Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008709.1 Hibiscus syriacus cultivar Beakdansim tig00111758_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: 3030657
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 15
Found at i:2554682 original size:16 final size:17
Alignment explanation
Indices: 2554650--2554683 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2554640 CTTTATATTC
2554650 AACATAGATATTAAAAT
1 AACATAGATATTAAAAT
*
2554667 AACATA-ATATTGAAAT
1 AACATAGATATTAAAAT
2554683 A
1 A
2554684 TTATATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (17 bp):
AACATAGATATTAAAAT
Found at i:2560008 original size:20 final size:21
Alignment explanation
Indices: 2559980--2560061 Score: 76
Period size: 24 Copynumber: 3.7 Consensus size: 21
2559970 TTTCCCTTGA
* *
2559980 AGTGCATCGATACATTCT-AC
1 AGTGTATCGATGCATTCTAAC
2560000 AGTGTATCGATGCATTCTTTAAC
1 AGTGTATCGATGCATTC--TAAC
2560023 ATGTGTATCGATGCATTCTTTAAC
1 A-GTGTATCGATGCATTC--TAAC
*
2560047 ATGTGCATCGATGCA
1 A-GTGTATCGATGCA
2560062 CTATCCACGC
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
20 15 0.27
22 1 0.02
23 3 0.05
24 36 0.65
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (21 bp):
AGTGTATCGATGCATTCTAAC
Found at i:2560033 original size:24 final size:24
Alignment explanation
Indices: 2560001--2560061 Score: 113
Period size: 24 Copynumber: 2.5 Consensus size: 24
2559991 ACATTCTACA
2560001 GTGTATCGATGCATTCTTTAACAT
1 GTGTATCGATGCATTCTTTAACAT
2560025 GTGTATCGATGCATTCTTTAACAT
1 GTGTATCGATGCATTCTTTAACAT
*
2560049 GTGCATCGATGCA
1 GTGTATCGATGCA
2560062 CTATCCACGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.38
Consensus pattern (24 bp):
GTGTATCGATGCATTCTTTAACAT
Found at i:2564452 original size:24 final size:20
Alignment explanation
Indices: 2564395--2564452 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
2564385 TTTCCCTTGA
*
2564395 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
*
2564415 AGTGTATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
2564438 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
2564453 CTATCCACGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 15 0.48
22 1 0.03
23 3 0.10
24 12 0.39
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:2576992 original size:13 final size:13
Alignment explanation
Indices: 2576970--2577003 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
2576960 AAGGGGAGTA
*
2576970 ATTTTCAAAATTG
1 ATTTTCAAAAATG
2576983 A-TTTCAAAAATG
1 ATTTTCAAAAATG
2576995 ATTTTCAAA
1 ATTTTCAAA
2577004 GAAAAACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:2579194 original size:17 final size:18
Alignment explanation
Indices: 2579172--2579207 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
2579162 ATCAAACAAA
*
2579172 ATTTTATTTAATT-TCAT
1 ATTTTATTCAATTATCAT
2579189 ATTTTATTCAATTATCAT
1 ATTTTATTCAATTATCAT
2579207 A
1 A
2579208 GAACAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTATTCAATTATCAT
Found at i:2580111 original size:34 final size:35
Alignment explanation
Indices: 2580053--2580138 Score: 138
Period size: 34 Copynumber: 2.5 Consensus size: 35
2580043 ATTGCCTAGA
2580053 GGGAACAGATTCTCCCCCAGGGGGTATCGATTCCCC
1 GGGAACAGATTC-CCCCCAGGGGGTATCGATTCCCC
*
2580089 GGGAACAAATTCCCCCCA-GGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
*
2580123 GGGTACAGATTCCCCC
1 GGGAACAGATTCCCCC
2580139 TGCATGGTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
34 30 0.64
35 6 0.13
36 11 0.23
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.19
Consensus pattern (35 bp):
GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
Found at i:2580276 original size:21 final size:21
Alignment explanation
Indices: 2580250--2580291 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2580240 TATTTGAATT
*
2580250 TATGAAAGGGTATCGATTCCC
1 TATGAAAGGGTACCGATTCCC
*
2580271 TATGAAGGGGTACCGATTCCC
1 TATGAAAGGGTACCGATTCCC
2580292 CCCATTCTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (21 bp):
TATGAAAGGGTACCGATTCCC
Found at i:2583641 original size:34 final size:34
Alignment explanation
Indices: 2583576--2583660 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 34
2583566 ATTGCCCAGA
*
2583576 GGGAACAGATTCTCCCCATGGGGTATTGATTCCCC
1 GGGAACAGATTC-CCCCATGGGGTATCGATTCCCC
2583611 GGGAACAGATTCCCCACA-GGGGTATCGATTCCCC
1 GGGAACAGATTCCCC-CATGGGGTATCGATTCCCC
*
2583645 GGGTACAGATTCCCCC
1 GGGAACAGATTCCCCC
2583661 TGCATGGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
33 1 0.02
34 32 0.68
35 14 0.30
ACGTcount: A:0.21, C:0.32, G:0.26, T:0.21
Consensus pattern (34 bp):
GGGAACAGATTCCCCCATGGGGTATCGATTCCCC
Found at i:2583655 original size:15 final size:15
Alignment explanation
Indices: 2583603--2583659 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
2583593 ATGGGGTATT
*
2583603 GATTCCCCGGGAACA
1 GATTCCCCGGGTACA
2583618 GATTCCCCACAGGGGTATC-
1 GATT-CCC-C--GGGTA-CA
2583637 GATTCCCCGGGTACA
1 GATTCCCCGGGTACA
2583652 GATTCCCC
1 GATTCCCC
2583660 CTGCATGGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
14 1 0.03
15 17 0.49
16 3 0.09
17 2 0.06
18 3 0.09
19 8 0.23
20 1 0.03
ACGTcount: A:0.21, C:0.35, G:0.25, T:0.19
Consensus pattern (15 bp):
GATTCCCCGGGTACA
Found at i:2584495 original size:17 final size:18
Alignment explanation
Indices: 2584473--2584508 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
2584463 ATCAAACAAA
*
2584473 ATTTTATTTAATT-TCAT
1 ATTTTATTCAATTATCAT
2584490 ATTTTATTCAATTATCAT
1 ATTTTATTCAATTATCAT
2584508 A
1 A
2584509 GAACAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTATTCAATTATCAT
Found at i:2585412 original size:34 final size:35
Alignment explanation
Indices: 2585354--2585440 Score: 140
Period size: 34 Copynumber: 2.5 Consensus size: 35
2585344 ATTGCCTAGA
2585354 GGGAACAGATTCTCCCCCAGGGGGTATCGATTCCCC
1 GGGAACAGATTC-CCCCCAGGGGGTATCGATTCCCC
*
2585390 GGGAACAAATTCCCCCCA-GGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
*
2585424 GGGTACAGATTCCCCCC
1 GGGAACAGATTCCCCCC
2585441 TGCATGGTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
34 31 0.65
35 6 0.12
36 11 0.23
ACGTcount: A:0.21, C:0.36, G:0.25, T:0.18
Consensus pattern (35 bp):
GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
Found at i:2585578 original size:21 final size:21
Alignment explanation
Indices: 2585552--2585593 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2585542 TATTTGAATT
*
2585552 TATGAAAGGGTATCGATTCCC
1 TATGAAAGGGTACCGATTCCC
*
2585573 TATGAAGGGGTACCGATTCCC
1 TATGAAAGGGTACCGATTCCC
2585594 CCCATTCTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (21 bp):
TATGAAAGGGTACCGATTCCC
Found at i:2588149 original size:34 final size:34
Alignment explanation
Indices: 2588084--2588168 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 34
2588074 ATTGCCCAGA
*
2588084 GGGAACAGATTCTCCCCATGGGGTATTGATTCCCC
1 GGGAACAGATTC-CCCCATGGGGTATCGATTCCCC
2588119 GGGAACAGATTCCCCACA-GGGGTATCGATTCCCC
1 GGGAACAGATTCCCC-CATGGGGTATCGATTCCCC
*
2588153 GGGTACAGATTCCCCC
1 GGGAACAGATTCCCCC
2588169 TGCATGGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
33 1 0.02
34 32 0.68
35 14 0.30
ACGTcount: A:0.21, C:0.32, G:0.26, T:0.21
Consensus pattern (34 bp):
GGGAACAGATTCCCCCATGGGGTATCGATTCCCC
Found at i:2588163 original size:15 final size:15
Alignment explanation
Indices: 2588111--2588167 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
2588101 ATGGGGTATT
*
2588111 GATTCCCCGGGAACA
1 GATTCCCCGGGTACA
2588126 GATTCCCCACAGGGGTATC-
1 GATT-CCC-C--GGGTA-CA
2588145 GATTCCCCGGGTACA
1 GATTCCCCGGGTACA
2588160 GATTCCCC
1 GATTCCCC
2588168 CTGCATGGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
14 1 0.03
15 17 0.49
16 3 0.09
17 2 0.06
18 3 0.09
19 8 0.23
20 1 0.03
ACGTcount: A:0.21, C:0.35, G:0.25, T:0.19
Consensus pattern (15 bp):
GATTCCCCGGGTACA
Found at i:2597014 original size:13 final size:13
Alignment explanation
Indices: 2596970--2597014 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
2596960 TACTTTCTAT
2596970 ATTAATTATAATC
1 ATTAATTATAATC
*
2596983 TTTATATTATAAATC
1 ATTA-ATTAT-AATC
2596998 -TTAATTATAATC
1 ATTAATTATAATC
2597010 ATTAA
1 ATTAA
2597015 ATTAATTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 4 0.14
13 12 0.43
14 8 0.29
15 4 0.14
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTAATTATAATC
Found at i:2597604 original size:23 final size:24
Alignment explanation
Indices: 2597570--2597614 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
2597560 TTATCGGAAA
2597570 TATTTTTATTTCTACCGGTTTTAT
1 TATTTTTATTTCTACCGGTTTTAT
2597594 TATTTTT-TTTCTACCGGTTTT
1 TATTTTTATTTCTACCGGTTTT
2597615 GTTCTTGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.13, C:0.13, G:0.09, T:0.64
Consensus pattern (24 bp):
TATTTTTATTTCTACCGGTTTTAT
Found at i:2598103 original size:20 final size:21
Alignment explanation
Indices: 2598059--2598103 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
2598049 TTATGTATAC
*
2598059 ATATACTTATATATTATACTT
1 ATATACTTATATATCATACTT
2598080 -TATACTTATATA-CATACTT
1 ATATACTTATATATCATACTT
2598099 ATATA
1 ATATA
2598104 TAGATACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATACTTATATATCATACTT
Found at i:2598105 original size:14 final size:14
Alignment explanation
Indices: 2598086--2598123 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
2598076 ACTTTATACT
2598086 TATATACATACTTA
1 TATATACATACTTA
* *
2598100 TATATAGATACTTT
1 TATATACATACTTA
2598114 TATATACATA
1 TATATACATA
2598124 TATATGTGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.45
Consensus pattern (14 bp):
TATATACATACTTA
Found at i:2598267 original size:32 final size:32
Alignment explanation
Indices: 2598203--2598293 Score: 109
Period size: 32 Copynumber: 2.9 Consensus size: 32
2598193 TAGTTATATT
* *
2598203 TATAA-GTATATTTATAC-ATATGC--ATAAG
1 TATAATGTATACTTATACTATATACTTATAAG
2598231 TATAATGTATACTTATACTATATACTTATAAG
1 TATAATGTATACTTATACTATATACTTATAAG
* *
2598263 TATAATGTATAGTTATATATATATACTTATA
1 TATAATGTATACTTATA-CTATATACTTATA
2598294 TATATATAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
28 5 0.09
29 11 0.20
30 5 0.09
32 21 0.39
33 12 0.22
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.44
Consensus pattern (32 bp):
TATAATGTATACTTATACTATATACTTATAAG
Found at i:2598297 original size:16 final size:16
Alignment explanation
Indices: 2598276--2598321 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
2598266 AATGTATAGT
2598276 TATATATATATACTTA
1 TATATATATATACTTA
*
2598292 TATATATATA-AGTT-
1 TATATATATATACTTA
2598306 T-T-TATATATACTTA
1 TATATATATATACTTA
2598320 TA
1 TA
2598322 GTTATAAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
12 6 0.24
13 4 0.16
14 2 0.08
15 3 0.12
16 10 0.40
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (16 bp):
TATATATATATACTTA
Found at i:2598366 original size:13 final size:13
Alignment explanation
Indices: 2598350--2598409 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
2598340 ATATTACAAG
2598350 TATAATATATACT
1 TATAATATATACT
* *
2598363 TATATTATA-AGT
1 TATAATATATACT
2598375 CTAT-AT-TATACT
1 -TATAATATATACT
*
2598387 TATACTATATACT
1 TATAATATATACT
*
2598400 TATATTATAT
1 TATAATATAT
2598410 TATATTATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
11 5 0.14
12 6 0.16
13 26 0.70
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (13 bp):
TATAATATATACT
Found at i:2598370 original size:5 final size:5
Alignment explanation
Indices: 2598357--2598421 Score: 58
Period size: 5 Copynumber: 11.4 Consensus size: 5
2598347 AAGTATAATA
2598357 TATACT TATAT TATAAGT CTATAT TATACT TATACT ATATACT TATAT TATAT
1 TATA-T TATAT TAT-A-T -TATAT TATA-T TATA-T -TATA-T TATAT TATAT
2598410 TATAT TATAT TA
1 TATAT TATAT TA
2598422 AAATTGTTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
5 26 0.48
6 17 0.31
7 8 0.15
8 3 0.06
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (5 bp):
TATAT
Found at i:2598374 original size:24 final size:24
Alignment explanation
Indices: 2598276--2598418 Score: 93
Period size: 24 Copynumber: 5.9 Consensus size: 24
2598266 AATGTATAGT
2598276 TATATATATATACTTATATATATATAAG
1 TATATAT-TATAC-T-TATAT-TATAAG
* *
2598304 TTTTTATATATACTTATAGTTATAAG
1 TATATAT-TATACTTATA-TTATAAG
* * *
2598330 --TATAGTGTA--TATATTACAAG
1 TATATATTATACTTATATTATAAG
2598350 TATA-ATATATACTTATATTATAAG
1 TATATAT-TATACTTATATTATAAG
* * *
2598374 TCTATATTATACTTATACTATATAC
1 TATATATTATACTTATATTATA-AG
2598399 T-TATATTATA-TTATATTATA
1 TATATATTATACTTATATTATA
2598419 TTAAAATTGT
Statistics
Matches: 94, Mismatches: 13, Indels: 21
0.73 0.10 0.16
Matches are distributed among these distances:
20 6 0.06
21 5 0.05
22 5 0.05
23 12 0.13
24 39 0.41
25 4 0.04
26 10 0.11
27 2 0.02
28 11 0.12
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.49
Consensus pattern (24 bp):
TATATATTATACTTATATTATAAG
Found at i:2600442 original size:3 final size:3
Alignment explanation
Indices: 2600436--2600470 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
2600426 AAAGACACGT
*
2600436 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAC TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2600471 GAATTAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2602915 original size:24 final size:24
Alignment explanation
Indices: 2602881--2602934 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
2602871 CATTTAAATG
*
2602881 ATAAACGAACACAAATGAACAAAC
1 ATAAACAAACACAAATGAACAAAC
2602905 ATAAACAAACACAAATGAACAAAC
