGTTTTAGGGTGTAAGATCTATCATTGCAGCTTTAACC
1 CGTTACGACTTTAATCTATCCCTCTTTAGTTTTAAGGTGTAAGATCTATCATTGTGGCTTTAATC
*
38037825 TATCCCTCTTC
66 TTTCCCTCTTC
38037836 AACTCTAGGA
Statistics
Matches: 450, Mismatches: 88, Indels: 42
0.78 0.15 0.07
Matches are distributed among these distances:
92 25 0.06
93 47 0.10
97 134 0.30
98 243 0.54
99 1 0.00
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (98 bp):
CGTTACGACTTTAATCTATCCCTCTTTAGTTTTAAGGTGTAAGATCTATCATTGTGGCTTTAATC
TTTCCCTCTTCGATTTTAAGGTGTTAGATCCAC
Found at i:38037627 original size:146 final size:147
Alignment explanation
Indices: 38037187--38037836 Score: 464
Period size: 146 Copynumber: 4.5 Consensus size: 147
38037177 GTCGTTACTA
* * * * * * ** * * *
38037187 CTTTAATCTGTCCCTCTTTAGTTTTAAGGTGTAAGATCTATCATTGTGGCTTTAATCTTTTCCTC
1 CTTTAATCTATCTCTCTTCAATTTTAGGGTGTAAGATCTATCGTTACGACTTTAATCTATCCCTC
* * ** ** * * * * * *
38037252 TTCGA-TTTTAGGGTGTTAGATCCACTATTGTGACTTTAATGTATCCCTATTT-AGTTTTAGAGT
66 TTC-ATTTTTAAGGTGTAAGATATACCGTTGCGGCTTTAATCTTTCCCT-TTTCAATTTTAGGGT
* *
38037315 GTAAGATTCACCATGACGG
129 GTAAGATCCACCATTACGG
* * * * * ** * *
38037334 CTTTAATCTTTCCCTCTTCGATTTTAAGGTGTTAGATCTGCCGTAACGACTTTAATCTATCCCTT
1 CTTTAATCTATCTCTCTTCAATTTTAGGGTGTAAGATCTATCGTTACGACTTTAATCTATCCCTC
* * ** * ** *
38037399 TTCAGTTTT-AGAGTGTAAG---T--CGTTACAACTTTAATCTTTCCCTCTTCGGTTTTAGGGTA
66 TTCATTTTTAAG-GTGTAAGATATACCGTTGCGGCTTTAATCTTTCCCTTTTCAATTTTAGGGTG
* *
38037458 TTAGATCCACCATTATGG
130 TAAGATCCACCATTACGG
* * * * * * *
38037476 C-TTAATCCATCTCTCTTTAATTTTAGGGTGTAAGATTTATCTTTATGGCTTTAATCTTTCCCTC
1 CTTTAATCTATCTCTCTTCAATTTTAGGGTGTAAGATCTATCGTTACGACTTTAATCTATCCCTC
* ** * *
38037540 TTCGA-TTTTAAGGTGTTAGATATGTCGTTGCGGCTTTAATCTATCCCTTTTCAATTTTAAGGTG
66 TTC-ATTTTTAAGGTGTAAGATATACCGTTGCGGCTTTAATCTTTCCCTTTTCAATTTTAGGGTG
*
38037604 TAAGATCCATCATTA-GG
130 TAAGATCCACCATTACGG
* * * * * * *
38037621 CTTTAATCTTTCCCTCTTCGATTTTAAGGTGTTAGATCCATCGTTACGACTTTAATCTATCTCTC
1 CTTTAATCTATCTCTCTTCAATTTTAGGGTGTAAGATCTATCGTTACGACTTTAATCTATCCCTC
* * * *
38037686 TTCATTTTTAGGGTGTAAGATTTACCGTTGTGGCTTTAATCTTTCTCTCTTT-AATTTTAGGGTG
66 TTCATTTTTAAGGTGTAAGATATACCGTTGCGGCTTTAATCTTTCCCT-TTTCAATTTTAGGGTG
* * *
38037750 TATGATTCACCGTTACGG
130 TAAGATCCACCATTACGG
* * * *
38037768 CTTTAATCTAT-TCCTCTTCAGTTTTAGGGTGTAAGATCTATCATTGC-AGCTTTAACCTATCCC
1 CTTTAATCTATCT-CTCTTCAATTTTAGGGTGTAAGATCTATCGTTACGA-CTTTAATCTATCCC
38037831 TCTTCA
64 TCTTCA
38037837 ACTCTAGGAT
Statistics
Matches: 388, Mismatches: 99, Indels: 32
0.75 0.19 0.06
Matches are distributed among these distances:
141 62 0.16
142 43 0.11
144 1 0.00
145 4 0.01
146 155 0.40
147 123 0.32
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (147 bp):
CTTTAATCTATCTCTCTTCAATTTTAGGGTGTAAGATCTATCGTTACGACTTTAATCTATCCCTC
TTCATTTTTAAGGTGTAAGATATACCGTTGCGGCTTTAATCTTTCCCTTTTCAATTTTAGGGTGT
AAGATCCACCATTACGG
Found at i:38037835 original size:49 final size:49
Alignment explanation
Indices: 38037187--38037836 Score: 396
Period size: 49 Copynumber: 13.4 Consensus size: 49
38037177 GTCGTTACTA
* * * *
38037187 CTTTAATCTGTCCCTCTTTAGTTTTAAGGTGTAAGATCTATCATTGTGG
1 CTTTAATCTATCCCTCTTCAGTTTTAGGGTGTAAGATCTATCATTGCGG
* * * * * *
38037236 CTTTAATCTTTTCCTCTTC-GATTTTAGGGTGTTAGATCCA-CTATTGTGA
1 CTTTAATCTATCCCTCTTCAG-TTTTAGGGTGTAAGATCTATC-ATTGCGG
* * * * *
38037285 CTTTAATGTATCCCTATTTAGTTTTAGAGTGTAAGAT-TCACCA-TGACGG
1 CTTTAATCTATCCCTCTTCAGTTTTAGGGTGTAAGATCT-ATCATTG-CGG
* * * ** * ** *
38037334 CTTTAATCTTTCCCTCTTC-GATTTTAAGGTGTTAGATCTGCCGTAACGA
1 CTTTAATCTATCCCTCTTCAG-TTTTAGGGTGTAAGATCTATCATTGCGG
* * **
38037383 CTTTAATCTATCCCTTTTCAGTTTTAGAGTGTAAG-TCGT-T-A---CAA
1 CTTTAATCTATCCCTCTTCAGTTTTAGGGTGTAAGATC-TATCATTGCGG
* * * * * * **
38037427 CTTTAATCTTTCCCTCTTCGGTTTTAGGGTATTAGATCCACCATTATGG
1 CTTTAATCTATCCCTCTTCAGTTTTAGGGTGTAAGATCTATCATTGCGG
* * * * * * **
38037476 C-TTAATCCATCTCTCTTTAATTTTAGGGTGTAAGATTTATCTTTATGG
1 CTTTAATCTATCCCTCTTCAGTTTTAGGGTGTAAGATCTATCATTGCGG
* * * * * *
38037524 CTTTAATCTTTCCCTCTTC-GATTTTAAGGTGTTAGATATGTCGTTGCGG
1 CTTTAATCTATCCCTCTTCAG-TTTTAGGGTGTAAGATCTATCATTGCGG
* * * * *
38037573 CTTTAATCTATCCCTTTTCAATTTTAAGGTGTAAGATCCATCATT-AGG
1 CTTTAATCTATCCCTCTTCAGTTTTAGGGTGTAAGATCTATCATTGCGG
* * * * * * *
38037621 CTTTAATCTTTCCCTCTTC-GATTTTAAGGTGTTAGATCCATCGTTACGA
1 CTTTAATCTATCCCTCTTCAG-TTTTAGGGTGTAAGATCTATCATTGCGG
* * * * * *
38037670 CTTTAATCTATCTCTCTTCATTTTTAGGGTGTAAGATTTACCGTTGTGG
1 CTTTAATCTATCCCTCTTCAGTTTTAGGGTGTAAGATCTATCATTGCGG
* * * * * * * *
38037719 CTTTAATCTTTCTCTCTTTAATTTTAGGGTGTATGAT-TCACCGTTACGG
1 CTTTAATCTATCCCTCTTCAGTTTTAGGGTGTAAGATCT-ATCATTGCGG
* *
38037768 CTTTAATCTATTCCTCTTCAGTTTTAGGGTGTAAGATCTATCATTGCAG
1 CTTTAATCTATCCCTCTTCAGTTTTAGGGTGTAAGATCTATCATTGCGG
*
38037817 CTTTAACCTATCCCTCTTCA
1 CTTTAATCTATCCCTCTTCA
38037837 ACTCTAGGAT
Statistics
Matches: 459, Mismatches: 117, Indels: 50
0.73 0.19 0.08