1 ATAAACAAACACAAATGAACAAAC
2602929 ATAAAC
1 ATAAAC
2602935 GAACGGATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.65, C:0.20, G:0.06, T:0.09
Consensus pattern (24 bp):
ATAAACAAACACAAATGAACAAAC
Found at i:2603251 original size:24 final size:24
Alignment explanation
Indices: 2603219--2603268 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
2603209 AACATAAACG
*
2603219 AACACACATAAACGAACGGACATA
1 AACACACATAAACGAACGAACATA
*
2603243 AACAGACATAAACGAACGAACATA
1 AACACACATAAACGAACGAACATA
2603267 AA
1 AA
2603269 TGAACGAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.22, G:0.12, T:0.08
Consensus pattern (24 bp):
AACACACATAAACGAACGAACATA
Found at i:2603267 original size:14 final size:14
Alignment explanation
Indices: 2603209--2603280 Score: 82
Period size: 14 Copynumber: 5.4 Consensus size: 14
2603199 GATTGAGATA
2603209 AACATAAACGAAC-
1 AACATAAACGAACG
2603222 ACACATAAACGAACG
1 A-ACATAAACGAACG
*
2603237 GACATAAAC--A-G
1 AACATAAACGAACG
2603248 -ACATAAACGAACG
1 AACATAAACGAACG
*
2603261 AACATAAATGAACG
1 AACATAAACGAACG
2603275 AACATA
1 AACATA
2603281 TTACCGAACG
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
10 8 0.16
11 1 0.02
12 2 0.04
13 2 0.04
14 38 0.75
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.10
Consensus pattern (14 bp):
AACATAAACGAACG
Found at i:2612405 original size:18 final size:18
Alignment explanation
Indices: 2612382--2612433 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
2612372 ACGATGTCCA
*
2612382 AAGTAGACGTATACGTTG
1 AAGTAGACGTACACGTTG
2612400 AAGTAGACGTACACGTTG
1 AAGTAGACGTACACGTTG
2612418 AAGTAGACGTACACGT
1 AAGTAGACGTACACGT
2612434 ACACATACAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (18 bp):
AAGTAGACGTACACGTTG
Found at i:2612433 original size:6 final size:6
Alignment explanation
Indices: 2612424--2612800 Score: 439
Period size: 6 Copynumber: 62.8 Consensus size: 6
2612414 GTTGAAGTAG
* *
2612424 ACGTAC ACGTAC ACATAC ACGTAC ACATAC ACGTAC ACGTAC ACGTAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
2612472 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
2612520 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
*
2612568 ACGTAC ACGTAC AGGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * *
2612616 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAT ACGTAT ACATAT
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * * * * * * * *
2612664 ACATAC ACATAT ACATAT ACGTAT ACATAT ACGTAT ACGTAT ACGTAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * * * * * * * * *
2612712 ACATAT ACATAT ACATAT ACATAT ACGTAC ACGTAC ACGTAT ATGTAT
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* ** * * * *
2612760 ACATAC AATTAC ACGTAA ACGTAT ACGTAA ACGTAA ACGTA
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTA
2612801 AACATAACAT
Statistics
Matches: 341, Mismatches: 30, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 341 1.00
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.21
Consensus pattern (6 bp):
ACGTAC
Found at i:2612865 original size:14 final size:14
Alignment explanation
Indices: 2612846--2612886 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
2612836 ACATAGACGC
*
2612846 AAACATAGACATAG
1 AAACATAAACATAG
2612860 AAACATAAACAT--
1 AAACATAAACATAG
*
2612872 AAACGTAAACATAG
1 AAACATAAACATAG
2612886 A
1 A
2612887 TGTAAACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 11 0.48
14 12 0.52
ACGTcount: A:0.61, C:0.15, G:0.10, T:0.15
Consensus pattern (14 bp):
AAACATAAACATAG
Found at i:2612880 original size:12 final size:12
Alignment explanation
Indices: 2612865--2613531 Score: 311
Period size: 12 Copynumber: 54.6 Consensus size: 12
2612855 CATAGAAACA
*
2612865 TAAACATAAACG
1 TAAACATAGACG
*
2612877 TAAACATAGATG
1 TAAACATAGACG
2612889 TAAACATAGACG
1 TAAACATAGACG
*
2612901 TAGACATAGACG
1 TAAACATAGACG
2612913 TATAAACATAGACG
1 --TAAACATAGACG
* *
2612927 TAGACGTAGACG
1 TAAACATAGACG
* **
2612939 TAGATGTAGACG
1 TAAACATAGACG
* *
2612951 TAGACGTAGACG
1 TAAACATAGACG
* *
2612963 TAGACGTAGACG
1 TAAACATAGACG
* ** *
2612975 TAGATGTTGACG
1 TAAACATAGACG
* *
2612987 TAGACGTAGACG
1 TAAACATAGACG
* *
2612999 TAGACGTAGACG
1 TAAACATAGACG
* *
2613011 TAGACGTAGACG
1 TAAACATAGACG
* *
2613023 TAGACGTAGACG
1 TAAACATAGACG
* **
2613035 TAGATGTAGACG
1 TAAACATAGACG
* ** *
2613047 TAGATGTAGACA
1 TAAACATAGACG
** * *
2613059 TTGATATA-AAG
1 TAAACATAGACG
* *
2613070 ATAGACATAGACA
1 -TAAACATAGACG
*
2613083 TAAAGATAGACG
1 TAAACATAGACG
*
2613095 TAAAAACATAAACG
1 T--AAACATAGACG
* *
2613109 TAGACGTAGACG
1 TAAACATAGACG
* *
2613121 TAGACGTAGACG
1 TAAACATAGACG
* *
2613133 TAGACGTAGACG
1 TAAACATAGACG
* *
2613145 TAGACGTAGACG
1 TAAACATAGACG
* **
2613157 TAGATGTAGACG
1 TAAACATAGACG
*
2613169 TAGACATAGACG
1 TAAACATAGACG
* **
2613181 TAGATGTAGACG
1 TAAACATAGACG
* *
2613193 TAGACGTAGACG
1 TAAACATAGACG
**
2613205 TAAACATAAGATA
1 TAAACAT-AGACG
*
2613218 TAGACATAGACG
1 TAAACATAGACG
* *
2613230 TAGACATAAACG
1 TAAACATAGACG
*
2613242 TAGACATAGACG
1 TAAACATAGACG
*
2613254 TAGACATAGACG
1 TAAACATAGACG
* *
2613266 TAGACATAGACA
1 TAAACATAGACG
2613278 TAAACATAGACG
1 TAAACATAGACG
* *
2613290 T----ATAAACA
1 TAAACATAGACG
**
2613298 TAAACATA-ATA
1 TAAACATAGACG
*
2613309 TAAATATAGACG
1 TAAACATAGACG
2613321 TAAACATAGACG
1 TAAACATAGACG
*
2613333 TAGACATAGACG
1 TAAACATAGACG
2613345 TAAACATAGACG
1 TAAACATAGACG
2613357 TATAAACATAGACG
1 --TAAACATAGACG
* *
2613371 TAGACGTAGACG
1 TAAACATAGACG
2613383 TAGATGTAGACATAGACG
1 T--A---A-ACATAGACG
* *
2613401 TAGACGTAGACG
1 TAAACATAGACG
* *
2613413 TAGACGTAGACG
1 TAAACATAGACG
* * *
2613425 TAGACGTAGACA
1 TAAACATAGACG
* *
2613437 TAGACGTAGACG
1 TAAACATAGACG
* *
2613449 TAGACATAGAAG
1 TAAACATAGACG
2613461 TATAAACATAGACG
1 --TAAACATAGACG
* *
2613475 TAGACATAGAAG
1 TAAACATAGACG
*
2613487 TATAAACATAGACA
1 --TAAACATAGACG
* *
2613501 TAGACATAGACA
1 TAAACATAGACG
* *
2613513 TAGACATAGACA
1 TAAACATAGACG
2613525 TAAACAT
1 TAAACAT
2613532 GAACATGAAC
Statistics
Matches: 554, Mismatches: 77, Indels: 48
0.82 0.11 0.07
Matches are distributed among these distances:
8 6 0.01
11 10 0.02
12 465 0.84
13 10 0.02
14 53 0.10
16 1 0.00
18 9 0.02
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.19
Consensus pattern (12 bp):
TAAACATAGACG
Found at i:2612890 original size:56 final size:56
Alignment explanation
Indices: 2612824--2612956 Score: 158
Period size: 56 Copynumber: 2.4 Consensus size: 56
2612814 TATAATATAG
*
2612824 ACATACATGTAAACATAGACGCAAACATAGACATAGAAACATAAACATAAACGTAA
1 ACATAGATGTAAACATAGACGCAAACATAGACATAGAAACATAAACATAAACGTAA
* * * * * * * *
2612880 ACATAGATGTAAACATAGACGTAGACATAGACGTATAAACATAGACGTAGACGTAG
1 ACATAGATGTAAACATAGACGCAAACATAGACATAGAAACATAAACATAAACGTAA
* * *
2612936 ACGTAGATGTAGACGTAGACG
1 ACATAGATGTAAACATAGACG
2612957 TAGACGTAGA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
56 65 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (56 bp):
ACATAGATGTAAACATAGACGCAAACATAGACATAGAAACATAAACATAAACGTAA
Found at i:2612904 original size:18 final size:18
Alignment explanation
Indices: 2612895--2616039 Score: 574
Period size: 18 Copynumber: 175.1 Consensus size: 18
2612885 GATGTAAACA
2612895 TAGACGTAGACATAGACG
1 TAGACGTAGACATAGACG
*
2612913 T--A--TAAACATAGACG
1 TAGACGTAGACATAGACG
* *
2612927 TAGACGTAGACGTAGATG
1 TAGACGTAGACATAGACG
*
2612945 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
* *
2612963 TAGACGTAGACGTAGATG
1 TAGACGTAGACATAGACG
* *
2612981 TTGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
*
2612999 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
*
2613017 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
* * *
2613035 TAGATGTAGACGTAGATG
1 TAGACGTAGACATAGACG
* * * *
2613053 TAGACATTGATATA-AAG
1 TAGACGTAGACATAGACG
* *
2613070 ATAGACATAGACATA-AAG
1 -TAGACGTAGACATAGACG
* *
2613088 ATAGACGTAAAAACATAAACG
1 -TAGACGT--AGACATAGACG
*
2613109 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
*
2613127 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
* *
2613145 TAGACGTAGACGTAGATG
1 TAGACGTAGACATAGACG
2613163 TAGACGTAGACATAGACG
1 TAGACGTAGACATAGACG
* *
2613181 TAGATGTAGACGTAGACG
1 TAGACGTAGACATAGACG
*
2613199 TAGACGTAAACATA-A-G
1 TAGACGTAGACATAGACG
*
2613215 -ATA--TAGACATAGACG
1 TAGACGTAGACATAGACG
* * * *
2613230 TAGACATAAACGTAGACA
1 TAGACGTAGACATAGACG
2613248 TAGACGTAGACATAGACG
1 TAGACGTAGACATAGACG
* * *
2613266 TAGACATAGACATAAACA
1 TAGACGTAGACATAGACG
* * *
2613284 TAGACGTATAAACATAAACA
1 TAGACG--TAGACATAGACG
** * *
2613304 TA-ATATAAATATAGACG
1 TAGACGTAGACATAGACG
* * * *
2613321 TAAACATAGACGTAGACA
1 TAGACGTAGACATAGACG
*
2613339 TAGACGTAAACATAGACG
1 TAGACGTAGACATAGACG
*
2613357 T--A--TAAACATAGACG
1 TAGACGTAGACATAGACG
* *
2613371 TAGACGTAGACGTAGATG
1 TAGACGTAGACATAGACG
* *
2613389 TAGACATAGACGTAGACG
1 TAGACGTAGACATAGACG
*
2613407 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
2613425 TAGACGTAGACATAGACG
1 TAGACGTAGACATAGACG
*
2613443 TAGACGTAGACATAGAAG
1 TAGACGTAGACATAGACG
* * * *
2613461 TATAAACATAGACGTAGACA
1 --TAGACGTAGACATAGACG
* * *
2613481 TAGAAGTATAAACATAGACA
1 TAGACG--TAGACATAGACG
* *
2613501 TAGACATAGACATAGACA
1 TAGACGTAGACATAGACG
* * *
2613519 TAGACATAAACAT-GAACA
1 TAGACGTAGACATAG-ACG
* *
2613537 T-GAACAT-GAACAT-GAACA
1 TAG-ACGTAG-ACATAG-ACG
* *
2613555 T-GAACAT-GAACAT-GAACA
1 TAG-ACGTAG-ACATAG-ACG
* *
2613573 T-GAACAT-GAACAT-GAACA
1 TAG-ACGTAG-ACATAG-ACG
* *
2613591 T-GAACAT-GAACAT-GAACA
1 TAG-ACGTAG-ACATAG-ACG
* *
2613609 T-GAACAT-GAACAT-GAACA
1 TAG-ACGTAG-ACATAG-ACG
* *
2613627 T-GAACAT-GAACAT-GAACA
1 TAG-ACGTAG-ACATAG-ACG
* *
2613645 T-GAACAT-GAACAT-GAACA
1 TAG-ACGTAG-ACATAG-ACG
* *
2613663 T-GAACAT-GAACAT-GA-A
1 TAG-ACGTAG-ACATAGACG
* *
2613679 TATGAACAT-GAACAT-GAACA
1 TA-G-ACGTAG-ACATAG-ACG
* *
2613699 T-GAACAT-GAACAT-GAACA
1 TAG-ACGTAG-ACATAG-ACG
* *
2613717 CAAACGTAGACATAGACG
1 TAGACGTAGACATAGACG
* *
2613735 TAGACATAGACATAGACA
1 TAGACGTAGACATAGACG
* * * *
2613753 AAGAAGTAGACAAAGAAG
1 TAGACGTAGACATAGACG
* *
2613771 TAGACGTAGACGTATACG
1 TAGACGTAGACATAGACG
* * * * *
2613789 TAGAAGTATACGTACACA
1 TAGACGTAGACATAGACG
* * * * *
2613807 TATACGTATACGTATATG
1 TAGACGTAGACATAGACG
* * * * *
2613825 TACACATACACGTATACG
1 TAGACGTAGACATAGACG
* * * * **
2613843 TACATGTACACATATATA
1 TAGACGTAGACATAGACG
* * * *
2613861 TACACGTACACATACACA
1 TAGACGTAGACATAGACG
* * * *
2613879 TACACGTATACATACACA
1 TAGACGTAGACATAGACG
* * * *
2613897 TACACATACACATACACG
1 TAGACGTAGACATAGACG
* * ** * *
2613915 T-GCACATATATGTACACA
1 TAG-ACGTAGACATAGACG
* * * *
2613933 TATACGTACACGTATACG
1 TAGACGTAGACATAGACG
* * * *
2613951 TATACGTACATATACACG
1 TAGACGTAGACATAGACG
* * * * *
2613969 TACACATATACGTACACG
1 TAGACGTAGACATAGACG
* * * *
2613987 TACACGTACACGTACACG
1 TAGACGTAGACATAGACG
* * * *
2614005 TACACGTACACGTACACG
1 TAGACGTAGACATAGACG
* * *
2614023 TACACGTACACATACACG
1 TAGACGTAGACATAGACG
* * * *
2614041 TACACGTATACGTACACG
1 TAGACGTAGACATAGACG
* * * *
2614059 TATACGTACACATATACTTA
1 TAGACGTAGACATAGAC--G
* ** * * *
2614079 TATATATATATATACACG
1 TAGACGTAGACATAGACG
* * *
2614097 TACACGTATACATATACG
1 TAGACGTAGACATAGACG
* * * *
2614115 TACATGTACA-ATTACACG
1 TAGACGTAGACA-TAGACG
* * * *
2614133 TAAACGTATACGTAAACG
1 TAGACGTAGACATAGACG
* * * * * *
2614151 TAAAAGTAAACGTAAACA
1 TAGACGTAGACATAGACG
* * **
2614169 TA-ACATTA-ATATA-ATA
1 TAGAC-GTAGACATAGACG
* * * * *
2614185 TAGACATACACGTAAACA
1 TAGACGTAGACATAGACG
* * *
2614203 TAGACGCAAACATAGACA
1 TAGACGTAGACATAGACG
* * * * *
2614221 TAAAAACATAAACATAAACA
1 T--AGACGTAGACATAGACG
* * *
2614241 TAAACGTAAACATAGATG
1 TAGACGTAGACATAGACG
* * * *
2614259 TAAACATAGACGTAGACA
1 TAGACGTAGACATAGACG
*
2614277 TAGACGTATAAACATAGACG
1 TAGACG--TAGACATAGACG
** *
2614297 TAGACGTAGATGTAGATG
1 TAGACGTAGACATAGACG
*
2614315 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
* * *
2614333 TAGATGTTGACGTAGACG
1 TAGACGTAGACATAGACG
* **
2614351 TAGACGTAGACATTGATA
1 TAGACGTAGACATAGACG
* *
2614369 TA-AAGATAGACATAGACA
1 TAGACG-TAGACATAGACG
* * *
2614387 TA-AAGATAGACGTAAAAACG
1 TAGACG-TAGAC--ATAGACG
* *
2614407 TAAACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
*
2614425 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
* *
2614443 TAGATGTAGACGTAGACG
1 TAGACGTAGACATAGACG
* *
2614461 TAGGCGTA-ACATAGACA
1 TAGACGTAGACATAGACG
* * *
2614478 TAAACATAAGATATAGACG
1 TAGACGT-AGACATAGACG
*
2614497 TAGACGTAGACATAAACG
1 TAGACGTAGACATAGACG
* ** * *
2614515 TACAAATAGACGTAGACA
1 TAGACGTAGACATAGACG
*
2614533 TAGACGTAAACATAGAC-
1 TAGACGTAGACATAGACG
* * * *
2614550 -ATA--TAAACATAAACA
1 TAGACGTAGACATAGACG
* * * **
2614565 TAAACATA-ACATAAATA
1 TAGACGTAGACATAGACG
* *
2614582 TAGACGTAAAAATAGACG
1 TAGACGTAGACATAGACG
* * * *
2614600 TAAACATAGACGTATAAACA
1 TAGACGTAGAC--ATAGACG
2614620 TAGACGTAGACATAGACG
1 TAGACGTAGACATAGACG
*
2614638 TAGACATAGACATAGACG
1 TAGACGTAGACATAGACG
2614656 TAGACGTAGACATAGACG
1 TAGACGTAGACATAGACG
*
2614674 TAGACGTAGACATAGAAG
1 TAGACGTAGACATAGACG
*
2614692 T--A--TAAACATAGACG
1 TAGACGTAGACATAGACG
* * * *
2614706 TAGACATAGAAGTATAAACA
1 TAGACGTAG-A-CATAGACG
* *
2614726 TAGACATAGACATAGACA
1 TAGACGTAGACATAGACG
* *
2614744 TAGACATAGACATAGACA
1 TAGACGTAGACATAGACG
* *
2614762 TAGACATAGACATAGACA
1 TAGACGTAGACATAGACG
* *
2614780 TAGACATAGACATAGACA
1 TAGACGTAGACATAGACG
* *
2614798 T-GAACAT-GAACAT-GAACA
1 TAG-ACGTAG-ACATAG-ACG
* *
2614816 T-GAACAT-GAACAT-GAACA
1 TAG-ACGTAG-ACATAG-ACG
* *
2614834 T-GAACAT-GAACAT-GAACA