Matches are distributed among these distances:
44 31 0.07
45 2 0.00
46 1 0.00
48 85 0.19
49 335 0.73
50 5 0.01
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (49 bp):
CTTTAATCTATCCCTCTTCAGTTTTAGGGTGTAAGATCTATCATTGCGG
Found at i:38043749 original size:36 final size:36
Alignment explanation
Indices: 38043694--38043796 Score: 118
Period size: 36 Copynumber: 2.8 Consensus size: 36
38043684 TGGTAACAAG
* * * *
38043694 CATGACCTTTAGGTTAACAGGGAGAAAAATAAGGAT
1 CATGACCTTTGGGTCAACAGGGAGTAAAATAAGCAT
*
38043730 -ATTGACCTTTGGGTCAACAGGGAGTAAAATGAGCAT
1 CA-TGACCTTTGGGTCAACAGGGAGTAAAATAAGCAT
* *
38043766 CATGACTTTTGGGGTCAATAGGGAGTAAAAT
1 CATGACCTTT-GGGTCAACAGGGAGTAAAAT
38043797 GAATAACGAT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
35 1 0.02
36 36 0.63
37 20 0.35
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (36 bp):
CATGACCTTTGGGTCAACAGGGAGTAAAATAAGCAT
Found at i:38044486 original size:21 final size:21
Alignment explanation
Indices: 38044460--38044511 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
38044450 GGAGTTTTTA
* *
38044460 GTATCGGTAGTTGTATGACTT
1 GTATCGGTAGTTGCATCACTT
*
38044481 GTATCGGTAGTTGCCTCACTT
1 GTATCGGTAGTTGCATCACTT
*
38044502 GTATTGGTAG
1 GTATCGGTAG
38044512 AACTATCAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.17, C:0.13, G:0.29, T:0.40
Consensus pattern (21 bp):
GTATCGGTAGTTGCATCACTT
Found at i:38063888 original size:43 final size:43
Alignment explanation
Indices: 38063841--38063923 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
38063831 ATTAAACACC
* * * *
38063841 CATTAAAATTTTACTTTTTTATTTAAAATTAAACTTTTAAATT
1 CATTAAAATATTAATATTTTATTCAAAATTAAACTTTTAAATT
* * *
38063884 CATTAACATATTAATATTTTATTCAATATTAAATTTTTAA
1 CATTAAAATATTAATATTTTATTCAAAATTAAACTTTTAA
38063924 TTCGGTTGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (43 bp):
CATTAAAATATTAATATTTTATTCAAAATTAAACTTTTAAATT
Found at i:38069682 original size:13 final size:14
Alignment explanation
Indices: 38069666--38069698 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
38069656 AGATATATTT
38069666 TTTATATGT-AATA
1 TTTATATGTAAATA
38069679 TTTATATGTCAAATA
1 TTTATATGT-AAATA
38069694 TTTAT
1 TTTAT
38069699 TTTTTCCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TTTATATGTAAATA
Found at i:38071160 original size:17 final size:17
Alignment explanation
Indices: 38071127--38071176 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
38071117 ATAAAATAAC
*
38071127 ATATAATTATATTTTAAA
1 ATATAA-TATATATTAAA
38071145 ATATAATATATATTAAA
1 ATATAATATATATTAAA
*
38071162 AT-TAAAATACTATTA
1 ATATAATATA-TATTA
38071177 TTATTGAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 6 0.21
17 17 0.59
18 6 0.21
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAATATATATTAAA
Found at i:38074573 original size:15 final size:15
Alignment explanation
Indices: 38074553--38074591 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
38074543 AAAAAAATGA
*
38074553 TATTTTTTATTCTTC
1 TATTTTTTACTCTTC
*
38074568 TATTTTTTACTCTTT
1 TATTTTTTACTCTTC
*
38074583 TAATTTTTA
1 TATTTTTTA
38074592 ACTTTTCAAT
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:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTTTTTACTCTTC
Found at i:38076925 original size:31 final size:31
Alignment explanation
Indices: 38076887--38076945 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
38076877 CTAAAACAAG
38076887 AGTGAACAAAACAGGAAATTTAACTAACGAA
1 AGTGAACAAAACAGGAAATTTAACTAACGAA
38076918 AGTGAACAAAACAGGAAATTTAACTAAC
1 AGTGAACAAAACAGGAAATTTAACTAAC
38076946 AAGAATGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.54, C:0.14, G:0.15, T:0.17
Consensus pattern (31 bp):
AGTGAACAAAACAGGAAATTTAACTAACGAA
Found at i:38081206 original size:3 final size:3
Alignment explanation
Indices: 38081198--38081222 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
38081188 TATTTTCTAC
38081198 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
38081223 AACAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:38087776 original size:13 final size:13
Alignment explanation
Indices: 38087745--38087769 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38087735 AATTCTTATA
38087745 GAACAATTAAATC
1 GAACAATTAAATC
38087758 GAACAATTAAAT
1 GAACAATTAAAT
38087770 TCTACAAGAA
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:0.56, C:0.12, G:0.08, T:0.24
Consensus pattern (13 bp):
GAACAATTAAATC
Found at i:38090788 original size:21 final size:21
Alignment explanation
Indices: 38090764--38090804 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
38090754 AATTGATATT
38090764 AATGACATATTAGTTGAATGA
1 AATGACATATTAGTTGAATGA
**
38090785 AATGGGATATTAGTTGAATG
1 AATGACATATTAGTTGAATG
38090805 TTTATAATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.34
Consensus pattern (21 bp):
AATGACATATTAGTTGAATGA
Found at i:38093390 original size:18 final size:18
Alignment explanation
Indices: 38093352--38093392 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
38093342 CAGAAGAAAT
**
38093352 AGCATACTGGCTCATTTG
1 AGCATACTGGCTCATAAG
*
38093370 AGCATACTGGCTCGTAAG
1 AGCATACTGGCTCATAAG
38093388 AGCAT
1 AGCAT
38093393 TATTGGATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (18 bp):
AGCATACTGGCTCATAAG
Found at i:38097878 original size:15 final size:15
Alignment explanation
Indices: 38097858--38097898 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
38097848 CCTAGTTTTC
38097858 AATGGTGTCGAAAAT
1 AATGGTGTCGAAAAT
38097873 AATGGTGTCGAAAAT
1 AATGGTGTCGAAAAT
* *
38097888 AGTGGTTTCGA
1 AATGGTGTCGA
38097899 GACCAAATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.29
Consensus pattern (15 bp):
AATGGTGTCGAAAAT
Found at i:38099636 original size:25 final size:25
Alignment explanation
Indices: 38099586--38099636 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
38099576 GATAGTTGTA
*
38099586 TAGAAGGTATCGGTAGTTTTGCACT
1 TAGAAGGTATCGGTAGTTATGCACT
*
38099611 TAGAA-GTATCGGTAGTCTATGTACT
1 TAGAAGGTATCGGTAGT-TATGCACT
38099636 T
1 T
38099637 GTATCGGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.37
Consensus pattern (25 bp):
TAGAAGGTATCGGTAGTTATGCACT
Found at i:38102410 original size:19 final size:19
Alignment explanation
Indices: 38102383--38102449 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
38102373 TGTAGGATAT
*
38102383 TTGGATGGTAGAAATTAAA
1 TTGGGTGGTAGAAATTAAA
* * * **
38102402 TTGGGTGGTTGGGATTTATTG
1 TTGGGTGG-TAGAAATTA-AA
*
38102423 TTGGGTGGTAAAAATTAAA
1 TTGGGTGGTAGAAATTAAA
38102442 TTGGGTGG
1 TTGGGTGG
38102450 ATATTGTGTT
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
19 15 0.44
20 11 0.32
21 8 0.24
ACGTcount: A:0.27, C:0.00, G:0.36, T:0.37
Consensus pattern (19 bp):
TTGGGTGGTAGAAATTAAA
Found at i:38102583 original size:13 final size:12
Alignment explanation
Indices: 38102557--38102588 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
38102547 AAGGTAGTAT
38102557 ATTTATTTTTAA
1 ATTTATTTTTAA
38102569 ATTTATTTTTAA
1 ATTTATTTTTAA
*
38102581 AATTATTT
1 ATTTATTT
38102589 AATTTGTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATTTATTTTTAA
Found at i:38102894 original size:21 final size:21
Alignment explanation
Indices: 38102868--38102907 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
38102858 TAATTTACTT
38102868 TAATTTAATTTTGTTAGTAAA
1 TAATTTAATTTTGTTAGTAAA
*
38102889 TAATTTTATTTTGTTAGTA
1 TAATTTAATTTTGTTAGTA
38102908 GTAATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (21 bp):
TAATTTAATTTTGTTAGTAAA
Found at i:38103098 original size:13 final size:12
Alignment explanation
Indices: 38103074--38103115 Score: 59
Period size: 13 Copynumber: 3.4 Consensus size: 12
38103064 ATAATACGGG
38103074 TAAAATAATTATA
1 TAAAA-AATTATA
38103087 TAAAAAATT-TA
1 TAAAAAATTATA
38103098 TAAAAAATTAATA
1 TAAAAAATT-ATA
38103111 TAAAA
1 TAAAA
38103116 TTTATAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.41
12 4 0.15
13 12 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAAAAATTATA
Found at i:38103099 original size:11 final size:11
Alignment explanation
Indices: 38103074--38103122 Score: 62
Period size: 11 Copynumber: 4.3 Consensus size: 11
38103064 ATAATACGGG
38103074 TAAAATAATTATA
1 TAAAA-AATT-TA
38103087 TAAAAAATTTA
1 TAAAAAATTTA
*
38103098 TAAAAAATTAA
1 TAAAAAATTTA
*
38103109 TATAAAATTTA
1 TAAAAAATTTA
38103120 TAA
1 TAA
38103123 TATTTTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
11 23 0.72
12 4 0.12
13 5 0.16
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
TAAAAAATTTA
Found at i:38103118 original size:22 final size:24
Alignment explanation
Indices: 38103074--38103122 Score: 75
Period size: 22 Copynumber: 2.1 Consensus size: 24
38103064 ATAATACGGG
38103074 TAAAATAATTATATAAAAAATTTA
1 TAAAATAATTATATAAAAAATTTA
*
38103098 TAAAA-AATTA-ATATAAAATTTA
1 TAAAATAATTATATAAAAAATTTA
38103120 TAA
1 TAA
38103123 TATTTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 14 0.58
23 5 0.21
24 5 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
TAAAATAATTATATAAAAAATTTA
Found at i:38103308 original size:14 final size:15
Alignment explanation
Indices: 38103289--38103334 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
38103279 AACCTAGCTA
38103289 ATTAATTACCAAAAT
1 ATTAATTACCAAAAT
*
38103304 A-TAATATA-AAAAAT
1 ATTAAT-TACCAAAAT
38103318 AATTAATTACCAAAAT
1 -ATTAATTACCAAAAT
38103334 A
1 A
38103335 ATATCCACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
14 9 0.36
15 7 0.28
16 9 0.36
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTAATTACCAAAAT
Found at i:38103332 original size:16 final size:16
Alignment explanation
Indices: 38103287--38103336 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
38103277 TAAACCTAGC