1 TAG-ACGTAG-ACATAG-ACG
* *
2614852 T-GAACAT-GAACAT-GAACA
1 TAG-ACGTAG-ACATAG-ACG
* *
2614870 TACACGTAGACATAAACG
1 TAGACGTAGACATAGACG
* * *
2614888 TAGACATAGACGTAGACA
1 TAGACGTAGACATAGACG
*
2614906 TAGACGTAGACATAGACC
1 TAGACGTAGACATAGACG
* *
2614924 TAAACGTAAACATAGACG
1 TAGACGTAGACATAGACG
* * * *
2614942 TAGACATAGACGTAAACA
1 TAGACGTAGACATAGACG
*
2614960 TAGACGTATAAACATAGACG
1 TAGACG--TAGACATAGACG
* * *
2614980 TAGACATAGACAAAGAAG
1 TAGACGTAGACATAGACG
*
2614998 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
*
2615016 TACACGT--ACAT----G
1 TAGACGTAGACATAGACG
* * * *
2615028 TATATGTATACATACACG
1 TAGACGTAGACATAGACG
* * * * *
2615046 TACATGTATACGTACACG
1 TAGACGTAGACATAGACG
* * * * * *
2615064 TACACATATACGTACATG
1 TAGACGTAGACATAGACG
* ** * * *
2615082 TATATATACACATACACA
1 TAGACGTAGACATAGACG
* * * * *
2615100 TACACATACATATACACG
1 TAGACGTAGACATAGACG
* * ** *
2615118 TATACGTACATGTACACG
1 TAGACGTAGACATAGACG
* * * * * *
2615136 TACATGTACACGTACATG
1 TAGACGTAGACATAGACG
* * * *
2615154 TATACGTACACGTACACG
1 TAGACGTAGACATAGACG
* * ** *
2615172 TACACGTACATGTACACG
1 TAGACGTAGACATAGACG
* * * * *
2615190 TACACGTACACGTACACA
1 TAGACGTAGACATAGACG
* * * *
2615208 TACACGTAAACGTAAACG
1 TAGACGTAGACATAGACG
* * * *
2615226 TAAACGTAAAAAAATA-ACAT
1 TAGACGT--AGACATAGAC-G
** * **
2615246 TA-ATATA-ATATAGATA
1 TAGACGTAGACATAGACG
* *
2615262 TACACGTAAACATAGACG
1 TAGACGTAGACATAGACG
* * * *
2615280 TAAACATAGACGTATAAACA
1 TAGACGTAGAC--ATAGACG
* * * * *
2615300 TAAACATAAACATAAACA
1 TAGACGTAGACATAGACG
* *
2615318 TAGATGTAAACATAGACG
1 TAGACGTAGACATAGACG
* * *
2615336 TAGACATAGACGTATAAACA
1 TAGACGTAGAC--ATAGACG
*
2615356 TAGACGCAGACATAGACG
1 TAGACGTAGACATAGACG
* *
2615374 TAGACGTAGACGTAGACA
1 TAGACGTAGACATAGACG
* * *
2615392 TAGACGTATAAACATAAACA
1 TAGACG--TAGACATAGACG
* * * * *
2615412 TAAACTTAAACATAAACA
1 TAGACGTAGACATAGACG
* * * * *
2615430 TAAACATAGACGTAAACA
1 TAGACGTAGACATAGACG
**
2615448 TAGACGTAGATGTAGACG
1 TAGACGTAGACATAGACG
*
2615466 TAGACGTAGACATATACG
1 TAGACGTAGACATAGACG
* * * *
2615484 TACACGTACACGTACACG
1 TAGACGTAGACATAGACG
* * * * *
2615502 TACACGTATATATACACA
1 TAGACGTAGACATAGACG
* * * *
2615520 TACACATACACATACACG
1 TAGACGTAGACATAGACG
* * * *
2615538 TACACGTACACGTACACG
1 TAGACGTAGACATAGACG
* * *
2615556 TACACGTATACATACACG
1 TAGACGTAGACATAGACG
*
2615574 TATACGT--AC----ACG
1 TAGACGTAGACATAGACG
* * * *
2615586 TAAACGTAAACGTAAACG
1 TAGACGTAGACATAGACG
* * * *
2615604 TAAACATAAACATA-ACAT
1 TAGACGTAGACATAGAC-G
** * *
2615622 TA-ATATA-ATATAGACA
1 TAGACGTAGACATAGACG
* * *
2615638 TACACGTAAACATATACG
1 TAGACGTAGACATAGACG
* * * *
2615656 TAAACATAGACGTATAAACA
1 TAGACGTAGAC--ATAGACG
* * *
2615676 TAAACATAAACATAGACG
1 TAGACGTAGACATAGACG
* * * *
2615694 TAAACATAGACGTAGACA
1 TAGACGTAGACATAGACG
* *
2615712 TAGACGTAGACGTAGATG
1 TAGACGTAGACATAGACG
* *
2615730 TAGACATAGACATAGATG
1 TAGACGTAGACATAGACG
* * * * *
2615748 TATAAACATAAACATAAACT
1 --TAGACGTAGACATAGACG
* * *
2615768 TAAACATAAACATAGACG
1 TAGACGTAGACATAGACG
*
2615786 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
*
2615804 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
*
2615822 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
*
2615840 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
*
2615858 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
*
2615876 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
*
2615894 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
*
2615912 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
*
2615930 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
*
2615948 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
2615966 TAGACGTAGACATAGACG
1 TAGACGTAGACATAGACG
*
2615984 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
*
2616002 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
*
2616020 TAGACGTAGACGTAGACG
1 TAGACGTAGACATAGACG
2616038 TA
1 TA
2616040 AAGATAAACA
Statistics
Matches: 2543, Mismatches: 477, Indels: 214
0.79 0.15 0.07
Matches are distributed among these distances:
12 15 0.01
13 7 0.00
14 53 0.02
15 3 0.00
16 38 0.01
17 73 0.03
18 2102 0.83
19 23 0.01
20 225 0.09
21 4 0.00
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.20
Consensus pattern (18 bp):
TAGACGTAGACATAGACG
Found at i:2612910 original size:6 final size:6
Alignment explanation
Indices: 2612895--2613458 Score: 513
Period size: 6 Copynumber: 92.7 Consensus size: 6
2612885 GATGTAAACA
* * * *
2612895 TAGACG TAGACA TAGACG TATAAACA TAGACG TAGACG TAGACG TAGATG
1 TAGACG TAGACG TAGACG --TAGACG TAGACG TAGACG TAGACG TAGACG
* *
2612945 TAGACG TAGACG TAGACG TAGACG TAGACG TAGATG TTGACG TAGACG
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
*
2612993 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGATG
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
* * * ** * * * *
2613041 TAGACG TAGATG TAGACA TTGATA TA-AAG ATAGACA TAGACA TA-AAG
1 TAGACG TAGACG TAGACG TAGACG TAGACG -TAGACG TAGACG TAGACG
* * *
2613088 ATAGACG TAAAAACA TAAACG TAGACG TAGACG TAGACG TAGACG TAGACG
1 -TAGACG T--AGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
* * *
2613139 TAGACG TAGACG TAGACG TAGATG TAGACG TAGACA TAGACG TAGATG
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
* * ** * *
2613187 TAGACG TAGACG TAGACG TAAACA TAAGATA TAGACA TAGACG TAGACA
1 TAGACG TAGACG TAGACG TAGACG T-AGACG TAGACG TAGACG TAGACG
* * * * * * *
2613236 TAAACG TAGACA TAGACG TAGACA TAGACG TAGACA TAGACA TAAACA
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
* * * * ** * ** * *
2613284 TAGACG TATAAACA TAAACA TA-ATA TAAATA TAGACG TAAACA TAGACG
1 TAGACG --TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
* * * * *
2613333 TAGACA TAGACG TAAACA TAGACG TATAAACA TAGACG TAGACG TAGACG
1 TAGACG TAGACG TAGACG TAGACG --TAGACG TAGACG TAGACG TAGACG
* *
2613383 TAGATG TAGACA TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
* *
2613431 TAGACA TAGACG TAGACG TAGACA TAGA
1 TAGACG TAGACG TAGACG TAGACG TAGA
2613459 AGTATAAACA
Statistics
Matches: 462, Mismatches: 82, Indels: 28
0.81 0.14 0.05
Matches are distributed among these distances:
5 6 0.01
6 433 0.94
7 7 0.02
8 16 0.03
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.19
Consensus pattern (6 bp):
TAGACG
Found at i:2613471 original size:14 final size:14
Alignment explanation
Indices: 2613452--2613498 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
2613442 GTAGACGTAG
2613452 ACATAGAAGTATAA
1 ACATAGAAGTATAA
* *
2613466 ACATAGACG--TAG
1 ACATAGAAGTATAA
2613478 ACATAGAAGTATAA
1 ACATAGAAGTATAA
2613492 ACATAGA
1 ACATAGA
2613499 CATAGACATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 10 0.37
14 17 0.63
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (14 bp):
ACATAGAAGTATAA
Found at i:2613531 original size:6 final size:6
Alignment explanation
Indices: 2613522--2613716 Score: 372
Period size: 6 Copynumber: 32.5 Consensus size: 6
2613512 ATAGACATAG
*
2613522 ACATAA ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA
1 ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA
2613570 ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA
1 ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA
2613618 ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA
1 ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA
*
2613666 ACATGA ACATGA ATATGA ACATGA ACATGA ACATGA ACATGA ACATGA
1 ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA ACATGA
2613714 ACA
1 ACA
2613717 CAAACGTAGA
Statistics
Matches: 186, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 186 1.00
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.17
Consensus pattern (6 bp):
ACATGA
Found at i:2613735 original size:12 final size:12
Alignment explanation
Indices: 2613720--2613784 Score: 76
Period size: 12 Copynumber: 5.4 Consensus size: 12
2613710 ATGAACACAA
2613720 ACGTAGACATAG
1 ACGTAGACATAG
2613732 ACGTAGACATAG
1 ACGTAGACATAG
* *
2613744 ACATAGACAAAG
1 ACGTAGACATAG
* *
2613756 AAGTAGACAAAG
1 ACGTAGACATAG
* *
2613768 AAGTAGACGTAG
1 ACGTAGACATAG
2613780 ACGTA
1 ACGTA
2613785 TACGTAGAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.48, C:0.14, G:0.25, T:0.14
Consensus pattern (12 bp):
ACGTAGACATAG
Found at i:2613781 original size:6 final size:6
Alignment explanation
Indices: 2613720--2613802 Score: 58
Period size: 6 Copynumber: 13.8 Consensus size: 6
2613710 ATGAACACAA
* * * ** * **
2613720 ACGTAG ACATAG ACGTAG ACATAG ACATAG ACAAAG AAGTAG ACAAAG
1 ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG
* * * *
2613768 AAGTAG ACGTAG ACGTAT ACGTAG AAGTAT ACGTA
1 ACGTAG ACGTAG ACGTAG ACGTAG ACGTAG ACGTA
2613803 CACATATACG
Statistics
Matches: 58, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.17
Consensus pattern (6 bp):
ACGTAG
Found at i:2613867 original size:24 final size:24
Alignment explanation
Indices: 2613800--2614124 Score: 120
Period size: 24 Copynumber: 13.2 Consensus size: 24
2613790 AGAAGTATAC
*
2613800 GTACACATATACGTATACGTATAT
1 GTACACATATACGTATACGTACAT
*
2613824 GTACACATACACGTATACGTACAT
1 GTACACATATACGTATACGTACAT
** * *
2613848 GTACACATATATATACACGTACAC
1 GTACACATATACGTATACGTACAT
* * * *
2613872 ATACACATACACGTATACATACAC
1 GTACACATATACGTATACGTACAT
* * * *
2613896 ATACACATACACATACACGTGCACATATAT
1 GTACACATATACGTATACGT--AC----AT
*
2613926 GTACACATATACGTACACGTATACGTAT
1 GTACACATATACGTATACG--TAC--AT
* * * * * *
2613954 ACGTACATATACACGTACACATATAC
1 --GTACACATATACGTATACGTACAT
* * * *
2613980 GTACACGTACACGTACACGTACAC
1 GTACACATATACGTATACGTACAT
* * * *
2614004 GTACACGTACACGTACACGTACAC
1 GTACACATATACGTATACGTACAT
* * * *
2614028 GTACACATACACGTACACGTATAC
1 GTACACATATACGTATACGTACAT
* * * *
2614052 GTACACGTATACGTACACATATACT
1 GTACACATATACGTATACGTACA-T
* * *
2614077 -TATATATATA--TATA--TACAC
1 GTACACATATACGTATACGTACAT
* *
2614096 GTACACGTATACATATACGTACAT
1 GTACACATATACGTATACGTACAT
2614120 GTACA
1 GTACA
2614125 ATTACACGTA
Statistics
Matches: 239, Mismatches: 46, Indels: 32
0.75 0.15 0.10
Matches are distributed among these distances:
20 10 0.04
22 7 0.03
24 178 0.74
26 3 0.01
28 5 0.02
30 35 0.15
32 1 0.00
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.25
Consensus pattern (24 bp):
GTACACATATACGTATACGTACAT
Found at i:2613901 original size:30 final size:30
Alignment explanation
Indices: 2613794--2614134 Score: 180
Period size: 30 Copynumber: 11.1 Consensus size: 30
2613784 ATACGTAGAA
* * * * * *
2613794 GTATACGTACACATATACGTATACGTATAT
1 GTATACATACACATACACGTACACATACAC
* * * **
2613824 GTACACATACACGTATACGTACATGTACAC
1 GTATACATACACATACACGTACACATACAC
* * * *
2613854 ATATATATACACGTACACATACACATACAC
1 GTATACATACACATACACGTACACATACAC
*
2613884 GTATACATACACATACACATACACATACAC
1 GTATACATACACATACACGTACACATACAC
* * * *
2613914 GTGCACATATATGTACACATATACGTACACGTATAC
1 GT----ATACA--TACACATACACGTACACATACAC
* * *
2613950 GTATACGTACATATACACGTACACATATAC
1 GTATACATACACATACACGTACACATACAC
* * * *
2613980 GTACACGTACACGTACACGTACACGTACAC
1 GTATACATACACATACACGTACACATACAC
* * *
2614010 GTACACGTACACGTACACGTACACATACAC
1 GTATACATACACATACACGTACACATACAC
* * * * * *
2614040 GTACACGTATACGTACACGTATACGTACAC
1 GTATACATACACATACACGTACACATACAC
* * * * ** *
2614070 ATATACTTATATATATATATATACACGTACAC
1 GTATAC--ATACACATACACGTACACATACAC
* * *
2614102 GTATACATATACGTACATGTACA-ATTACAC
1 GTATACATACACATACACGTACACA-TACAC
2614132 GTA
1 GTA
2614135 AACGTATACG
Statistics
Matches: 251, Mismatches: 51, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
30 201 0.80
32 25 0.10
34 4 0.02
36 21 0.08
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.26
Consensus pattern (30 bp):
GTATACATACACATACACGTACACATACAC
Found at i:2614053 original size:12 final size:12
Alignment explanation
Indices: 2613774--2614075 Score: 193
Period size: 12 Copynumber: 25.2 Consensus size: 12
2613764 AAAGAAGTAG
*
2613774 ACGTAGACGTAT
1 ACGTACACGTAT
* *
2613786 ACGTAGAAGTAT
1 ACGTACACGTAT
*
2613798 ACGTACACATAT
1 ACGTACACGTAT
*
2613810 ACGTATACGTAT
1 ACGTACACGTAT
*
2613822 ATGTACAC----
1 ACGTACACGTAT
2613830 A--TACACGTAT
1 ACGTACACGTAT
* *
2613840 ACGTACATGTAC
1 ACGTACACGTAT
* * ** *
2613852 ACATATATATAC
1 ACGTACACGTAT
* *
2613864 ACGTACACATAC
1 ACGTACACGTAT
*
2613876 ACATACACGTAT
1 ACGTACACGTAT
* * *
2613888 ACATACACATAC
1 ACGTACACGTAT
* * *
2613900 ACATACACATAC
1 ACGTACACGTAT
* *
2613912 ACGTGCACATAT
1 ACGTACACGTAT
* *
2613924 ATGTACACATAT
1 ACGTACACGTAT
2613936 ACGTACACGTAT
1 ACGTACACGTAT
*
2613948 ACGTATACGTACATAT
1 ACG--TAC--ACGTAT
*
2613964 ACACGTACACATAT
1 --ACGTACACGTAT
*
2613978 ACGTACACGTAC
1 ACGTACACGTAT
*
2613990 ACGTACACGTAC
1 ACGTACACGTAT
*
2614002 ACGTACACGTAC
1 ACGTACACGTAT
*
2614014 ACGTACACGTAC
1 ACGTACACGTAT
* *
2614026 ACGTACACATAC
1 ACGTACACGTAT
2614038 ACGTACACGTAT
1 ACGTACACGTAT
2614050 ACGTACACGTAT
1 ACGTACACGTAT
*
2614062 ACGTACACATAT
1 ACGTACACGTAT
2614074 AC
1 AC
2614076 TTATATATAT
Statistics
Matches: 243, Mismatches: 35, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
6 5 0.02
8 1 0.00
10 1 0.00
12 216 0.89
14 9 0.04
16 8 0.03
18 3 0.01
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (12 bp):
ACGTACACGTAT
Found at i:2614153 original size:6 final size:6
Alignment explanation
Indices: 2614130--2614167 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
2614120 GTACAATTAC
* *
2614130 ACGTAA ACGTAT ACGTAA ACGTAA AAGTAA ACGTAA AC
1 ACGTAA ACGTAA ACGTAA ACGTAA ACGTAA ACGTAA AC
2614168 ATAACATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (6 bp):
ACGTAA
Found at i:2614229 original size:14 final size:14
Alignment explanation
Indices: 2614210--2614250 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
2614200 ACATAGACGC
*
2614210 AAACATAGACATAA
1 AAACATAAACATAA
2614224 AAACATAAACAT--
1 AAACATAAACATAA
*
2614236 AAACATAAACGTAA
1 AAACATAAACATAA
2614250 A
1 A
2614251 CATAGATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 11 0.48
14 12 0.52
ACGTcount: A:0.66, C:0.15, G:0.05, T:0.15
Consensus pattern (14 bp):
AAACATAAACATAA
Found at i:2614233 original size:6 final size:6
Alignment explanation
Indices: 2614157--2614254 Score: 56
Period size: 6 Copynumber: 16.3 Consensus size: 6
2614147 AACGTAAAAG
* * * * * * *
2614157 TAAACG TAAACA T-AACA TTAATA T-AATA TAGACA TACACG TAAACA
1 TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA
* * * * *
2614203 TAGACG CAAACA TAGACA TAAAAACA TAAACA TAAACA TAAACG TAAACA
1 TAAACA TAAACA TAAACA T--AAACA TAAACA TAAACA TAAACA TAAACA
2614253 TA
1 TA
2614255 GATGTAAACA
Statistics
Matches: 70, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
5 10 0.14
6 55 0.79
8 5 0.07
ACGTcount: A:0.57, C:0.16, G:0.07, T:0.19
Consensus pattern (6 bp):
TAAACA
Found at i:2614280 original size:6 final size:6
Alignment explanation
Indices: 2614184--2615014 Score: 342
Period size: 6 Copynumber: 136.0 Consensus size: 6
2614174 TTAATATAAT
* * * ** * * *
2614184 ATAGAC ATACAC GTAAAC ATAGAC GCAAAC ATAGAC ATAAAAAC ATAAAC
1 ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC AT--AGAC ATAGAC
* * * * * * * *
2614234 ATAAAC ATAAAC GTAAAC ATAGAT GTAAAC ATAGAC GTAGAC ATAGAC
1 ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC
* * * * * * * * *
2614282 GTATAAAC ATAGAC GTAGAC GTAGAT GTAGAT GTAGAC GTAGAC GTAGAC
1 --ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC
* * * * * * * * * * *
2614332 GTAGAT GTTGAC GTAGAC GTAGAC GTAGAC ATTGAT ATAAAG ATAGAC
1 ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC
* * * * * * * * *
2614380 ATAGAC ATAAAG ATAGAC GTAAAAAC GTAAAC GTAGAC GTAGAC GTAGAC
1 ATAGAC ATAGAC ATAGAC --ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC
* * * * * * * * *
2614430 GTAGAC GTAGAC GTAGAT GTAGAC GTAGAC GTAGGC GTA-AC ATAGAC
1 ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC
* * * * * * * *
2614477 ATAAAC ATAAGAT ATAGAC GTAGAC GTAGAC ATAAAC GTACAA ATAGAC
1 ATAGAC AT-AGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC
* * * * * *
2614526 GTAGAC ATAGAC GTAAAC ATAGAC ATATAAAC ATAAAC ATAAAC ATA-AC
1 ATAGAC ATAGAC ATAGAC ATAGAC --ATAGAC ATAGAC ATAGAC ATAGAC
* * * * * * * *
2614575 ATAAAT ATAGAC GTAAAA ATAGAC GTAAAC ATAGAC GTATAAAC ATAGAC
1 ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC --ATAGAC ATAGAC
* * * *
2614625 GTAGAC ATAGAC GTAGAC ATAGAC ATAGAC GTAGAC GTAGAC ATAGAC
1 ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC
* * * * * * *
2614673 GTAGAC GTAGAC ATAGAAGT ATAAAC ATAGAC GTAGAC ATAGAAGT ATAAAC
1 ATAGAC ATAGAC ATAG-A-C ATAGAC ATAGAC ATAGAC ATAG-A-C ATAGAC
2614725 ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC
1 ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC
2614773 ATAGAC ATAGAC ATAGAC ATAGAC AT-GAAC AT-GAAC AT-GAAC AT-GAAC
1 ATAGAC ATAGAC ATAGAC ATAGAC ATAG-AC ATAG-AC ATAG-AC ATAG-AC
2614821 AT-GAAC AT-GAAC AT-GAAC AT-GAAC AT-GAAC AT-GAAC AT-GAAC
1 ATAG-AC ATAG-AC ATAG-AC ATAG-AC ATAG-AC ATAG-AC ATAG-AC
* * * * *
2614863 AT-GAAC ATACAC GTAGAC ATAAAC GTAGAC ATAGAC GTAGAC ATAGAC
1 ATAG-AC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC
* * * * * * * *
2614911 GTAGAC ATAGAC CTAAAC GTAAAC ATAGAC GTAGAC ATAGAC GTAAAC
1 ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC
* * * *
2614959 ATAGAC GTATAAAC ATAGAC GTAGAC ATAGAC AAAGA- AGTAGAC GTAGAC
1 ATAGAC --ATAGAC ATAGAC ATAGAC ATAGAC ATAGAC A-TAGAC ATAGAC
*
2615009 GTAGAC
1 ATAGAC
2615015 GTACACGTAC
Statistics
Matches: 665, Mismatches: 137, Indels: 46
0.78 0.16 0.05
Matches are distributed among these distances:
5 10 0.02
6 612 0.92
7 8 0.01
8 35 0.05
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.18
Consensus pattern (6 bp):
ATAGAC
Found at i:2615235 original size:6 final size:6
Alignment explanation
Indices: 2615001--2615233 Score: 196
Period size: 6 Copynumber: 38.8 Consensus size: 6
2614991 AAAGAAGTAG
* * * * * * *
2615001 ACGTAG ACGTAG ACGTAC ACGTAC ATGTAT ATGTAT ACATAC ACGTAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * * * * ** *
2615049 ATGTAT ACGTAC ACGTAC ACATAT ACGTAC ATGTAT ATATAC ACATAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * ** * * *
2615097 ACATAC ACATAC ATATAC ACGTAT ACGTAC ATGTAC ACGTAC ATGTAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * *
2615145 ACGTAC ATGTAT ACGTAC ACGTAC ACGTAC ACGTAC ATGTAC ACGTAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * *
2615193 ACGTAC ACGTAC ACATAC ACGTAA ACGTAA ACGTAA ACGTA
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTA
2615234 AAAAAATAAC
Statistics
Matches: 189, Mismatches: 38, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 189 1.00
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (6 bp):
ACGTAC
Found at i:2615304 original size:6 final size:6
Alignment explanation
Indices: 2615268--2615449 Score: 85
Period size: 6 Copynumber: 29.3 Consensus size: 6
2615258 GATATACACG
* * *
2615268 TAAACA TAGACG TAAACA TAGACGTA TAAACA TAAACA TAAACA TAAACA
1 TAAACA TAAACA TAAACA TAAAC--A TAAACA TAAACA TAAACA TAAACA
* ** * * * * * * * *
2615318 TAGATG TAAACA TAGACG TAGACA TAGACGTA TAAACA TAGACG CAGACA
1 TAAACA TAAACA TAAACA TAAACA TAAAC--A TAAACA TAAACA TAAACA
* * * * * * * * *
2615368 TAGACG TAGACG TAGACG TAGACA TAGACGTA TAAACA TAAACA TAAACT
1 TAAACA TAAACA TAAACA TAAACA TAAAC--A TAAACA TAAACA TAAACA
* *
2615418 TAAACA TAAACA TAAACA TAGACG TAAACA TA
1 TAAACA TAAACA TAAACA TAAACA TAAACA TA
2615450 GACGTAGATG
Statistics
Matches: 140, Mismatches: 30, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
6 125 0.89
8 15 0.11
ACGTcount: A:0.52, C:0.16, G:0.14, T:0.19
Consensus pattern (6 bp):
TAAACA
Found at i:2615462 original size:6 final size:6
Alignment explanation
Indices: 2615436--2615509 Score: 67
Period size: 6 Copynumber: 12.3 Consensus size: 6
2615426 AACATAAACA
* * * * *
2615436 TAGACG TAAACA TAGACG TAGATG TAGACG TAGACG TAGACA TATACG
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
* * * *
2615484 TACACG TACACG TACACG TACACG TA
1 TAGACG TAGACG TAGACG TAGACG TA
2615510 TATATACACA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (6 bp):
TAGACG
Found at i:2615522 original size:6 final size:6
Alignment explanation
Indices: 2615481--2615605 Score: 142
Period size: 6 Copynumber: 20.8 Consensus size: 6
2615471 GTAGACATAT
* ** * *
2615481 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAT ATATAC ACATAC ACATAC
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * * *
2615529 ACATAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAT ACATAC ACGTAT
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC ACGTAC
* * *
2615577 ACGTAC ACGTAA ACGTAA ACGTAA ACGTA
1 ACGTAC ACGTAC ACGTAC ACGTAC ACGTA
2615606 AACATAAACA
Statistics
Matches: 106, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 106 1.00
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (6 bp):
ACGTAC
Found at i:2615613 original size:6 final size:6
Alignment explanation
Indices: 2615586--2615781 Score: 81
Period size: 6 Copynumber: 32.3 Consensus size: 6
2615576 TACGTACACG
* * * * * *
2615586 TAAACG TAAACG TAAACG TAAACA TAAACA T-AACA TTAATA T-AATA
1 TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA
* * * * * *
2615632 TAGACA TACACG TAAACA TATACG TAAACA TAGACGTA TAAACA TAAACA
1 TAAACA TAAACA TAAACA TAAACA TAAACA TAAAC--A TAAACA TAAACA
* * * * * * * * * * **
2615682 TAAACA TAGACG TAAACA TAGACG TAGACA TAGACG TAGACG TAGATG
1 TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA TAAACA
* * ** *
2615730 TAGACA TAGACA TAGATGTA TAAACA TAAACA TAAACT TAAACA TAAACA
1 TAAACA TAAACA TA-A-ACA TAAACA TAAACA TAAACA TAAACA TAAACA
2615780 TA
1 TA
2615782 GACGTAGACG
Statistics
Matches: 152, Mismatches: 32, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
5 10 0.07
6 133 0.88
7 1 0.01
8 8 0.05
ACGTcount: A:0.52, C:0.15, G:0.12, T:0.21
Consensus pattern (6 bp):
TAAACA
Found at i:2615686 original size:38 final size:37
Alignment explanation
Indices: 2615598--2615707 Score: 118
Period size: 38 Copynumber: 3.0 Consensus size: 37
2615588 AACGTAAACG
* * * *
2615598 TAAACGTAAACATAAACATAACATTAATATA-A--TA
1 TAAACATAAACATAAACATAACGTAAACATAGACGTA
* * *
2615632 TAGACATACACGTAAACATATACGTAAACATAGACGTA
1 TAAACATAAACATAAACATA-ACGTAAACATAGACGTA
2615670 TAAACATAAACATAAACATAGACGTAAACATAGACGTA
1 TAAACATAAACATAAACATA-ACGTAAACATAGACGTA
2615708 GACATAGACG
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
34 16 0.26
35 8 0.13
36 1 0.02
38 36 0.59
ACGTcount: A:0.54, C:0.15, G:0.09, T:0.22
Consensus pattern (37 bp):
TAAACATAAACATAAACATAACGTAAACATAGACGTA
Found at i:2615789 original size:6 final size:6
Alignment explanation
Indices: 2615780--2616039 Score: 511
Period size: 6 Copynumber: 43.3 Consensus size: 6
2615770 AACATAAACA
2615780 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
2615828 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
2615876 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
2615924 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
*
2615972 TAGACA TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
1 TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG TAGACG
2616020 TAGACG TAGACG TAGACG TA
1 TAGACG TAGACG TAGACG TA
2616040 AAGATAAACA
Statistics
Matches: 252, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 252 1.00
ACGTcount: A:0.34, C:0.17, G:0.33, T:0.17
Consensus pattern (6 bp):
TAGACG
Found at i:2616034 original size:12 final size:12
Alignment explanation
Indices: 2614265--2616039 Score: 534
Period size: 12 Copynumber: 146.2 Consensus size: 12
2614255 GATGTAAACA
*
2614265 TAGACGTAGACA
1 TAGACGTAGACG
* *
2614277 TAGACGTATAAACA
1 TAGACG--TAGACG
2614291 TAGACGTAGACG
1 TAGACGTAGACG
* *
2614303 TAGATGTAGATG
1 TAGACGTAGACG
2614315 TAGACGTAGACG
1 TAGACGTAGACG
*
2614327 TAGACGTAGATG
1 TAGACGTAGACG
*
2614339 TTGACGTAGACG
1 TAGACGTAGACG
*
2614351 TAGACGTAGACA
1 TAGACGTAGACG
* ** *
2614363 TTGATATA-AAG
1 TAGACGTAGACG
* *
2614374 ATAGACATAGACA
1 -TAGACGTAGACG
*
2614387 TA-AAGATAGACG
1 TAGACG-TAGACG
* *
2614399 TAAAAACGTAAACG
1 T--AGACGTAGACG
2614413 TAGACGTAGACG
1 TAGACGTAGACG
2614425 TAGACGTAGACG
1 TAGACGTAGACG
*
2614437 TAGACGTAGATG
1 TAGACGTAGACG
2614449 TAGACGTAGACG
1 TAGACGTAGACG
* *
2614461 TAGGCGTA-ACA
1 TAGACGTAGACG
* * *
2614472 TAGACATAAACA
1 TAGACGTAGACG
**
2614484 TAAGATATAGACG
1 T-AGACGTAGACG
*
2614497 TAGACGTAGACA
1 TAGACGTAGACG
* * **
2614509 TAAACGTACAAA
1 TAGACGTAGACG
*
2614521 TAGACGTAGACA
1 TAGACGTAGACG
* *
2614533 TAGACGTAAACA
1 TAGACGTAGACG
* * *
2614545 TAGACATATAAACA
1 TAGAC--GTAGACG
* * * *
2614559 TAAACATAAACA
1 TAGACGTAGACG
* * **
2614571 TA-ACATAAATA
1 TAGACGTAGACG
* **
2614582 TAGACGTAAAAA
1 TAGACGTAGACG
* *
2614594 TAGACGTAAACA
1 TAGACGTAGACG
* *
2614606 TAGACGTATAAACA
1 TAGACG--TAGACG
*
2614620 TAGACGTAGACA
1 TAGACGTAGACG
*
2614632 TAGACGTAGACA
1 TAGACGTAGACG
*
2614644 TAGACATAGACG
1 TAGACGTAGACG
*
2614656 TAGACGTAGACA
1 TAGACGTAGACG
2614668 TAGACGTAGACG
1 TAGACGTAGACG
* *
2614680 TAGACATAGAAG
1 TAGACGTAGACG
* *
2614692 TATAAACATAGACG
1 --TAGACGTAGACG
* *
2614706 TAGACATAGAAG
1 TAGACGTAGACG
* * *
2614718 TATAAACATAGACA
1 --TAGACGTAGACG
* *
2614732 TAGACATAGACA
1 TAGACGTAGACG
* *
2614744 TAGACATAGACA
1 TAGACGTAGACG
* *
2614756 TAGACATAGACA
1 TAGACGTAGACG
* *
2614768 TAGACATAGACA
1 TAGACGTAGACG
* *
2614780 TAGACATAGACA
1 TAGACGTAGACG
* *
2614792 TAGACAT-GAACA
1 TAGACGTAG-ACG
* *
2614804 T-GAACAT-GAACA
1 TAG-ACGTAG-ACG
* *
2614816 T-GAACAT-GAACA
1 TAG-ACGTAG-ACG
* *
2614828 T-GAACAT-GAACA
1 TAG-ACGTAG-ACG
* *
2614840 T-GAACAT-GAACA
1 TAG-ACGTAG-ACG
* *
2614852 T-GAACAT-GAACA
1 TAG-ACGTAG-ACG
* *
2614864 T-GAACATACACG
1 TAG-ACGTAGACG
* *
2614876 TAGACATAAACG
1 TAGACGTAGACG
*
2614888 TAGACATAGACG
1 TAGACGTAGACG
*
2614900 TAGACATAGACG
1 TAGACGTAGACG
* *
2614912 TAGACATAGACC
1 TAGACGTAGACG
* * *
2614924 TAAACGTAAACA
1 TAGACGTAGACG
*
2614936 TAGACGTAGACA
1 TAGACGTAGACG
* *
2614948 TAGACGTAAACA
1 TAGACGTAGACG
* *
2614960 TAGACGTATAAACA
1 TAGACG--TAGACG
*
2614974 TAGACGTAGACA
1 TAGACGTAGACG
** *
2614986 TAGACAAAGAAG
1 TAGACGTAGACG
2614998 TAGACGTAGACG
1 TAGACGTAGACG
*
2615010 TAGACGTACACG
1 TAGACGTAGACG
* * * *
2615022 TACATGTATATG
1 TAGACGTAGACG
* * *
2615034 TATACATACACG
1 TAGACGTAGACG
* * *
2615046 TACATGTATACG
1 TAGACGTAGACG
* * *
2615058 TACACGTACACA
1 TAGACGTAGACG
* * *
2615070 TATACGTACATG
1 TAGACGTAGACG
* ** * *
2615082 TATATATACACA
1 TAGACGTAGACG
* * * *
2615094 TACACATACACA
1 TAGACGTAGACG
* ** *
2615106 TACATATACACG
1 TAGACGTAGACG
* * *
2615118 TATACGTACATG
1 TAGACGTAGACG
* * *
2615130 TACACGTACATG
1 TAGACGTAGACG
* * *
2615142 TACACGTACATG
1 TAGACGTAGACG
* *
2615154 TATACGTACACG
1 TAGACGTAGACG
* *
2615166 TACACGTACACG
1 TAGACGTAGACG
* * *
2615178 TACATGTACACG
1 TAGACGTAGACG
* *
2615190 TACACGTACACG
1 TAGACGTAGACG
* * *
2615202 TACACATACACG
1 TAGACGTAGACG
* *
2615214 TAAACGTAAACG
1 TAGACGTAGACG
* * **
2615226 TAAACGTAAAAAAA
1 TAGACGT--AGACG