38103287 TAATTAATTACCAAAA
1 TAATTAATTACCAAAA
*
38103303 T-A-TAATATA-AAAAA
1 TAATTAAT-TACCAAAA
38103317 TAATTAATTACCAAAA
1 TAATTAATTACCAAAA
38103333 TAAT
1 TAAT
38103337 ATCCACATCC
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.32
15 6 0.21
16 13 0.46
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (16 bp):
TAATTAATTACCAAAA
Found at i:38104732 original size:43 final size:43
Alignment explanation
Indices: 38104650--38104734 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
38104640 ATTAACATGT
* *
38104650 TAAAATATATTACTTGACTCGTGTTAATATGGTTGCATGTTAC
1 TAAAATATATTACTTGACTCGTATTAATATGCTTGCATGTTAC
* * *
38104693 TAAATTATATTACTTTACTCTTATTAATAT-CTTGACATGTTA
1 TAAAATATATTACTTGACTCGTATTAATATGCTTG-CATGTTA
38104735 TTAATTGTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
42 3 0.08
43 33 0.92
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.46
Consensus pattern (43 bp):
TAAAATATATTACTTGACTCGTATTAATATGCTTGCATGTTAC
Found at i:38105651 original size:7 final size:7
Alignment explanation
Indices: 38105611--38105713 Score: 59
Period size: 7 Copynumber: 14.6 Consensus size: 7
38105601 TTCATACTTA
*
38105611 TAAACCC
1 TAAACCT
*
38105618 TAAACCC
1 TAAACCT
* *
38105625 TATACAT
1 TAAACCT
*
38105632 TAGACCTT
1 TAAACC-T
38105640 TAAACCT
1 TAAACCT
38105647 TAAACCT
1 TAAACCT
*
38105654 TAAA-TT
1 TAAACCT
38105660 TAAAACCT
1 T-AAACCT
38105668 TAAA-CT
1 TAAACCT
*
38105674 CTAAACCA
1 -TAAACCT
*
38105682 TAAACCC
1 TAAACCT
*
38105689 TAAA-TT
1 TAAACCT
*
38105695 TAAAACCA
1 T-AAACCT
38105703 TAAACCT
1 TAAACCT
38105710 TAAA
1 TAAA
38105714 TTCAAAACCT
Statistics
Matches: 74, Mismatches: 15, Indels: 14
0.72 0.15 0.14
Matches are distributed among these distances:
6 5 0.07
7 59 0.80
8 10 0.14
ACGTcount: A:0.47, C:0.25, G:0.01, T:0.27
Consensus pattern (7 bp):
TAAACCT
Found at i:38105667 original size:21 final size:21
Alignment explanation
Indices: 38105641--38105727 Score: 80
Period size: 21 Copynumber: 4.5 Consensus size: 21
38105631 TTAGACCTTT
38105641 AAACCTTAAACCTTAAATTTA
1 AAACCTTAAACCTTAAATTTA
*
38105662 AAACCTTAAA-C-----TCT-
1 AAACCTTAAACCTTAAATTTA
* *
38105676 AAACCATAAACCCTAAATTTA
1 AAACCTTAAACCTTAAATTTA
* *
38105697 AAACCATAAACCTTAAATTCA
1 AAACCTTAAACCTTAAATTTA
38105718 AAACCTTAAA
1 AAACCTTAAA
38105728 TTTAAAGTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.17
15 3 0.06
20 3 0.06
21 38 0.72
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (21 bp):
AAACCTTAAACCTTAAATTTA
Found at i:38105679 original size:14 final size:14
Alignment explanation
Indices: 38105647--38105727 Score: 60
Period size: 14 Copynumber: 5.8 Consensus size: 14
38105637 CTTTAAACCT
*
38105647 TAAACCTTAAA-TT
1 TAAACCTTAAACTC
38105660 TAAAACCTTAAACTC
1 T-AAACCTTAAACTC
* *
38105675 TAAACCATAAACCC
1 TAAACCTTAAACTC
*
38105689 TAAA-TTTAAAAC-C
1 TAAACCTT-AAACTC
*
38105702 ATAAACCTTAAATTC
1 -TAAACCTTAAACTC
*
38105717 AAAACCTTAAA
1 TAAACCTTAAA
38105728 TTTAAAGTCA
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
13 3 0.06
14 46 0.85
15 5 0.09
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAACCTTAAACTC
Found at i:38105709 original size:56 final size:55
Alignment explanation
Indices: 38105641--38105783 Score: 189
Period size: 56 Copynumber: 2.6 Consensus size: 55
38105631 TTAGACCTTT
38105641 AAACCTTAAACCTTAAATTTAAAACCTTAAACTCTAAA-CCATAAACCCTAAATTTA
1 AAACCTTAAACCTTAAATTTAAAACCTTAAA-TCTAAAGCCATAAACCCTAAA-TTA
* * * * *
38105697 AAACCATAAACCTTAAATTCAAAACCTTAAATTTAAAGTCATAAACCTTAAATTA
1 AAACCTTAAACCTTAAATTTAAAACCTTAAATCTAAAGCCATAAACCCTAAATTA
* *
38105752 AAAGCCTTTAACCTTAAATTTAAAACCCTAAA
1 AAA-CCTTAAACCTTAAATTTAAAACCTTAAA
38105784 ATTTAACACA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
55 11 0.14
56 65 0.86
ACGTcount: A:0.49, C:0.21, G:0.01, T:0.29
Consensus pattern (55 bp):
AAACCTTAAACCTTAAATTTAAAACCTTAAATCTAAAGCCATAAACCCTAAATTA
Found at i:38105742 original size:21 final size:21
Alignment explanation
Indices: 38105709--38105775 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
38105699 ACCATAAACC
*
38105709 TTAAATTCA-AAACCTTAAAT
1 TTAAAGTCATAAACCTTAAAT
38105729 TTAAAGTCATAAACCTTAAAT
1 TTAAAGTCATAAACCTTAAAT
* * * *
38105750 TAAAAGCCTTTAACCTTAAAT
1 TTAAAGTCATAAACCTTAAAT
38105771 TTAAA
1 TTAAA
38105776 ACCCTAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
20 8 0.20
21 32 0.80
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.34
Consensus pattern (21 bp):
TTAAAGTCATAAACCTTAAAT
Found at i:38105749 original size:35 final size:35
Alignment explanation
Indices: 38105648--38105759 Score: 131
Period size: 35 Copynumber: 3.2 Consensus size: 35
38105638 TTTAAACCTT
* *
38105648 AAACCTTAAATTTAAAACCTTAAA-CTCTAAA-CCA
1 AAACCTTAAATTTAAAACCATAAACCT-TAAATTCA
*
38105682 TAAACCCTAAATTTAAAACCATAAACCTTAAATTCA
1 -AAACCTTAAATTTAAAACCATAAACCTTAAATTCA