* **
2615240 TA-ACATTA-ATA
1 TAGAC-GTAGACG
** **
2615251 TA-ATATAGATA
1 TAGACGTAGACG
* * *
2615262 TACACGTAAACA
1 TAGACGTAGACG
* *
2615274 TAGACGTAAACA
1 TAGACGTAGACG
* *
2615286 TAGACGTATAAACA
1 TAGACG--TAGACG
* * * *
2615300 TAAACATAAACA
1 TAGACGTAGACG
* * *
2615312 TAAACATAGATG
1 TAGACGTAGACG
* *
2615324 TAAACATAGACG
1 TAGACGTAGACG
*
2615336 TAGACATAGACG
1 TAGACGTAGACG
* *
2615348 TATAAACATAGACG
1 --TAGACGTAGACG
* *
2615362 CAGACATAGACG
1 TAGACGTAGACG
2615374 TAGACGTAGACG
1 TAGACGTAGACG
*
2615386 TAGACATAGACG
1 TAGACGTAGACG
* * * *
2615398 TATAAACATAAACA
1 --TAGACGTAGACG
* * * *
2615412 TAAACTTAAACA
1 TAGACGTAGACG
* * * *
2615424 TAAACATAAACA
1 TAGACGTAGACG
* *
2615436 TAGACGTAAACA
1 TAGACGTAGACG
*
2615448 TAGACGTAGATG
1 TAGACGTAGACG
2615460 TAGACGTAGACG
1 TAGACGTAGACG
* *
2615472 TAGACATATACG
1 TAGACGTAGACG
* *
2615484 TACACGTACACG
1 TAGACGTAGACG
* *
2615496 TACACGTACACG
1 TAGACGTAGACG
* ** * *
2615508 TATATATACACA
1 TAGACGTAGACG
* * * *
2615520 TACACATACACA
1 TAGACGTAGACG
* *
2615532 TACACGTACACG
1 TAGACGTAGACG
* *
2615544 TACACGTACACG
1 TAGACGTAGACG
* * *
2615556 TACACGTATACA
1 TAGACGTAGACG
* *
2615568 TACACGTATACG
1 TAGACGTAGACG
* *
2615580 TACACGTAAACG
1 TAGACGTAGACG
* *
2615592 TAAACGTAAACG
1 TAGACGTAGACG
* * * *
2615604 TAAACATAAACA
1 TAGACGTAGACG
* **
2615616 TA-ACATTA-ATA
1 TAGAC-GTAGACG
** *
2615627 TA-ATATAGACA
1 TAGACGTAGACG
* * *
2615638 TACACGTAAACA
1 TAGACGTAGACG
* * *
2615650 TATACGTAAACA
1 TAGACGTAGACG
* *
2615662 TAGACGTATAAACA
1 TAGACG--TAGACG
* * * *
2615676 TAAACATAAACA
1 TAGACGTAGACG
* *
2615688 TAGACGTAAACA
1 TAGACGTAGACG
*
2615700 TAGACGTAGACA
1 TAGACGTAGACG
2615712 TAGACGTAGACG
1 TAGACGTAGACG
* *
2615724 TAGATGTAGACA
1 TAGACGTAGACG
* *
2615736 TAGACATAGATG
1 TAGACGTAGACG
* * * *
2615748 TATAAACATAAACA
1 --TAGACGTAGACG
* * * *
2615762 TAAACTTAAACA
1 TAGACGTAGACG
* *
2615774 TAAACATAGACG
1 TAGACGTAGACG
2615786 TAGACGTAGACG
1 TAGACGTAGACG
2615798 TAGACGTAGACG
1 TAGACGTAGACG
2615810 TAGACGTAGACG
1 TAGACGTAGACG
2615822 TAGACGTAGACG
1 TAGACGTAGACG
2615834 TAGACGTAGACG
1 TAGACGTAGACG
2615846 TAGACGTAGACG
1 TAGACGTAGACG
2615858 TAGACGTAGACG
1 TAGACGTAGACG
2615870 TAGACGTAGACG
1 TAGACGTAGACG
2615882 TAGACGTAGACG
1 TAGACGTAGACG
2615894 TAGACGTAGACG
1 TAGACGTAGACG
2615906 TAGACGTAGACG
1 TAGACGTAGACG
2615918 TAGACGTAGACG
1 TAGACGTAGACG
2615930 TAGACGTAGACG
1 TAGACGTAGACG
2615942 TAGACGTAGACG
1 TAGACGTAGACG
2615954 TAGACGTAGACG
1 TAGACGTAGACG
*
2615966 TAGACGTAGACA
1 TAGACGTAGACG
2615978 TAGACGTAGACG
1 TAGACGTAGACG
2615990 TAGACGTAGACG
1 TAGACGTAGACG
2616002 TAGACGTAGACG
1 TAGACGTAGACG
2616014 TAGACGTAGACG
1 TAGACGTAGACG
2616026 TAGACGTAGACG
1 TAGACGTAGACG
2616038 TA
1 TA
2616040 AAGATAAACA
Statistics
Matches: 1500, Mismatches: 220, Indels: 86
0.83 0.12 0.05
Matches are distributed among these distances:
10 4 0.00
11 43 0.03
12 1313 0.88
13 13 0.01
14 125 0.08
15 2 0.00
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.20
Consensus pattern (12 bp):
TAGACGTAGACG
Found at i:2616079 original size:18 final size:18
Alignment explanation
Indices: 2616046--2616080 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2616036 CGTAAAGATA
*
2616046 AACATGAACATGAACATG
1 AACATGAACATCAACATG
*
2616064 AACATGAACGTCAACAT
1 AACATGAACATCAACAT
2616081 CAACGTAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.20, G:0.14, T:0.17
Consensus pattern (18 bp):
AACATGAACATCAACATG
Found at i:2616084 original size:6 final size:6
Alignment explanation
Indices: 2616046--2616072 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2616036 CGTAAAGATA
2616046 AACATG AACATG AACATG AACATG AAC
1 AACATG AACATG AACATG AACATG AAC
2616073 GTCAACATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.19, G:0.15, T:0.15
Consensus pattern (6 bp):
AACATG
Found at i:2616091 original size:6 final size:6
Alignment explanation
Indices: 2616082--2616120 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
2616072 CGTCAACATC
* **
2616082 AACGTA AACGTA AATGTA ATTGTA AACGTA AACGTA AAC
1 AACGTA AACGTA AACGTA AACGTA AACGTA AACGTA AAC
2616121 ATAGCCATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.23
Consensus pattern (6 bp):
AACGTA
Found at i:2637484 original size:2 final size:2
Alignment explanation
Indices: 2637477--2637503 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2637467 ATTTGCAAGC
2637477 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
2637504 TGCATTCTTA
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:2642923 original size:64 final size:65
Alignment explanation
Indices: 2642799--2642954 Score: 183
Period size: 64 Copynumber: 2.4 Consensus size: 65
2642789 CACACCCATT
* * **
2642799 TCGAATGCATTTTGTGTATCGATGCACAAGTCATGCATCGATGCACTCTTGAATATTTTG-AACA
1 TCGAATGCATTTTGTGTACCGATGCACAAGCCATGCATCGATGCACTCCAGAATATTTTGAAACA
* **
2642863 TCGAATGCATTTTGTGTACCGATGCA-TAGACCATGCATCGATGCACTCCAGGCTCA-TTTGAAA
1 TCGAATGCATTTTGTGTACCGATGCACAAG-CCATGCATCGATGCACTCCAGAAT-ATTTTGAAA
2642926 CA
64 CA
* * *
2642928 TCGAATGTAATTAGTGTACCGATGCAC
1 TCGAATGCATTTTGTGTACCGATGCAC
2642955 CCCTAGTGTA
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
63 2 0.03
64 48 0.62
65 28 0.36
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (65 bp):
TCGAATGCATTTTGTGTACCGATGCACAAGCCATGCATCGATGCACTCCAGAATATTTTGAAACA
Found at i:2644920 original size:21 final size:21
Alignment explanation
Indices: 2644895--2644934 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2644885 AAGACTTTAT
2644895 TTTCAAAATAGAAAAATGATA
1 TTTCAAAATAGAAAAATGATA
* *
2644916 TTTCAAAATTGAGAAATGA
1 TTTCAAAATAGAAAAATGA
2644935 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.30
Consensus pattern (21 bp):
TTTCAAAATAGAAAAATGATA
Found at i:2648831 original size:23 final size:23
Alignment explanation
Indices: 2648805--2648848 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
2648795 CGATATACCA
*
2648805 TGAAGGTGCACCGATGCACTCCT
1 TGAAGATGCACCGATGCACTCCT
* *
2648828 TGAATATGCATCGATGCACTC
1 TGAAGATGCACCGATGCACTC
2648849 TACTGTGCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (23 bp):
TGAAGATGCACCGATGCACTCCT
Found at i:2651123 original size:13 final size:13
Alignment explanation
Indices: 2651101--2651135 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
2651091 GAGGGAGTAA
*
2651101 TTTTAAAAAAATG
1 TTTTACAAAAATG
*
2651114 TTTTTCAAAAATG
1 TTTTACAAAAATG
2651127 TTTTACAAA
1 TTTTACAAA
2651136 GAAAAATCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (13 bp):
TTTTACAAAAATG
Found at i:2651600 original size:64 final size:65
Alignment explanation
Indices: 2651479--2651630 Score: 168
Period size: 64 Copynumber: 2.4 Consensus size: 65
2651469 ACCCATTTCA
* * * **
2651479 AATGCATTTTGTGTACTGATGCACAAGCCATGCATCGATGCACTCTTGAATATTTTG-AACATCG
1 AATGAATTTTGTGTACCGATGCACAAGCCATACATCGATGCACTCCAGAATATTTTGAAACATCG
* **
2651543 AATGAATTTTGTGTACCAATGCAC-AGACCATACATCGATGCACTCCAGGCTCA-TTTGAAACAT
1 AATGAATTTTGTGTACCGATGCACAAG-CCATACATCGATGCACTCCAGAAT-ATTTTGAAACAT
2651606 CG
64 CG
*
2651608 AATGTAA-TTAGTGTACCGATGCA
1 AATG-AATTTTGTGTACCGATGCA
2651631 TTCCTAGTGT
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
63 2 0.03
64 44 0.59
65 26 0.35
66 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (65 bp):
AATGAATTTTGTGTACCGATGCACAAGCCATACATCGATGCACTCCAGAATATTTTGAAACATCG
Found at i:2652876 original size:227 final size:226
Alignment explanation
Indices: 2652466--2652917 Score: 649
Period size: 227 Copynumber: 2.0 Consensus size: 226
2652456 GTGGTACTTG
* *
2652466 GGTTAAGTTTTCTCGACAAAATCAATGCCTTCTCTGTCCCCTTTAACGACTGCCTATATATCTTG
1 GGTTAAGTTTTCTCGACAAAATCAATGCCTTCTCAGTCCCCTTTAACGACTGCCTATATAGCTTG
* * *
2652531 GACCCAAATCATTAGTGCATTGTCATAGTTAATCGAGGACCTGGAGTAGGGGCCAAGGTCTTATC
66 GACCCAAATCATTAATGCATTGTCACAGTTAATCGAGGACCTAGAGTAGGGGCCAAGGTCTTATC
** * * * * *
2652596 CGTAATAGAATTCTCTAAAGTCATGCACAAGAATGAGTCGACATTCCTGGCAACACTAGTAAGCG
131 CACAATACAATTCTCCAAAGTCATGAACAAGAAGGAGCCGACATTCCTGGCAACACTAGTAAGCG
* *
2652661 AGACACAAATTGCAACCAAATATGTCCCACA
196 AGACACAAATTACAACCAAAGATGTCCCACA
* * *
2652692 GGTTAAGTTTTCTCGAACAAAATCAATGCAC-TCTCAGTCCCCTTT-GCTGACTGTCTATGTAGC
1 GGTTAAGTTTTCTCG-ACAAAATCAATGC-CTTCTCAGTCCCCTTTAAC-GACTGCCTATATAGC
* * *
2652755 TTGGACCCAAATCATTAATGCATTGTCCCAGTTAATCGAGTACCTAGAGTAGGGGCTAAGGTCTT
63 TTGGACCCAAATCATTAATGCATTGTCACAGTTAATCGAGGACCTAGAGTAGGGGCCAAGGTCTT
2652820 ATCCACAATACAATTCTCCAAA-TCCATGAACAAGAAGGAGCCGACATTCCTGGCAACACTAGTA
128 ATCCACAATACAATTCTCCAAAGT-CATGAACAAGAAGGAGCCGACATTCCTGGCAACACTAGTA
* *
2652884 AGCGAGACACAAATTACAATCGAAGATGTCCCAC
192 AGCGAGACACAAATTACAACCAAAGATGTCCCAC
2652918 GAGAAGTAAG
Statistics
Matches: 200, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
226 17 0.09
227 182 0.91
228 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (226 bp):
GGTTAAGTTTTCTCGACAAAATCAATGCCTTCTCAGTCCCCTTTAACGACTGCCTATATAGCTTG
GACCCAAATCATTAATGCATTGTCACAGTTAATCGAGGACCTAGAGTAGGGGCCAAGGTCTTATC
CACAATACAATTCTCCAAAGTCATGAACAAGAAGGAGCCGACATTCCTGGCAACACTAGTAAGCG
AGACACAAATTACAACCAAAGATGTCCCACA
Found at i:2654892 original size:938 final size:939
Alignment explanation
Indices: 2653031--2654907 Score: 3614
Period size: 938 Copynumber: 2.0 Consensus size: 939
2653021 ACCAAACGCA
2653031 GAACCACATGCCAAAGCACCCTATCGAATGGCTCCACCAAAATTAGAAGAGTTATGCAGACAATT
1 GAACCACATGCCAAAGCACCCTATCGAATGGCTCCACCAAAATTAGAAGAGTTATGCAGACAATT
2653096 GAAGGAACTCATTGATGCAGGTTACATCAGGCCCTCCTATGTACCCTATGGAGCACCAGTACTAT
66 GAAGGAACTCATTGATGCAGGTTACATCAGGCCCTCCTATGTACCCTATGGAGCACCAGTACTAT
*
2653161 TCCAAAAGAAACATGATAGAACACTTCGAATGTGCATAGATTATCGAGTCCTAAACAAGCTCACC
131 TCCAAAAGAAACATGATAGAACACTTCGAATGTGCATAGATTATCGAGCCCTAAACAAGCTCACC
*
2653226 GTGAAGAACAAGTATCCAATCCCCCTCATTGCAGACTTATTTGATCAACTTGGCGATACAAGGTG
196 GTGAAGAACAAGTATCCAATCCCCCTCATTACAGACTTATTTGATCAACTTGGCGATACAAGGTG
2653291 GTTCACCAAGCTAAATTTAAGGTCAGGATACTACCAAGTTAGAATTGCTGAAGGAGACGAACCAA
261 GTTCACCAAGCTAAATTTAAGGTCAGGATACTACCAAGTTAGAATTGCTGAAGGAGACGAACCAA
2653356 AGACAGCATGAGTCACACATTTATGGTTCCAATGAATTCCTCGTGATGCCCTTTGGCCTTATAAA
326 AGACAGCATGAGTCACACATTTATGGTTCCAATGAATTCCTCGTGATGCCCTTTGGCCTTATAAA
2653421 CACCCCCACAACTTTTTGCACCCTCATAAATTAGGTATTACAACCTTTTCTCGATCAATTTATTG
391 CACCCCCACAACTTTTTGCACCCTCATAAATTAGGTATTACAACCTTTTCTCGATCAATTTATTG
2653486 TTGTCTACTTGGATGAAATCATGATATATAACAAGACACTGGGAAGAACATGTCCAACACCTAAG
456 TTGTCTACTTGGATGAAATCATGATATATAACAAGACACTGGGAAGAACATGTCCAACACCTAAG
* *
2653551 GCAAGTGTTCCAAGTCTTACGAGAGAACGAGTTATACATCAAAGAGGAAAAGTGCTCGTTTTCCC
521 GCAAGTGTTCCAAGTCTTACGAGAGAACAAGTTATACATCAAAGAGGAAAAGTGCTCGTTTGCCC
2653616 AAAAGAAAGTCCCCTTCCTAGGCCACATCATAGGAGATGGTATGATCCAAATGGATAGGGACAAG
586 AAAAGAAAGTCCCCTTCCTAGGCCACATCATAGGAGATGGTATGATCCAAATGGATAGGGACAAG
*
2653681 ATCCAAGTCATTGAAGATTGGAAGCCACCAACCAAGGTAACCGAACTAAGATCCTTTTTAGGATT
651 ATCCAAGTCATTGAAGATTGAAAGCCACCAACCAAGGTAACCGAACTAAGATCCTTTTTAGGATT
2653746 AACAAATTACTATCGAAGATTTGTCAAAGACTACTTCAGGATCGCCACACCCTTAACAAAATTGC
716 AACAAATTACTATCGAAGATTTGTCAAAGACTACTTCAGGATCGCCACACCCTTAACAAAATTGC
2653811 TTAAGAAAGACAAGCCATGGGTTTGGGAACAAAAATGCCAAAAAGCCTTTCACAAGATCAAACTT
781 TTAAGAAAGACAAGCCATGGGTTTGGGAACAAAAATGCCAAAAAGCCTTTCACAAGATCAAACTT
*
2653876 ATTCTAATGACTGAGCCAGTGTTGTGCCTTCCAAACTACAACAAACCTTTCGAGATTCACACTGA
846 ATTCTAATGACTAAGCCAGTGTTGTGCCTTCCAAACTACAACAAACCTTTCGAGATTCACACTGA
2653941 CGTATCCGTGTGGCCATC-GGGGAGTCCT
911 CGTATCCGTGTGGCCATCGGGGGAGTCCT
2653969 GAACCACATGCCAAAGCACCCTATCGAATGGCTCCACCAAAATTAGAAGAGTTATGCAGACAATT
1 GAACCACATGCCAAAGCACCCTATCGAATGGCTCCACCAAAATTAGAAGAGTTATGCAGACAATT
2654034 GAAGGAACTCATTGATGCAGGTTACATCAGGCCCTCCTATGTACCCTATGGAGCACCAGTACTAT
66 GAAGGAACTCATTGATGCAGGTTACATCAGGCCCTCCTATGTACCCTATGGAGCACCAGTACTAT
2654099 TCCAAAAGAAACATGATAGAACACTTCGAATGTGCATAGATTATCGAGCCCTAAACAAGCTCACC
131 TCCAAAAGAAACATGATAGAACACTTCGAATGTGCATAGATTATCGAGCCCTAAACAAGCTCACC
* * *
2654164 GTGAAGAACAAGTATCCAATCCCCCTTATTACATACTTGTTTGATCAACTTGGCGATACAAGGTG
196 GTGAAGAACAAGTATCCAATCCCCCTCATTACAGACTTATTTGATCAACTTGGCGATACAAGGTG
2654229 GTTCACCAAGCTAAATTTAAGGTCAGGATACTACCAAGTTAGAATTGCTGAAGGAGACGAACCAA
261 GTTCACCAAGCTAAATTTAAGGTCAGGATACTACCAAGTTAGAATTGCTGAAGGAGACGAACCAA
2654294 AGACAGCATGAGTCACACATTTATGGTTCCAATGAATTCCTCGTGATGCCCTTTGGCCTTATAAA
326 AGACAGCATGAGTCACACATTTATGGTTCCAATGAATTCCTCGTGATGCCCTTTGGCCTTATAAA
2654359 CACCCCCACAACTTTTTGCACCCTCATAAATTAGGTATTACAACCTTTTCTCGATCAATTTATTG
391 CACCCCCACAACTTTTTGCACCCTCATAAATTAGGTATTACAACCTTTTCTCGATCAATTTATTG
* *
2654424 TTGTCTACTTGGATGAAATCGTGATATATAGCAAGACACT-GGAAGAACATGTCCAACACCTAAG
456 TTGTCTACTTGGATGAAATCATGATATATAACAAGACACTGGGAAGAACATGTCCAACACCTAAG
2654488 GCAAGTGTTCCAAGTCTTACGAGAGAACAAGTTATACATCAAAGAGGAAAAGTGCTCGTTTGCCC
521 GCAAGTGTTCCAAGTCTTACGAGAGAACAAGTTATACATCAAAGAGGAAAAGTGCTCGTTTGCCC
2654553 AAAAGAAAGTCCCCTTCCTAGGCCACATCATAGGAGATGGTATGATCCAAATGGATAGGGACAAG
586 AAAAGAAAGTCCCCTTCCTAGGCCACATCATAGGAGATGGTATGATCCAAATGGATAGGGACAAG
*
2654618 ATCCAAGTCATTGGAGATTGAAAGCCACCAACCAAGGTAACCGAACTAAGATCCTTTTTAGGATT
651 ATCCAAGTCATTGAAGATTGAAAGCCACCAACCAAGGTAACCGAACTAAGATCCTTTTTAGGATT
2654683 AACAAATTACTATCGAAGATTTGTCAAAGACTACTTCAGGATCGCCACACCCTTAACAAAATTGC
716 AACAAATTACTATCGAAGATTTGTCAAAGACTACTTCAGGATCGCCACACCCTTAACAAAATTGC
*
2654748 TTAAGAAAGACAAGCCATGGGTTTGGGAACAAAAATTCCAAAAAGCCTTTCACAAGATCAAACTT
781 TTAAGAAAGACAAGCCATGGGTTTGGGAACAAAAATGCCAAAAAGCCTTTCACAAGATCAAACTT
2654813 ATTCTAATGACTAAGCCAGTGTTGTGCCTTCCAAACTACAACAAACCTTTCGAGATTCACACTGA
846 ATTCTAATGACTAAGCCAGTGTTGTGCCTTCCAAACTACAACAAACCTTTCGAGATTCACACTGA
2654878 CGTATCCGGTGTGGCCATCGGGGGAGTCCT
911 CGTATCC-GTGTGGCCATCGGGGGAGTCCT
2654908 TATGCAAGAT
Statistics
Matches: 924, Mismatches: 13, Indels: 3
0.98 0.01 0.00
Matches are distributed among these distances:
937 415 0.45
938 499 0.54
939 10 0.01
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.25
Consensus pattern (939 bp):
GAACCACATGCCAAAGCACCCTATCGAATGGCTCCACCAAAATTAGAAGAGTTATGCAGACAATT
GAAGGAACTCATTGATGCAGGTTACATCAGGCCCTCCTATGTACCCTATGGAGCACCAGTACTAT
TCCAAAAGAAACATGATAGAACACTTCGAATGTGCATAGATTATCGAGCCCTAAACAAGCTCACC
GTGAAGAACAAGTATCCAATCCCCCTCATTACAGACTTATTTGATCAACTTGGCGATACAAGGTG
GTTCACCAAGCTAAATTTAAGGTCAGGATACTACCAAGTTAGAATTGCTGAAGGAGACGAACCAA
AGACAGCATGAGTCACACATTTATGGTTCCAATGAATTCCTCGTGATGCCCTTTGGCCTTATAAA
CACCCCCACAACTTTTTGCACCCTCATAAATTAGGTATTACAACCTTTTCTCGATCAATTTATTG
TTGTCTACTTGGATGAAATCATGATATATAACAAGACACTGGGAAGAACATGTCCAACACCTAAG
GCAAGTGTTCCAAGTCTTACGAGAGAACAAGTTATACATCAAAGAGGAAAAGTGCTCGTTTGCCC
AAAAGAAAGTCCCCTTCCTAGGCCACATCATAGGAGATGGTATGATCCAAATGGATAGGGACAAG
ATCCAAGTCATTGAAGATTGAAAGCCACCAACCAAGGTAACCGAACTAAGATCCTTTTTAGGATT
AACAAATTACTATCGAAGATTTGTCAAAGACTACTTCAGGATCGCCACACCCTTAACAAAATTGC
TTAAGAAAGACAAGCCATGGGTTTGGGAACAAAAATGCCAAAAAGCCTTTCACAAGATCAAACTT
ATTCTAATGACTAAGCCAGTGTTGTGCCTTCCAAACTACAACAAACCTTTCGAGATTCACACTGA
CGTATCCGTGTGGCCATCGGGGGAGTCCT
Found at i:2663217 original size:64 final size:63
Alignment explanation
Indices: 2663101--2663222 Score: 147
Period size: 64 Copynumber: 1.9 Consensus size: 63
2663091 CACATTAAAT
* * *
2663101 GTGCATCGATGCACTCTTTAAAGAAGAAACATCGAATGCAAATGGTGCATCGATGCATAAAGA
1 GTGCATCGATGCACCCTTTAAAGAAGAAACATCAAAGGCAAATGGTGCATCGATGCATAAAGA
* * * * *
2663164 GTGCATCGATGCATCCCTTTAAA-ATGAAAACATCAAAGGTAATTTGTGTATCGATGCAT
1 GTGCATCGATGCA-CCCTTTAAAGAAG-AAACATCAAAGGCAAATGGTGCATCGATGCAT
2663223 GCGTAATGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
63 15 0.31
64 34 0.69
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCACCCTTTAAAGAAGAAACATCAAAGGCAAATGGTGCATCGATGCATAAAGA
Found at i:2664560 original size:31 final size:31
Alignment explanation
Indices: 2664502--2664566 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
2664492 AGAGTCGAGG
* *
2664502 GTTTACCTATGTCTTTCGAGACATATGGATA
1 GTTTACCTAGGTCTTTCGAGACATATGGACA
* *
2664533 GTTTACCTAGGT-TCTTCGGGACCTATGGACA
1 GTTTACCTAGGTCT-TTCGAGACATATGGACA
2664564 GTT
1 GTT
2664567 GCAAAGGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (31 bp):
GTTTACCTAGGTCTTTCGAGACATATGGACA
Found at i:2667328 original size:20 final size:20
Alignment explanation
Indices: 2667303--2667344 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
2667293 TTAGGACTAA
2667303 GGGTCTGGCAAGCCCAAGGG
1 GGGTCTGGCAAGCCCAAGGG
*
2667323 GGGTCTGGCCAGCCCAAGGG
1 GGGTCTGGCAAGCCCAAGGG
2667343 GG
1 GG
2667345 CACCGGCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.17, C:0.26, G:0.48, T:0.10
Consensus pattern (20 bp):
GGGTCTGGCAAGCCCAAGGG
Found at i:2672232 original size:180 final size:182
Alignment explanation
Indices: 2671930--2672280 Score: 607
Period size: 180 Copynumber: 1.9 Consensus size: 182
2671920 ATTAAATCCG
** *
2671930 TAAAGCTGAGCTATTCCACTAAGGTGATTAGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTAGTTATAGAGGAAACTCGAAAGCACTGGCTTTATGA
*
2671995 ATAGATTACATTCAAACCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTAAATTCAAACCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
2672060 TTGTCAGG-CAAAGA-TTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
*
2672110 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCACTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTAGTTATAGAGGAAACTCGAAAGCACTGGCTTTATGA
* *
2672175 ATAGATTAAATTCAAACTATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGTTT
66 ATAGATTAAATTCAAACCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
2672240 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
131 TTGTCAGGCCAAAGAC-TTGTGATGAGACGAACCCTTCAGT
2672281 TAAACTTGGT
Statistics
Matches: 160, Mismatches: 8, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
180 131 0.82
181 6 0.04
183 23 0.14
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (182 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTAGTTATAGAGGAAACTCGAAAGCACTGGCTTTATGA
ATAGATTAAATTCAAACCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
Found at i:2673105 original size:31 final size:32
Alignment explanation
Indices: 2673015--2673126 Score: 138
Period size: 32 Copynumber: 3.5 Consensus size: 32
2673005 TGAGCGCATC
2673015 TTTGAAGATTCAACATCAAATGTTGGGGCATTT
1 TTTG-AGATTCAACATCAAATGTTGGGGCATTT
* *
2673048 TTTTAGATTTAACATCAAATGTTGGGGCATTT
1 TTTGAGATTCAACATCAAATGTTGGGGCATTT
* * *
2673080 TTTGAGATTCAACATCGAAT-ATGGGGCA-TA
1 TTTGAGATTCAACATCAAATGTTGGGGCATTT
*
2673110 TTTGGGAATTCAACATC
1 TTTGAG-ATTCAACATC
2673127 CTGATGAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
30 6 0.09
31 17 0.24
32 44 0.63
33 3 0.04
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (32 bp):
TTTGAGATTCAACATCAAATGTTGGGGCATTT
Found at i:2673816 original size:106 final size:106
Alignment explanation
Indices: 2673693--2674014 Score: 439
Period size: 106 Copynumber: 3.0 Consensus size: 106
2673683 ATATCGTGCC
* *
2673693 ACTCGAGACAACACAAGTTCAACTCCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
*
2673758 AATTTTAGAGCCAATTTCAACTTTACAGCGAAGGATATTGG
66 AATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
2673799 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGGTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
**
2673864 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * * *
2673905 ACTCGAAACAGCACAAGCTCAACTTCACAGCGAAGGGGCAGCTGGCTGTCAACAAA-AATTTTCT
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAA-TTTCC
* * * * * * *
2673969 TAGTTCTAGAGCCAATTTTAACTTCACTGTGGAGGATATTGG
65 CAATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
2674011 ACTC
1 ACTC
2674015 AGATCAATAC
Statistics
Matches: 191, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
105 2 0.01
106 189 0.99
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
AATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:2674367 original size:87 final size:87
Alignment explanation
Indices: 2674272--2674450 Score: 270
Period size: 87 Copynumber: 2.1 Consensus size: 87
2674262 GACAGTTTCT
* *
2674272 CTTGAAACATAAACATTGAAAATATTTCACTT-GAAATGAATTTTATCTCGATTGAGATAGTTTC
1 CTTGAAACATAAACATTGAAAACATTTC-CTTGGAAATAAATTTTATCTCGATTGAGATAGTTTC
* *
2674336 CCTTGAAACAAATTTTTGTCTCC
65 CCTTGAAACAAAATTTTGTATCC
* * *
2674359 CTTGAAACATAAACATTGAAAACATTTCCTTGGAAATAAATTTTATCTCGCTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCTTGGAAATAAATTTTATCTCGATTGAGATAGTTTCC
*
2674424 CTTGAAACAAAATTTTGTATGC
66 CTTGAAACAAAATTTTGTATCC
2674446 CTTGA
1 CTTGA
2674451 GACAATTTCT
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
86 3 0.04
87 80 0.96
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (87 bp):
CTTGAAACATAAACATTGAAAACATTTCCTTGGAAATAAATTTTATCTCGATTGAGATAGTTTCC
CTTGAAACAAAATTTTGTATCC
Found at i:2674547 original size:36 final size:37
Alignment explanation
Indices: 2674514--2674586 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
2674504 CTTTGAAATT
*
2674514 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAA
1 AATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAA
* *
2674551 AATTTTGTCTCCCTTGATATAG-TTCTCTTGAAACAA
1 AATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAA
2674587 TAAACCTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 13 0.39
37 20 0.61
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.41
Consensus pattern (37 bp):
AATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAA
Found at i:2674700 original size:21 final size:22
Alignment explanation
Indices: 2674662--2674709 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
2674652 GACAGTTTCC
2674662 CTTGAAACAAAATCTTGTCTCT
1 CTTGAAACAAAATCTTGTCTCT
* *
2674684 CTTGAAAC-AAATTTTGTTTCT
1 CTTGAAACAAAATCTTGTCTCT
2674705 CTTGA
1 CTTGA
2674710 GACAGTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (22 bp):
CTTGAAACAAAATCTTGTCTCT
Found at i:2674845 original size:36 final size:36
Alignment explanation
Indices: 2674750--2674866 Score: 121
Period size: 36 Copynumber: 3.2 Consensus size: 36
2674740 TATCTTTTTC
* * * *
2674750 TTGAAACAAATTTCGT-CTTCCTTGAGAAAATTTCTT
1 TTGAAACAAATTTTGTCCCT-CTTGAGACAGTTTCTT
* * *
2674786 TT-AGAACTAAGTTTTGTCTCTCTTGAGGCAGTTTCTT
1 TTGA-AAC-AAATTTTGTCCCTCTTGAGACAGTTTCTT
*
2674823 TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCTC
1 TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCTT
2674859 TTGAAACA
1 TTGAAACA
2674867 CAAAAAAACC
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
35 1 0.02
36 38 0.58
37 25 0.38
38 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (36 bp):
TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCTT
Found at i:2674927 original size:37 final size:35
Alignment explanation
Indices: 2674852--2674941 Score: 114
Period size: 37 Copynumber: 2.6 Consensus size: 35
2674842 TCTTGAGACA
*
2674852 GTTTCTCTTG-AA-ACACAAAAAAACCTCGAAATT
1 GTTTCTCTTGAAACACACAAAAAAACCTCGAAAAT
* *
2674885 ATTTCTCTTGAAACACACACAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACACACA-AAAAAACC-TCGAAAAT
2674922 GTTTCTCTTGAAACAC-CAAA
1 GTTTCTCTTGAAACACACAAA
2674942 CCCTCGAGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
33 9 0.18
34 2 0.04
35 7 0.14
36 10 0.20
37 21 0.43
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (35 bp):
GTTTCTCTTGAAACACACAAAAAAACCTCGAAAAT
Found at i:2675130 original size:82 final size:80
Alignment explanation
Indices: 2674945--2675134 Score: 181
Period size: 82 Copynumber: 2.3 Consensus size: 80
2674935 CACCAAACCC
* * * * *
2674945 TCGAGTTCAATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGT
1 TCGAGTTCGATTTCATTCAGC-TCGAAGGCACATCATTTACAACATAACTCAAGGCAAGAAGGGT
2675010 TATGTCACCAAAAGAAT
65 TATGTCA-CAAAAGAAT
* * *
2675027 TCGGAGTTCGA-CT-ATGCTCAGCTCTAAGGCACATCATTTACAGCATAACTCAAGGCAAGAAGG
1 TC-GAGTTCGATTTCAT--TCAGCTCGAAGGCACATCATTTACAACATAACTCAAGGCAAGAAGG
* *
2675090 GCTATCTGTCA-ATAAA-ATT
63 G-T-TATGTCACA-AAAGAAT
2675109 GTCGAGTTCGATTTCATTCAGCTCGA
1 -TCGAGTTCGATTTCATTCAGCTCGA
2675135 TGATACCTCA
Statistics
Matches: 87, Mismatches: 12, Indels: 18
0.74 0.10 0.15
Matches are distributed among these distances:
81 1 0.01
82 59 0.68
83 19 0.22
84 8 0.09
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (80 bp):
TCGAGTTCGATTTCATTCAGCTCGAAGGCACATCATTTACAACATAACTCAAGGCAAGAAGGGTT
ATGTCACAAAAGAAT
Found at i:2676180 original size:44 final size:44
Alignment explanation
Indices: 2676094--2676232 Score: 138
Period size: 46 Copynumber: 3.1 Consensus size: 44
2676084 TTTTTTTAAA
* * *
2676094 ATTATATATATTATTTTTTATTATCAGTTTTATTAATTTATATATAT
1 ATTATATATACTATTTTTTATT-TTA--TTTATTTATTTATATATAT
2676141 A-TATATATACTATTTTTTATTTTATTTATTTATTATATATATAT
1 ATTATATATACTATTTTTTATTTTATTTATTTATT-TATATATAT
* * * * *
2676185 ATTATTTTTACTTTTATTATTATTTTATTTATTTGTTT-TATTTAT
1 ATTATATATACTATT-TT-TTATTTTATTTATTTATTTATATATAT
2676230 ATT
1 ATT
2676233 TTTCCTTTAT
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
43 9 0.11
44 10 0.12
45 21 0.26
46 22 0.28
47 18 0.22
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.66
Consensus pattern (44 bp):
ATTATATATACTATTTTTTATTTTATTTATTTATTTATATATAT
Found at i:2676185 original size:36 final size:34
Alignment explanation
Indices: 2676121--2676202 Score: 103
Period size: 36 Copynumber: 2.4 Consensus size: 34
2676111 TTATTATCAG
*
2676121 TTTTA-TTAATTTATATATATATATATATACTATT
1 TTTTATTTTATTTATATATATATATATATACTA-T
* *
2676155 TTTTATTTTATTTATTTATTATATATATATATTAT
1 TTTTATTTTATTTATATA-TATATATATATACTAT
2676190 TTTTACTTTTATT
1 TTTTA-TTTTATT
2676203 ATTATTTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
34 5 0.12
35 16 0.38
36 21 0.50
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (34 bp):
TTTTATTTTATTTATATATATATATATATACTAT
Found at i:2676253 original size:35 final size:34
Alignment explanation
Indices: 2676186--2676305 Score: 104
Period size: 35 Copynumber: 3.4 Consensus size: 34
2676176 TATATATATA
*
2676186 TTATTTTTACTTTTAT-TATTATTTTATT-TATTTGTT
1 TTATTTATA-TTTTATCT-TTATTTT-TTATATTT-TT
2676222 TTATTTATATTTT-TCCTTTATTTTTTATATTTATT
1 TTATTTATATTTTAT-CTTTATTTTTTATATTT-TT
*
2676257 TTATTTACTATTTTATCTTTACTTTCTTTATCTTATTT
1 TTATTTA-TATTTTATCTTTA-TTT-TTTATATT-TTT
2676295 TTATTTA-ATTT
1 TTATTTATATTT
2676306 GTTTTTCTTC
Statistics
Matches: 73, Mismatches: 3, Indels: 16
0.79 0.03 0.17
Matches are distributed among these distances:
34 3 0.04
35 25 0.34
36 24 0.33
37 4 0.05
38 16 0.22
39 1 0.01
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.72
Consensus pattern (34 bp):
TTATTTATATTTTATCTTTATTTTTTATATTTTT
Found at i:2676258 original size:23 final size:22
Alignment explanation
Indices: 2676151--2676301 Score: 71
Period size: 23 Copynumber: 6.7 Consensus size: 22
2676141 ATATATATAC
*
2676151 TATTTTTTAT-TTTA-TTTATT
1 TATTTTTTATATTTATTTTCTT
* * *
2676171 TATTATATATATATATTATT-TT
1 TATTTTTTATATTTATT-TTCTT
* *
2676193 TA-CTTTTAT-TATTATTTTATT
1 TATTTTTTATAT-TTATTTTCTT
2676214 TATTTGTTT-TATTTATATTTTTCCTT
1 TATTT-TTTATA-TT-TA-TTTT-CTT
*
2676240 TATTTTTTATATTTATTTTATT
1 TATTTTTTATATTTATTTTCTT
* * *
2676262 TACTATTTTATCTTTACTTTCTT
1 TA-TTTTTTATATTTATTTTCTT
*
2676285 TATCTTATTTTTATTTA
1 TAT-TT-TTTATATTTA