**
38105718 AAACCTTAAATTTAAAGTCATAAACCTTAAATT-A
1 AAACCTTAAATTTAAAACCATAAACCTTAAATTCA
38105752 AAAGCCTT
1 AAA-CCTT
38105760 TAACCTTAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
34 4 0.06
35 60 0.88
36 4 0.06
ACGTcount: A:0.49, C:0.21, G:0.02, T:0.29
Consensus pattern (35 bp):
AAACCTTAAATTTAAAACCATAAACCTTAAATTCA
Found at i:38105778 original size:35 final size:35
Alignment explanation
Indices: 38105683--38105769 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 35
38105673 TCTAAACCAT
* * **
38105683 AAACCCTAAATTTAAAACCATAAACCTTAAATTCA
1 AAACCTTAAACTTAAAGTCATAAACCTTAAATTCA
*
38105718 AAACCTTAAATTTAAAGTCATAAACCTTAAATT-A
1 AAACCTTAAACTTAAAGTCATAAACCTTAAATTCA
*
38105752 AAAGCCTTTAACCTTAAA
1 AAA-CC-TTAAACTTAAA
38105770 TTTAAAACCC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
34 4 0.09
35 32 0.71
36 9 0.20
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (35 bp):
AAACCTTAAACTTAAAGTCATAAACCTTAAATTCA
Found at i:38108607 original size:21 final size:21
Alignment explanation
Indices: 38108583--38108631 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
38108573 TAAATCTGTT
*
38108583 AAAATATTAAATA-AAATTTCA
1 AAAATATAAAATACAAATTT-A
*
38108604 AAAA-ATAAAATACGAATTTA
1 AAAATATAAAATACAAATTTA
38108624 AAAATATA
1 AAAATATA
38108632 TCATACTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAATATAAAATACAAATTTA
Found at i:38108665 original size:26 final size:28
Alignment explanation
Indices: 38108609--38108665 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
38108599 TTTCAAAAAA
* *
38108609 TAAAATACGAATTTAAAAATATATCATAC
1 TAAAATAC-AATTTAAAAATATAACACAC
38108638 TAAAATA-AATTTAAAAATA-AACACAC
1 TAAAATACAATTTAAAAATATAACACAC
38108664 TA
1 TA
38108666 CATTTCTCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 7 0.27
27 12 0.46
29 7 0.27
ACGTcount: A:0.60, C:0.11, G:0.02, T:0.28
Consensus pattern (28 bp):
TAAAATACAATTTAAAAATATAACACAC
Found at i:38108689 original size:4 final size:4
Alignment explanation
Indices: 38108680--38108741 Score: 65
Period size: 4 Copynumber: 15.5 Consensus size: 4
38108670 TCTCTCATTC
* * *
38108680 TTCT TTCT TTCCT CTCC TTC- TTCC TTCT TTCT TTCT TTCTT TTCT TTCT
1 TTCT TTCT TT-CT TTCT TTCT TTCT TTCT TTCT TTCT TTC-T TTCT TTCT
38108729 TTCT TTC- TTCT TT
1 TTCT TTCT TTCT TT
38108742 TGCCCGTTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
3 6 0.12
4 37 0.74
5 7 0.14
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TTCT
Found at i:38108700 original size:20 final size:20
Alignment explanation
Indices: 38108671--38108710 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
38108661 CACTACATTT
*
38108671 CTCTCATTCTTCTTTCTTTC
1 CTCTCATTCTTCCTTCTTTC
*
38108691 CTCTCCTTCTTCCTTCTTTC
1 CTCTCATTCTTCCTTCTTTC
38108711 TTTCTTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.03, C:0.40, G:0.00, T:0.57
Consensus pattern (20 bp):
CTCTCATTCTTCCTTCTTTC
Found at i:38108701 original size:17 final size:16
Alignment explanation
Indices: 38108680--38108741 Score: 62
Period size: 17 Copynumber: 4.1 Consensus size: 16
38108670 TCTCTCATTC
38108680 TTCTTTCTTTCC-TC-
1 TTCTTTCTTTCCTTCT
*
38108694 -TCCTTC-TTCCTTCT
1 TTCTTTCTTTCCTTCT
*
38108708 TTCTTTCTTTCTTTTCT
1 TTCTTTCTTTC-CTTCT
38108725 TTCTTTCTTT-CTTCT
1 TTCTTTCTTTCCTTCT
38108740 TT
1 TT
38108742 TGCCCGTTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
12 4 0.10
13 7 0.18
15 11 0.28
16 3 0.08
17 14 0.36
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
TTCTTTCTTTCCTTCT
Found at i:38108721 original size:32 final size:32
Alignment explanation
Indices: 38108680--38108741 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
38108670 TCTCTCATTC
38108680 TTCTTTCTTTCCTCTCCTTCTTCCTTCTTTCT
1 TTCTTTCTTTCCTCTCCTTCTTCCTTCTTTCT
* * * *
38108712 TTCTTTCTTTTCTTTCTTTCTTTCTTCTTT
1 TTCTTTCTTTCCTCTCCTTCTTCCTTCTTT
38108742 TGCCCGTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (32 bp):
TTCTTTCTTTCCTCTCCTTCTTCCTTCTTTCT
Found at i:38108725 original size:13 final size:13
Alignment explanation
Indices: 38108707--38108734 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
38108697 TTCTTCCTTC
38108707 TTTCTTTCTTTCT
1 TTTCTTTCTTTCT
38108720 TTTCTTTCTTTCT
1 TTTCTTTCTTTCT
38108733 TT
1 TT
38108735 CTTCTTTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTCTTTCTTTCT
Found at i:38108739 original size:28 final size:28
Alignment explanation
Indices: 38108668--38108741 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
38108658 ACACACTACA
*
38108668 TTTCTCTCATTCTTCTTTCTTTCCTCTC
1 TTTCTTTCATTCTTCTTTCTTTCCTCTC
* * * *
38108696 CTTC-TTCCTTCTTTCTTTCTTTCTTTTC
1 TTTCTTTCATTC-TTCTTTCTTTCCTCTC
*
38108724 TTTCTTTCTTTCTTCTTT
1 TTTCTTTCATTCTTCTTT
38108742 TGCCCGTTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
27 5 0.14
28 26 0.70
29 6 0.16
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (28 bp):
TTTCTTTCATTCTTCTTTCTTTCCTCTC
Found at i:38110376 original size:21 final size:21
Alignment explanation
Indices: 38110327--38110379 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
38110317 ATAATAAAAA
*
38110327 TAAATAAATAACACATTAAAT
1 TAAAAAAATAACACATTAAAT
* *
38110348 TAAAAAAATAACTC-TTAATT
1 TAAAAAAATAACACATTAAAT
38110368 TAAAGAAAATAA
1 TAAA-AAAATAA
38110380 ACGTAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.28
Consensus pattern (21 bp):
TAAAAAAATAACACATTAAAT
Found at i:38111859 original size:19 final size:19
Alignment explanation
Indices: 38111837--38111877 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
38111827 TTAAAAAGTC
38111837 AAATTAATATATAAAAATT
1 AAATTAATATATAAAAATT
** *
38111856 AAATTTTTTTATAAAAATT
1 AAATTAATATATAAAAATT
38111875 AAA
1 AAA
38111878 AAAGTATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATTAATATATAAAAATT
Found at i:38112637 original size:31 final size:31
Alignment explanation
Indices: 38112558--38112639 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
38112548 GGCCAAATCA
* **
38112558 TTCAAAATGGTCAAATAAGAACCAAACTTTT
1 TTCAAAATGCTCAAATAAGGGCCAAACTTTT
*
38112589 TTGAAAATGCTCAAATAAGGGCCAAAC-TTT
1 TTCAAAATGCTCAAATAAGGGCCAAACTTTT
**
38112619 TTCAAAAGTGCTTTAATAAGG
1 TTCAAAA-TGCTCAAATAAGG
38112640 TGTGTACCAG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 9 0.21
31 34 0.79
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (31 bp):
TTCAAAATGCTCAAATAAGGGCCAAACTTTT
Found at i:38114053 original size:23 final size:23
Alignment explanation
Indices: 38114026--38114102 Score: 127
Period size: 23 Copynumber: 3.3 Consensus size: 23
38114016 AATTACCTAT
*
38114026 AGCAGACATAACTGTGCTATAAA
1 AGCAGACATAACCGTGCTATAAA
*
38114049 AGCAGACATAACCGTGCTATAGA
1 AGCAGACATAACCGTGCTATAAA
*
38114072 AGCAGACATAACCGTGCCATAAA
1 AGCAGACATAACCGTGCTATAAA
38114095 AGCAGACA
1 AGCAGACA
38114103 AAACTGTTGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (23 bp):
AGCAGACATAACCGTGCTATAAA
Found at i:38117198 original size:2 final size:2
Alignment explanation
Indices: 38117193--38117218 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
38117183 GAGAAATTTA
38117193 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
38117219 TAAAAGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38119082 original size:18 final size:18
Alignment explanation
Indices: 38119027--38119075 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
38119017 TTAAAAGTTT
38119027 TTAAAAAATATATAAAAA
1 TTAAAAAATATATAAAAA
* * *
38119045 TTGAAAAGTTTATAAAAA
1 TTAAAAAATATATAAAAA
38119063 TTAAAAAATATAT
1 TTAAAAAATATAT
38119076 TTAAATTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
TTAAAAAATATATAAAAA
Found at i:38121395 original size:17 final size:17
Alignment explanation
Indices: 38121364--38121415 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
38121354 ATTTGGTTTG
* *
38121364 TATTTCTTTAATTTTAT
1 TATTTATTTATTTTTAT
38121381 TATTTATTTATTTTTCAT
1 TATTTATTTATTTTT-AT
* *
38121399 T-TGTATTTATTTATAT
1 TATTTATTTATTTTTAT
38121415 T
1 T
38121416 TATAAATAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 3 0.10
17 24 0.80
18 3 0.10
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (17 bp):
TATTTATTTATTTTTAT
Found at i:38121415 original size:10 final size:10
Alignment explanation
Indices: 38121376--38121418 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
38121366 TTTCTTTAAT
38121376 TTTATTATTTA
1 TTTA-TATTTA
*
38121387 TTTATTTTTCA
1 TTTATATTT-A
*
38121398 TTTGTATTTA
1 TTTATATTTA
38121408 TTTATATTTA
1 TTTATATTTA
38121418 T
1 T
38121419 AAATAAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 15 0.56
11 12 0.44
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (10 bp):
TTTATATTTA
Found at i:38121424 original size:4 final size:4
Alignment explanation
Indices: 38121417--38121471 Score: 58
Period size: 4 Copynumber: 13.2 Consensus size: 4
38121407 ATTTATATTT
* *
38121417 ATAA ATAA GTAA ATAA ATAA A-AA TAAAA ATAA ATAA ATAA ATAAA ATAAA
1 ATAA ATAA ATAA ATAA ATAA ATAA -ATAA ATAA ATAA ATAA AT-AA AT-AA
38121467 ATAA A
1 ATAA A
38121472 AACGGAATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
3 2 0.04
4 32 0.71
5 11 0.24
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:38121447 original size:24 final size:23
Alignment explanation
Indices: 38121419--38121471 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 23
38121409 TTATATTTAT
*
38121419 AAATAAGTAAATAAATAAAAATAA
1 AAATAAATAAATAAAT-AAAATAA
38121443 AAATAAATAAATAAATAAAAT-A
1 AAATAAATAAATAAATAAAATAA
38121465 AAATAAA
1 AAATAAA
38121472 AACGGAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 8 0.29
23 5 0.18
24 15 0.54
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (23 bp):
AAATAAATAAATAAATAAAATAA
Found at i:38121457 original size:28 final size:28
Alignment explanation