2676302 ATTTGTTTTT
Statistics
Matches: 98, Mismatches: 17, Indels: 28
0.69 0.12 0.20
Matches are distributed among these distances:
20 11 0.11
21 15 0.15
22 12 0.12
23 29 0.30
24 13 0.13
25 9 0.09
26 9 0.09
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.72
Consensus pattern (22 bp):
TATTTTTTATATTTATTTTCTT
Found at i:2676277 original size:18 final size:17
Alignment explanation
Indices: 2676221--2676277 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
2676211 ATTTATTTGT
2676221 TTTATTTATATTTT-TCC
1 TTTATTTATATTTTAT-C
*
2676238 TTTATTTTTTATATTTAT-
1 TTTA-TTTATAT-TTTATC
2676256 TTTATTTACTATTTTATC
1 TTTATTTA-TATTTTATC
2676274 TTTA
1 TTTA
2676278 CTTTCTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
17 12 0.36
18 17 0.52
19 3 0.09
20 1 0.03
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTATTTATATTTTATC
Found at i:2685952 original size:40 final size:40
Alignment explanation
Indices: 2685849--2685955 Score: 126
Period size: 41 Copynumber: 2.6 Consensus size: 40
2685839 TTTTAATTTT
*
2685849 ATGTAATAACAATATTAATAAAATAATACTAATGGATGCC
1 ATGTAATAAAAATATTAATAAAATAATACTAATGGATGCC
** * * *
2685889 ACATCATAAAAAATATTAATAAAATGATATTAAAT-GATGCC
1 ATGTAAT-AAAAATATTAATAAAATAATACT-AATGGATGCC
*
2685930 ATGTTATAAAAATATTAATAAAATAA
1 ATGTAATAAAAATATTAATAAAATAA
2685956 ATTTCAGTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
40 22 0.40
41 30 0.55
42 3 0.05
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.31
Consensus pattern (40 bp):
ATGTAATAAAAATATTAATAAAATAATACTAATGGATGCC
Found at i:2686546 original size:23 final size:22
Alignment explanation
Indices: 2686519--2686575 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 22
2686509 ATTAATGGTG
*
2686519 TTTTATATTTAATTTTTTAATAT
1 TTTTATATTTAATATTTTAA-AT
*
2686542 TTTTATATTTTATATTTTAAAT
1 TTTTATATTTAATATTTTAAAT
*
2686564 ATTTATATTTAA
1 TTTTATATTTAA
2686576 AAAATCAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTATATTTAATATTTTAAAT
Found at i:2686556 original size:15 final size:14
Alignment explanation
Indices: 2686519--2686573 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 14
2686509 ATTAATGGTG
* *
2686519 TTTTATATTTAATT
1 TTTTATATTTTATA
2686533 TTTTAATATTTTTATA
1 TTTT-ATA-TTTTATA
*
2686549 TTTTATATTTTAAA
1 TTTTATATTTTATA
2686563 TATTTATATTT
1 T-TTTATATTT
2686574 AAAAAATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 11 0.31
15 15 0.43
16 9 0.26
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATATTTTATA
Found at i:2687080 original size:32 final size:32
Alignment explanation
Indices: 2687042--2687103 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
2687032 TATTTGTTTA
*
2687042 TTAACAAATTATTCATTGAATTAATTCATTGT
1 TTAACAAAATATTCATTGAATTAATTCATTGT
* **
2687074 TTAACAAAATATTTATTGTGTTAATTCATT
1 TTAACAAAATATTCATTGAATTAATTCATT
2687104 TATTTAAATT
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:0.37, C:0.08, G:0.06, T:0.48
Consensus pattern (32 bp):
TTAACAAAATATTCATTGAATTAATTCATTGT
Found at i:2688728 original size:37 final size:36
Alignment explanation
Indices: 2688669--2688788 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
2688659 ATCCCATTAT
* *
2688669 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
2688705 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
2688741 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
2688776 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
2688789 TTGGTTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
35 35 0.45
36 13 0.17
37 29 0.38
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:2688744 original size:21 final size:21
Alignment explanation
Indices: 2688720--2688780 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
2688710 TTCAAAGAAA
2688720 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
2688741 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
2688755 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
2688776 CATTT
1 CATTT
2688781 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:2688797 original size:35 final size:36
Alignment explanation
Indices: 2688671--2688815 Score: 142
Period size: 35 Copynumber: 4.1 Consensus size: 36
2688661 CCCATTATCA
*
2688671 TTTTTCAACA-AACA-TCTACCAAACTTTGAAAAAC-T
1 TTTTTCAA-AGAACAGT-TACCAAACTTTGAAAACCAT
*
2688706 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA-
1 -TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
*
2688743 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
1 TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
***
2688779 TTTTTCAAAG-TTGGTTACCAAAC-TTGAAAACCAT
1 TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
2688813 TTT
1 TTT
2688816 AATAATTTCA
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
34 14 0.14
35 45 0.46
36 8 0.08
37 30 0.31
38 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.33
Consensus pattern (36 bp):
TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
Found at i:2693325 original size:37 final size:36
Alignment explanation
Indices: 2693267--2693385 Score: 179
Period size: 35 Copynumber: 3.3 Consensus size: 36
2693257 TCCCATTATC
* *
2693267 ATTTTTC-AACAAACATCTACCAAACTTTGAAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTTG-AAAACT
*
2693303 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
2693339 A-TTTTCAAAGAAACATTTACCAAACTTTGAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
2693374 ATTTTTTCAAAG
1 A-TTTTTCAAAG
2693386 TTGATTACCA
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
35 34 0.45
36 13 0.17
37 29 0.38
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (36 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
Found at i:2693341 original size:21 final size:21
Alignment explanation
Indices: 2693317--2693377 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2693307 TTCAAAGAAA
2693317 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
2693338 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
2693352 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
2693373 TATTT
1 CATTT
2693378 TTTCAAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 9 0.30
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.33
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:2693351 original size:35 final size:36
Alignment explanation
Indices: 2693266--2693412 Score: 178
Period size: 35 Copynumber: 4.2 Consensus size: 36
2693256 ATCCCATTAT
* *
2693266 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
2693302 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
2693338 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
* ***
2693373 TATTTTTTCAAAG-TTGA-TTACCAAAC-TTGAAAAC
1 CA-TTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
2693407 CATTTT
1 CATTTT
2693413 AATAATTTCA
Statistics
Matches: 99, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
33 4 0.04
34 9 0.09
35 43 0.43
36 14 0.14
37 29 0.29
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.33
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:2693383 original size:72 final size:68
Alignment explanation
Indices: 2693269--2693412 Score: 191
Period size: 72 Copynumber: 2.1 Consensus size: 68
2693259 CCATTATCAT
2693269 TTTTCAACAAACATCTACCAAACTTTGAAAAACTATTTTTCAAAGAAACATTTACCAAACTTTGA
1 TTTTCAACAAACATCTACCAAACTTTGAAAAACTATTTTTCAAAG-AACA-TTACCAAAC-TTGA
2693334 AAACCA
63 AAACCA
* * ***
2693340 TTTTCAAAGAAACATTTACCAAACTTTG-AAAACTATTTTTTCAAAGTTGATTACCAAACTTGAA
1 TTTTC-AACAAACATCTACCAAACTTTGAAAAACTA-TTTTTCAAAGAACATTACCAAACTTGAA
2693404 AACCA
64 AACCA
2693409 TTTT
1 TTTT
2693413 AATAATTTCA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
69 14 0.21
70 9 0.14
71 13 0.20
72 30 0.45
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (68 bp):
TTTTCAACAAACATCTACCAAACTTTGAAAAACTATTTTTCAAAGAACATTACCAAACTTGAAAA
CCA
Found at i:2694675 original size:164 final size:166
Alignment explanation
Indices: 2694403--2694732 Score: 646
Period size: 164 Copynumber: 2.0 Consensus size: 166
2694393 AGGCCCAATA
2694403 GGCAATTTAGTTCATTTAAAATACAAGAGTAAATTACATTATTTTTTTTTTTTGAAGGGAGAGTA
1 GGCAATTTAGTTCATTTAAAATACAAGAGTAAATTACATTATTTTTTTTTTTTGAAGGGAGAGTA
2694468 AATTACATTACAATTGTTCTAAGTAGGGGTGTTCAAAACCAGACACTCGAAGTACCGGGTAGTAT
66 AATTACATTACAATTGTTCTAAGTAGGGGTGTTCAAAACCAGACACTCGAAGTACCGGGTAGTAT
2694533 ATATGTTGGCCCGTGA-TTGACCTGTTAAGTTTGGG
131 ATATGTTGGCCCGTGATTTGACCTGTTAAGTTTGGG
2694568 GGCAATTTAGTTCATTTAAAATAC-AGAGTAAATTACATTATTTTTTTTTTTTGAAGGGAGAGTA
1 GGCAATTTAGTTCATTTAAAATACAAGAGTAAATTACATTATTTTTTTTTTTTGAAGGGAGAGTA
2694632 AATTACATTACAATTGTTCTAAGTAGGGGTGTTCAAAACCAGACACTCGAAGTACCGGGTAGTAT
66 AATTACATTACAATTGTTCTAAGTAGGGGTGTTCAAAACCAGACACTCGAAGTACCGGGTAGTAT
2694697 ATATGTTGGCCCGTGATTTGACCTGTTAAGTTTGGG
131 ATATGTTGGCCCGTGATTTGACCTGTTAAGTTTGGG
2694733 TACCTGGAAG
Statistics
Matches: 164, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
164 121 0.74
165 43 0.26
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (166 bp):
GGCAATTTAGTTCATTTAAAATACAAGAGTAAATTACATTATTTTTTTTTTTTGAAGGGAGAGTA
AATTACATTACAATTGTTCTAAGTAGGGGTGTTCAAAACCAGACACTCGAAGTACCGGGTAGTAT
ATATGTTGGCCCGTGATTTGACCTGTTAAGTTTGGG
Found at i:2700555 original size:2 final size:2
Alignment explanation
Indices: 2700548--2700573 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2700538 AAATATTTGG
2700548 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
2700574 TAAAGTTTAT
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:2701115 original size:17 final size:17
Alignment explanation
Indices: 2701093--2701129 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
2701083 TACTGTTATG
2701093 TTTTTTATTTTTCAATA
1 TTTTTTATTTTTCAATA
* *
2701110 TTTTTTTTTTTTTAATA
1 TTTTTTATTTTTCAATA
2701127 TTT
1 TTT
2701130 AAAAAAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTTATTTTTCAATA
Found at i:2701256 original size:21 final size:21
Alignment explanation
Indices: 2701211--2701263 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2701201 AATTTTGATT
* **
2701211 TTTAAGAATTTAAGATTTTGG
1 TTTAAGGATTTAAGATTTTAA
* *
2701232 TTTATGGATTTAAGGTTTTAA
1 TTTAAGGATTTAAGATTTTAA
2701253 TTTAAGGATTT
1 TTTAAGGATTT
2701264 GGATATTACG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (21 bp):
TTTAAGGATTTAAGATTTTAA
Found at i:2701954 original size:51 final size:50
Alignment explanation
Indices: 2701865--2701992 Score: 166
Period size: 51 Copynumber: 2.5 Consensus size: 50
2701855 TTAGCAGTAA
* ***
2701865 AGCACGCCCCCTGCACTGCGCTATACGATGATTTGGCGCCACATGGGGTAT
1 AGCACGCCCCCTGCACCGCGCTATACGATGAGCAGGCGCCACAT-GGGTAT
* * *
2701916 AGCGCGCCCCCTGCACCGCGCTATACGGTGAGCAGGCGCCACGTGGGTAT
1 AGCACGCCCCCTGCACCGCGCTATACGATGAGCAGGCGCCACATGGGTAT
* *
2701966 AGCACGGCCCCTGCAGCGCGCTATACG
1 AGCACGCCCCCTGCACCGCGCTATACG
2701993 CCACGTAGGG
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 30 0.45
51 37 0.55
ACGTcount: A:0.18, C:0.35, G:0.30, T:0.16
Consensus pattern (50 bp):
AGCACGCCCCCTGCACCGCGCTATACGATGAGCAGGCGCCACATGGGTAT
Found at i:2707855 original size:110 final size:111
Alignment explanation
Indices: 2707661--2707873 Score: 329
Period size: 110 Copynumber: 1.9 Consensus size: 111
2707651 ATTACAAAAA
* * * * *
2707661 TTAATTCTTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTAATAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATAATAATAATAATTTAAATTA
* * *
2707726 AATTAAAACGTTAAAATGTTACCGTATCGGTAAAGTGTCGATATAT
66 AATTAAAAAGTTAAAATGTTACCGTATCAGCAAAGTGTCGATATAT
*
2707772 TTAATTATTAATATAATAATCATGCATTAAATAAAT-AACTAAATAATACTAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATAATAATAATAATTTAAATTA
*
2707836 AATTAAAAATTTAAAATGTTACCGTATCAGCAAAGTGT
66 AATTAAAAAGTTAAAATGTTACCGTATCAGCAAAGTGT
2707874 AGAGATATAT
Statistics
Matches: 92, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
110 59 0.64
111 33 0.36
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.37
Consensus pattern (111 bp):
TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATAATAATAATAATTTAAATTA
AATTAAAAAGTTAAAATGTTACCGTATCAGCAAAGTGTCGATATAT
Found at i:2708005 original size:12 final size:10
Alignment explanation
Indices: 2707991--2708031 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
2707981 ACTTTAAAAA
*
2707991 GAGAGTATTT
1 GAGAGAATTT
2708001 GAGAGAAATTT
1 GAGAG-AATTT
2708012 -AGAGAATTT
1 GAGAGAATTT
2708021 GAGAGAATTT
1 GAGAGAATTT
2708031 G
1 G
2708032 GTGTGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:2708170 original size:51 final size:51
Alignment explanation
Indices: 2708111--2708264 Score: 154
Period size: 51 Copynumber: 3.0 Consensus size: 51
2708101 GCCCCCTGCA
* * * * *
2708111 CCGCGCTATACCCCACGT-G-TCAGATATACAGGTATAGCGTGGTGCAGGGGG
1 CCGCGCTATACCCCACGTGGCGCAGAT-CAC-CGTATAGCGCGGTGCAGAGGG
*
2708162 CCGCGCTATA-CCCACGTGGCGCCAGCTCACCGTATAGCGCGGTGCAGAGGG
1 CCGCGCTATACCCCACGTGGCG-CAGATCACCGTATAGCGCGGTGCAGAGGG
* * * *
2708213 -CGCGCTATACCCCACGTGGCGCCAAATCATCGTATAGCGCGGTACAGGGGG
1 CCGCGCTATACCCCACGTGGCG-CAGATCACCGTATAGCGCGGTGCAGAGGG
2708264 C
1 C
2708265 GCACTTTACT
Statistics
Matches: 87, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
50 16 0.18
51 65 0.75
52 2 0.02
53 4 0.05
ACGTcount: A:0.20, C:0.31, G:0.32, T:0.16
Consensus pattern (51 bp):
CCGCGCTATACCCCACGTGGCGCAGATCACCGTATAGCGCGGTGCAGAGGG
Found at i:2708265 original size:51 final size:50
Alignment explanation
Indices: 2708142--2708266 Score: 178
Period size: 51 Copynumber: 2.5 Consensus size: 50
2708132 AGATATACAG