Indices: 38121417--38121473 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
38121407 ATTTATATTT
*
38121417 ATAAATAAGTAAAT-AAATAAAAATAAAA
1 ATAAATAAATAAATAAAAT-AAAATAAAA
38121445 ATAAATAAATAAATAAAATAAAATAAAA
1 ATAAATAAATAAATAAAATAAAATAAAA
38121473 A
1 A
38121474 CGGAATTAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (28 bp):
ATAAATAAATAAATAAAATAAAATAAAA
Found at i:38121572 original size:15 final size:15
Alignment explanation
Indices: 38121552--38121589 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
38121542 ACTTACATTT
*
38121552 ATAAAATATAAATAA
1 ATAAAATAAAAATAA
38121567 ATAAAATAAAAAT--
1 ATAAAATAAAAATAA
38121580 ATAAAATAAA
1 ATAAAATAAA
38121590 TAAAATTGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
15 12 0.55
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
ATAAAATAAAAATAA
Found at i:38121580 original size:21 final size:22
Alignment explanation
Indices: 38121554--38121595 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
38121544 TTACATTTAT
38121554 AAAATAT-AAATAAATAAAATA
1 AAAATATAAAATAAATAAAATA
38121575 AAAATATAAAATAAATAAAAT
1 AAAATATAAAATAAATAAAAT
38121596 TGGGTTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAATATAAAATAAATAAAATA
Found at i:38121583 original size:13 final size:14
Alignment explanation
Indices: 38121551--38121589 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
38121541 TACTTACATT
38121551 TATAAAATATAAATA
1 TATAAAATA-AAATA
*
38121566 AATAAAATAAAA-A
1 TATAAAATAAAATA
38121579 TATAAAATAAA
1 TATAAAATAAA
38121590 TAAAATTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 11 0.50
14 3 0.14
15 8 0.36
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
TATAAAATAAAATA
Found at i:38122320 original size:16 final size:16
Alignment explanation
Indices: 38122296--38122331 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
38122286 ATTTTTTATT
* *
38122296 TTAATATTAAATAATC
1 TTAAAATTAAATAATA
38122312 TTAAAATTAAATAATA
1 TTAAAATTAAATAATA
38122328 TTAA
1 TTAA
38122332 TTAATTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAAAATTAAATAATA
Found at i:38122392 original size:15 final size:16
Alignment explanation
Indices: 38122368--38122400 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
38122358 TTGAAAAACT
*
38122368 AAAAATTTAAGTGTTG
1 AAAAATTTAAGTATTG
38122384 AAAAA-TTAAGTATTG
1 AAAAATTTAAGTATTG
38122399 AA
1 AA
38122401 CTTATATTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (16 bp):
AAAAATTTAAGTATTG
Found at i:38124973 original size:25 final size:25
Alignment explanation
Indices: 38124945--38124994 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
38124935 TGTTGAGAGC
38124945 AACAAAGTCCTCCTTTCTGAGGAGT
1 AACAAAGTCCTCCTTTCTGAGGAGT
38124970 AACAAAGTCCTCCTTTCTGAGGAGT
1 AACAAAGTCCTCCTTTCTGAGGAGT
38124995 CTAACTGGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (25 bp):
AACAAAGTCCTCCTTTCTGAGGAGT
Found at i:38129751 original size:25 final size:24
Alignment explanation
Indices: 38129723--38129823 Score: 87
Period size: 26 Copynumber: 4.0 Consensus size: 24
38129713 CGAAAAAGTA
*
38129723 ATATTCTATCTGGCTCGTAAGAGC
1 ATATTCTGTCTGGCTCGTAAGAGC
*
38129747 GATATTCTGTCTGGCTCATAAGAGC
1 -ATATTCTGTCTGGCTCGTAAGAGC
* *
38129772 TTAATTTTGTCTGGGCTCGTAAGAGC
1 AT-ATTCTGTCT-GGCTCGTAAGAGC
* *
38129798 TAAACTT-TGTCTGGGCTCGTATGAGC
1 -ATA-TTCTGTCT-GGCTCGTAAGAGC
38129824 TAAAATTTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
24 1 0.02
25 30 0.47
26 31 0.48
27 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.35
Consensus pattern (24 bp):
ATATTCTGTCTGGCTCGTAAGAGC
Found at i:38129795 original size:26 final size:26
Alignment explanation
Indices: 38129734--38129832 Score: 119
Period size: 26 Copynumber: 3.8 Consensus size: 26
38129724 TATTCTATCT
* * *
38129734 GGCTCGTAAGAGCGATATTCTGTCT-
1 GGCTCGTAAGAGCTAAATTTTGTCTG
* *
38129759 GGCTCATAAGAGCTTAATTTTGTCTG
1 GGCTCGTAAGAGCTAAATTTTGTCTG
*
38129785 GGCTCGTAAGAGCTAAACTTTGTCTG
1 GGCTCGTAAGAGCTAAATTTTGTCTG
*
38129811 GGCTCGTATGAGCTAAAATTTT
1 GGCTCGTAAGAGCT-AAATTTT
38129833 TGAAAGACTC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
25 20 0.32
26 36 0.58
27 6 0.10
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (26 bp):
GGCTCGTAAGAGCTAAATTTTGTCTG
Found at i:38133674 original size:28 final size:29
Alignment explanation
Indices: 38133620--38133675 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
38133610 ATGTTATTTC
* *
38133620 GATTTTGGTTTAAGGTTTTAGAGTTTGGA
1 GATTTTGATTTAAGGTTTTAGAATTTGGA
38133649 GATTTTGATTT-AGGTTGTT-GAATTTGG
1 GATTTTGATTTAAGGTT-TTAGAATTTGG
38133676 GGTTTTCGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (29 bp):
GATTTTGATTTAAGGTTTTAGAATTTGGA
Found at i:38135928 original size:177 final size:177
Alignment explanation
Indices: 38135632--38135989 Score: 707
Period size: 177 Copynumber: 2.0 Consensus size: 177
38135622 CAAACATTAT
38135632 AAAGATTCTCATCAAAATCGTATGGCAAAATAGTGCATGCATGATTCTACCAATGCAATATTTTT
1 AAAGATTCTCATCAAAATCGTATGGCAAAATAGTGCATGCATGATTCTACCAATGCAATATTTTT
38135697 AGAAAAACATATAGATTTTTCAAAAAAAATTCCTACCCAAAGCCCGCTACATACCAAATTAGAGT
66 AGAAAAACATATAGATTTTTCAAAAAAAATTCCTACCCAAAGCCCGCTACATACCAAATTAGAGT
*
38135762 TTCCAAAAACTCGTCCATCCAAAACACACCAACAGACAATTGTGGAC
131 TTCCAAAAACTCATCCATCCAAAACACACCAACAGACAATTGTGGAC
38135809 AAAGATTCTCATCAAAATCGTATGGCAAAATAGTGCATGCATGATTCTACCAATGCAATATTTTT
1 AAAGATTCTCATCAAAATCGTATGGCAAAATAGTGCATGCATGATTCTACCAATGCAATATTTTT
38135874 AGAAAAACATATAGATTTTTCAAAAAAAATTCCTACCCAAAGCCCGCTACATACCAAATTAGAGT
66 AGAAAAACATATAGATTTTTCAAAAAAAATTCCTACCCAAAGCCCGCTACATACCAAATTAGAGT
38135939 TTCCAAAAACTCATCCATCCAAAACACACCAACAGACAATTGTGGAC
131 TTCCAAAAACTCATCCATCCAAAACACACCAACAGACAATTGTGGAC
38135986 AAAG
1 AAAG
38135990 CTACCAGAGT
Statistics
Matches: 180, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
177 180 1.00
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.25
Consensus pattern (177 bp):
AAAGATTCTCATCAAAATCGTATGGCAAAATAGTGCATGCATGATTCTACCAATGCAATATTTTT
AGAAAAACATATAGATTTTTCAAAAAAAATTCCTACCCAAAGCCCGCTACATACCAAATTAGAGT
TTCCAAAAACTCATCCATCCAAAACACACCAACAGACAATTGTGGAC
Found at i:38139726 original size:73 final size:73
Alignment explanation
Indices: 38139587--38139785 Score: 305
Period size: 73 Copynumber: 2.8 Consensus size: 73
38139577 TTTTATTTTA
* * * * * * * *
38139587 TATATATATATATACATTTTGATTTTATTTTTA--TCT-TTTATTTATATACATACGCATGTACA
1 TATATATAAACATACATCTTGACTTTATTTTTATTTTTGTTTATATATATATATATGCATGTACA
38139649 TATATATG
66 TATATATG
38139657 TATATATAAACATACATCTTGACTTTATTTTTATTTTTGTTTATATATATATATATGCATGTACA
1 TATATATAAACATACATCTTGACTTTATTTTTATTTTTGTTTATATATATATATATGCATGTACA
38139722 TATATATG
66 TATATATG
38139730 TATATATAAACATACATCTTGACTTTATTTTTATTTTTGTTTATATATATATATAT
1 TATATATAAACATACATCTTGACTTTATTTTTATTTTTGTTTATATATATATATAT
38139786 ATATATATAT
Statistics
Matches: 118, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
70 29 0.25
72 2 0.02
73 87 0.74
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.53
Consensus pattern (73 bp):
TATATATAAACATACATCTTGACTTTATTTTTATTTTTGTTTATATATATATATATGCATGTACA
TATATATG
Found at i:38139778 original size:2 final size:2
Alignment explanation
Indices: 38139771--38139797 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
38139761 TATTTTTGTT
38139771 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
38139798 GCATGTACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38139854 original size:59 final size:59
Alignment explanation
Indices: 38139791--38139914 Score: 130
Period size: 59 Copynumber: 2.1 Consensus size: 59
38139781 TATATATATA
*
38139791 TATATATGCATGTACAT-T-TATATGTAAATATAAACATAAAT-TTTGATTTTATT-TTTATT
1 TATATACGCATGTACATATATATATGT-AA-ATAAACATAAATATTT-ATTTTATTATTT-TT
* * * * *
38139850 TATATACGTATGTGCATATATATTTGTAAATAAATATACATATTTATTTTATTATTTTT
1 TATATACGCATGTACATATATATATGTAAATAAACATAAATATTTATTTTATTATTTTT
38139909 TATATA
1 TATATA
38139915 AATACAAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
59 40 0.73
60 9 0.16
61 6 0.11
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.52
Consensus pattern (59 bp):
TATATACGCATGTACATATATATATGTAAATAAACATAAATATTTATTTTATTATTTTT
Found at i:38139869 original size:85 final size:85
Alignment explanation
Indices: 38139698--38139872 Score: 233
Period size: 85 Copynumber: 2.1 Consensus size: 85
38139688 TATTTTTGTT
* *
38139698 TATATATATATATATGCATGTACATATATATGTATATATAAACATACATCTTGACTTTATTTTTA
1 TATATATATATATATGCATGTACATATATATGTAAATATAAACATAAATCTTGACTTTATTTTTA
* * ** *
38139763 TTTTTGTTTATATATATATA
66 TTTATATACATATATACATA
* * *
38139783 TATATATATATATATGCATGTACATTTATATGTAAATATAAACATAAATTTTGATTTTATTTTTA
1 TATATATATATATATGCATGTACATATATATGTAAATATAAACATAAATCTTGACTTTATTTTTA
* * *
38139848 TTTATATACGTATGTGCATA
66 TTTATATACATATATACATA
38139868 TATAT
1 TATAT
38139873 TTGTAAATAA
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 77 1.00
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.50
Consensus pattern (85 bp):
TATATATATATATATGCATGTACATATATATGTAAATATAAACATAAATCTTGACTTTATTTTTA
TTTATATACATATATACATA
Found at i:38140078 original size:18 final size:18
Alignment explanation
Indices: 38140017--38140080 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 18
38140007 TAAAAGGAAA
38140017 AACAAAAA-GGAAATAAT
1 AACAAAAACGGAAATAAT
* ***
38140034 AAAAATAAATTTAAATAA-
1 AACAA-AAACGGAAATAAT
*
38140052 ACCATAAAACGGAAATAAT
1 AACA-AAAACGGAAATAAT
38140071 AACAAAAACG
1 AACAAAAACG
38140081 AAAAAAACAG
Statistics
Matches: 34, Mismatches: 9, Indels: 7
0.68 0.18 0.14
Matches are distributed among these distances:
17 4 0.12
18 20 0.59
19 10 0.29
ACGTcount: A:0.67, C:0.09, G:0.08, T:0.16
Consensus pattern (18 bp):
AACAAAAACGGAAATAAT
Done.