* **
2708142 GTATAGCGTGGTGCAGGGGGCCGCGCTATACCCACGTGGCGCCAGCTCACC
1 GTATAGCGCGGTGCAGGGGG-CGCGCTATACCCACGTGGCGCCAAATCACC
* *
2708193 GTATAGCGCGGTGCAGAGGGCGCGCTATACCCCACGTGGCGCCAAATCATC
1 GTATAGCGCGGTGCAGGGGGCGCGCTATA-CCCACGTGGCGCCAAATCACC
*
2708244 GTATAGCGCGGTACAGGGGGCGC
1 GTATAGCGCGGTGCAGGGGGCGC
2708267 ACTTTACTTC
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 9 0.14
51 57 0.86
ACGTcount: A:0.18, C:0.30, G:0.36, T:0.15
Consensus pattern (50 bp):
GTATAGCGCGGTGCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
Found at i:2708427 original size:30 final size:31
Alignment explanation
Indices: 2708387--2708455 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
2708377 TTGAGTTATT
* * *
2708387 AAATGTAAATTTA-TCATAGTTAAGAAATTA
1 AAATATAAATTTATTCAAAATTAAGAAATTA
**
2708417 AAATATAAATTTATTCAAAATTAAGTGATTA
1 AAATATAAATTTATTCAAAATTAAGAAATTA
2708448 AAATATAA
1 AAATATAA
2708456 CTAAAAGGTC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 12 0.36
31 21 0.64
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (31 bp):
AAATATAAATTTATTCAAAATTAAGAAATTA
Found at i:2708836 original size:30 final size:31
Alignment explanation
Indices: 2708796--2708864 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
2708786 TTGAGTTATT
* * *
2708796 AAATGTAAATTTA-TCATAGTTAAGAAATTA
1 AAATATAAATTTATTCAAAATTAAGAAATTA
**
2708826 AAATATAAATTTATTCAAAATTAAGTGATTA
1 AAATATAAATTTATTCAAAATTAAGAAATTA
2708857 AAATATAA
1 AAATATAA
2708865 CTAAAAGGTC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 12 0.36
31 21 0.64
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (31 bp):
AAATATAAATTTATTCAAAATTAAGAAATTA
Found at i:2709118 original size:409 final size:410
Alignment explanation
Indices: 2708359--2709181 Score: 1585
Period size: 409 Copynumber: 2.0 Consensus size: 410
2708349 TCGGGAAAAT
2708359 CGCCCTTTTTACTTACATTTGAGTTATTAAATGTAAATTTATCATAGTTAAGAAATTAAAATATA
1 CGCCCTTTTTACTTACATTTGAGTTATTAAATGTAAATTTATCATAGTTAAGAAATTAAAATATA
*
2708424 AATTTATTCAAAATTAAGTGATTAAAATATAACTAAAAGGTCAATGTATTTTGCACATTCAATGA
66 AATTTATTCAAAATTAAGTGATTAAAATATAACTAAAAGGTCAATGTATTTTGCACATTCAACGA
2708489 AAAATATATAATCATTATAATTGGTAAATATAATGATTTTGACTTTTTAAATTATGATGACCTAA
131 AAAATATATAATCATTATAATTGGTAAATATAATGATTTTGACTTTTTAAATTATGATGACCTAA
*
2708554 TTATAAAATTAGTCATAATATAATGACATATGATGTAATTCACCAAAATATATATTTTATTAGAT
196 TTATAAAATTAATCATAATATAATGACATATGATGTAATTCACCAAAATATATATTTTATTAGAT
2708619 TTTAGGAAACAAATAATGATATGTGAACACTACAACAAAATTATTCTACAACGACGTTTTGAGAG
261 TTTAGGAAACAAATAATGATATGTGAACACTACAACAAAATTATTCTACAACGACGTTTTGAGAG
2708684 TAAATGTCATTAACTTTAAACATATAGCGTCGTTTACATTCCAAACGCCACAAAATGATAATTTT
326 TAAATGTCATTAACTTTAAACATATAGCGTCGTTTACATTCCAAACGCCACAAAATGATAATTTT
2708749 AAC-GAATTTTTTCAACAAA
391 AACGGAATTTTTTCAACAAA
2708768 CGCCCTTTTTACTTACATTTGAGTTATTAAATGTAAATTTATCATAGTTAAGAAATTAAAATATA
1 CGCCCTTTTTACTTACATTTGAGTTATTAAATGTAAATTTATCATAGTTAAGAAATTAAAATATA
2708833 AATTTATTCAAAATTAAGTGATTAAAATATAACTAAAAGGTCAATGTATTTTGCACATTCAACGA
66 AATTTATTCAAAATTAAGTGATTAAAATATAACTAAAAGGTCAATGTATTTTGCACATTCAACGA
2708898 AAAATATATAATCATTATAATTGGTAAATATAATGATTTTGACTTTTTAAATTATGATGACCTAA
131 AAAATATATAATCATTATAATTGGTAAATATAATGATTTTGACTTTTTAAATTATGATGACCTAA
2708963 TTATAAAATTAATCATAATATAATGACATATGATGTAATTCACCAAAATATATATTTTATTAGAT
196 TTATAAAATTAATCATAATATAATGACATATGATGTAATTCACCAAAATATATATTTTATTAGAT
*
2709028 TTTAGGAAACAAATAATGATATGTGAACACTACAACAAAATTATTCTACAACGGCGTTTTGAGAG
261 TTTAGGAAACAAATAATGATATGTGAACACTACAACAAAATTATTCTACAACGACGTTTTGAGAG
*
2709093 TAAATGTCATTAACTTTAAACATATAGTGTCGTTTACATTCCAAACGCCACAAAATGATAATTTT
326 TAAATGTCATTAACTTTAAACATATAGCGTCGTTTACATTCCAAACGCCACAAAATGATAATTTT
**
2709158 AACGGCGTTTTTTCAACAAA
391 AACGGAATTTTTTCAACAAA
2709178 CGCC
1 CGCC
2709182 GTAATAGAAA
Statistics
Matches: 407, Mismatches: 6, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
409 389 0.96
410 18 0.04
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (410 bp):
CGCCCTTTTTACTTACATTTGAGTTATTAAATGTAAATTTATCATAGTTAAGAAATTAAAATATA
AATTTATTCAAAATTAAGTGATTAAAATATAACTAAAAGGTCAATGTATTTTGCACATTCAACGA
AAAATATATAATCATTATAATTGGTAAATATAATGATTTTGACTTTTTAAATTATGATGACCTAA
TTATAAAATTAATCATAATATAATGACATATGATGTAATTCACCAAAATATATATTTTATTAGAT
TTTAGGAAACAAATAATGATATGTGAACACTACAACAAAATTATTCTACAACGACGTTTTGAGAG
TAAATGTCATTAACTTTAAACATATAGCGTCGTTTACATTCCAAACGCCACAAAATGATAATTTT
AACGGAATTTTTTCAACAAA
Found at i:2709584 original size:27 final size:27
Alignment explanation
Indices: 2709561--2709612 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
2709551 CAAACGTCGC
*
2709561 TATAAACTCATACTTTAGTGACGTTTG
1 TATAAACTCATACTTTAGTGACGTTCG
* * *
2709588 TATAGAGTCATACTTTAGTGTCGTT
1 TATAAACTCATACTTTAGTGACGTT
2709613 TTTATACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.42
Consensus pattern (27 bp):
TATAAACTCATACTTTAGTGACGTTCG
Found at i:2715531 original size:29 final size:29
Alignment explanation
Indices: 2715479--2715551 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
2715469 ACCCAACCCA
* **
2715479 TAGGTCGCCAAGCACTCCCAGCGACCTCC
1 TAGGTCGCCATGCACTCCCAGCGACCAAC
** *
2715508 TAGGTCGCCATGCACTCCGGGCGACCAAG
1 TAGGTCGCCATGCACTCCCAGCGACCAAC
*
2715537 GAGGTCGCCATGCAC
1 TAGGTCGCCATGCAC
2715552 GCCCGACGAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.21, C:0.38, G:0.27, T:0.14
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCCAGCGACCAAC
Found at i:2715758 original size:29 final size:25
Alignment explanation
Indices: 2715707--2715759 Score: 61
Period size: 29 Copynumber: 2.0 Consensus size: 25
2715697 GGGTTAAAAG
*
2715707 CTTGGTCGCCGGGTATGGCGACCTC
1 CTTGGTCGCCGGGTATGGAGACCTC
2715732 CTTGGTCGCCCGGAGTGCATGGAGACCT
1 CTTGGTCG-CCGG-GT--ATGGAGACCT
2715760 AGGAGGTCGC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 8 0.35
26 4 0.17
27 2 0.09
29 9 0.39
ACGTcount: A:0.11, C:0.30, G:0.36, T:0.23
Consensus pattern (25 bp):
CTTGGTCGCCGGGTATGGAGACCTC
Found at i:2722740 original size:60 final size:60
Alignment explanation
Indices: 2722667--2722827 Score: 277
Period size: 60 Copynumber: 2.7 Consensus size: 60
2722657 TATATAATAG
*
2722667 CATCATCACAAAATCAATTTCTTCCGATAATTATAAAATTTGAATATGTGACACTTTAAA
1 CATCATCACAAAATCAATATCTTCCGATAATTATAAAATTTGAATATGTGACACTTTAAA
* *
2722727 CATCATTAAAAAATCAATATCTTCCGATAATTATAAAATTTGAATATGTGACACTTTAAA
1 CATCATCACAAAATCAATATCTTCCGATAATTATAAAATTTGAATATGTGACACTTTAAA
* *
2722787 CATCATCACAAAATCAATATCTTCCAATGATTATAAAATTT
1 CATCATCACAAAATCAATATCTTCCGATAATTATAAAATTT
2722828 TACGTTATTT
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 94 1.00
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (60 bp):
CATCATCACAAAATCAATATCTTCCGATAATTATAAAATTTGAATATGTGACACTTTAAA
Found at i:2723306 original size:23 final size:24
Alignment explanation
Indices: 2723280--2723377 Score: 98
Period size: 23 Copynumber: 4.2 Consensus size: 24
2723270 AATATTATGA
*
2723280 AATTATTTTAAAT-ATATTTATTT
1 AATTATTTGAAATAATATTTATTT
* *
2723303 AATT-TTTAAAATCATA-TTATTT
1 AATTATTTGAAATAATATTTATTT
* *
2723325 ATTTATTTGAAATAAT-TTTAATT
1 AATTATTTGAAATAATATTTATTT
*
2723348 ATTTATTTGAAATAATATTT-TTT
1 AATTATTTGAAATAATATTTATTT
2723371 AAATTAT
1 -AATTAT
2723378 CTATTTAATA
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
22 16 0.25
23 39 0.62
24 8 0.13
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (24 bp):
AATTATTTGAAATAATATTTATTT
Found at i:2723314 original size:22 final size:21
Alignment explanation
Indices: 2723285--2723342 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
2723275 TATGAAATTA
2723285 TTTTAAATATATTTATTTAAT
1 TTTTAAATATATTTATTTAAT
*
2723306 TTTTAAA-ATCATATTATTTATT
1 TTTTAAATAT-AT-TTATTTAAT
2723328 TATTTGAAATA-ATTT
1 T-TTT-AAATATATTT
2723343 TAATTATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
20 2 0.06
21 9 0.29
22 11 0.35
23 5 0.16
24 3 0.10
25 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTAAATATATTTATTTAAT
Found at i:2723927 original size:14 final size:14
Alignment explanation
Indices: 2723905--2723957 Score: 60
Period size: 14 Copynumber: 4.1 Consensus size: 14
2723895 TCAATTATAT
*
2723905 GTTCGTTTATGTTC
1 GTTCATTTATGTTC
2723919 GTTCATTTA---T-
1 GTTCATTTATGTTC
*
2723929 ATTCATTTATGTTC
1 GTTCATTTATGTTC
2723943 GTTCATTTATGTTC
1 GTTCATTTATGTTC
2723957 G
1 G
2723958 AACAGAGGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
10 8 0.25
11 1 0.03
13 1 0.03
14 22 0.69
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.57
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:2724241 original size:10 final size:10
Alignment explanation
Indices: 2724223--2724290 Score: 58
Period size: 10 Copynumber: 7.1 Consensus size: 10
2724213 GTATTTGTGT
*
2724223 TGTTTGTTTA
1 TGTTCGTTTA
2724233 TGTTCGTTTA
1 TGTTCGTTTA
2724243 TTGTGTTCGTTTA
1 ---TGTTCGTTTA
2724256 TGTTCG-TT-
1 TGTTCGTTTA
2724264 TGTTCG----
1 TGTTCGTTTA
2724270 TGTTCGTTTA
1 TGTTCGTTTA
2724280 TGTTCGTTTA
1 TGTTCGTTTA
2724290 T
1 T
2724291 TATTTAAATG
Statistics
Matches: 50, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
6 6 0.12
8 6 0.12
9 2 0.04
10 26 0.52
13 10 0.20
ACGTcount: A:0.07, C:0.09, G:0.22, T:0.62
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:2724277 original size:24 final size:23
Alignment explanation
Indices: 2724223--2724291 Score: 111
Period size: 24 Copynumber: 3.0 Consensus size: 23
2724213 GTATTTGTGT
*
2724223 TGTTTGTTTATGTTCGTTTATTG
1 TGTTCGTTTATGTTCGTTTATTG
*
2724246 TGTTCGTTTATGTTCGTTTGTTCG
1 TGTTCGTTTATGTTCGTTTATT-G
2724270 TGTTCGTTTATGTTCGTTTATT
1 TGTTCGTTTATGTTCGTTTATT
2724292 ATTTAAATGA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
23 20 0.48
24 22 0.52
ACGTcount: A:0.07, C:0.09, G:0.22, T:0.62
Consensus pattern (23 bp):
TGTTCGTTTATGTTCGTTTATTG
Found at i:2727795 original size:21 final size:21
Alignment explanation
Indices: 2727751--2727809 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
2727741 TAGAATTTTT
* *
2727751 CCGAAGGACCGCGTAGAAATGTC
1 CCGAAGGACCACATAG--ATGTC
*
2727774 CCGAATGACCACATAGATGTC
1 CCGAAGGACCACATAGATGTC
2727795 CCGAAGGACCACATA
1 CCGAAGGACCACATA
2727810 TACCGCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 19 0.59
23 13 0.41
ACGTcount: A:0.34, C:0.29, G:0.24, T:0.14
Consensus pattern (21 bp):
CCGAAGGACCACATAGATGTC
Found at i:2729724 original size:15 final size:16
Alignment explanation
Indices: 2729690--2729727 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
2729680 AATTGATATC
*
2729690 AATTTTTCAAATGATTT
1 AATTTTACAAAT-ATTT
2729707 AATTTTACAAAT-TTT
1 AATTTTACAAATATTT
2729722 AATTTT
1 AATTTT
2729728 TGACCTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
17 11 0.55
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (16 bp):
AATTTTACAAATATTT
Found at i:2732113 original size:22 final size:22
Alignment explanation
Indices: 2732085--2732127 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2732075 TAGTTTGAAT
2732085 CAATGAGTATTATTTATAGCCA
1 CAATGAGTATTATTTATAGCCA
2732107 CAATGAGTATTATTTATAGCC
1 CAATGAGTATTATTTATAGCC
2732128 CGAATCAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (22 bp):
CAATGAGTATTATTTATAGCCA
Found at i:2733424 original size:18 final size:18
Alignment explanation
Indices: 2733367--2733425 Score: 79
Period size: 18 Copynumber: 3.3 Consensus size: 18
2733357 TTTCCTCTAC
2733367 TGTT-TCTTTTCTTATAT
1 TGTTCTCTTTTCTTATAT
2733384 TGTTTCTCTTTTC-TATAT
1 TG-TTCTCTTTTCTTATAT
2733402 TGTTCAT-TTTTCTTATAT
1 TGTTC-TCTTTTCTTATAT
2733420 TGTTCT
1 TGTTCT
2733426 ATATCTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
17 11 0.29
18 20 0.53
19 7 0.18
ACGTcount: A:0.12, C:0.14, G:0.07, T:0.68
Consensus pattern (18 bp):
TGTTCTCTTTTCTTATAT
Found at i:2733432 original size:17 final size:17
Alignment explanation
Indices: 2733397--2733444 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
2733387 TTCTCTTTTC
* *
2733397 TATATTGTTCATTTTTCT
1 TATATTGTTC-TATATCT
2733415 TATATTGTTCTATATCT
1 TATATTGTTCTATATCT
* *
2733432 TATGTTGTACTAT
1 TATATTGTTCTAT
2733445 TTCATATACT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 16 0.62
18 10 0.38
ACGTcount: A:0.21, C:0.10, G:0.08, T:0.60
Consensus pattern (17 bp):
TATATTGTTCTATATCT
Found at i:2733773 original size:65 final size:65
Alignment explanation
Indices: 2733613--2734179 Score: 609
Period size: 65 Copynumber: 8.7 Consensus size: 65
2733603 TAACGTATAG
* * * * ** * * *
2733613 TCACTCTACCTTATGAACCACAAAGGTACACAAGTC-TCATTGAGTGATCAGTACAATATTCAAT
1 TCACTCCACCTCATGCACCACAAAGATACATGAGTCAT-A-TGAGTGATCTGTGCAGTATTCAAT
2733677 TA
64 TA
* * * * * * *
2733679 TCATTCCA-CTCTATGCACCATAAAGATACATGAGTAATATTAGTGGTCTATGCCGTATTCAATT
1 TCACTCCACCTC-ATGCACCACAAAGATACATGAGTCATATGAGTGATCTGTGCAGTATTCAATT
2733743 A
65 A
* * * * * *
2733744 TCACTCCACCTCATACACTACAAAGATACATGAGTCATATGAGTTATCTGTACAATATTTAATTA
1 TCACTCCACCTCATGCACCACAAAGATACATGAGTCATATGAGTGATCTGTGCAGTATTCAATTA
* * * * * * * * *
2733809 TCACTTCACCTTATACACCAAAAAGGTACATGAGTAATATGAGTGATTTGTACAGTATTTAATTA
1 TCACTCCACCTCATGCACCACAAAGATACATGAGTCATATGAGTGATCTGTGCAGTATTCAATTA
* * * * * * *
2733874 TCACTCTACCTCATGCACCATAAAGATACATGAGTCATTTGAGTGATTTGTGTAGTTTTTAATTA
1 TCACTCCACCTCATGCACCACAAAGATACATGAGTCATATGAGTGATCTGTGCAGTATTCAATTA
* * *
2733939 TCACTCCACCTCATGCAACACAACG-TCACATGAGTCATATGAGTGATCTGTGCAATATTCAATT
1 TCACTCCACCTCATGCACCACAAAGAT-ACATGAGTCATATGAGTGATCTGTGCAGTATTCAATT
2734003 A
65 A
* * ** * * *
2734004 TCACTTCACCTCATGCATCACAAAGGCACATGAGTCATATAAGTGATATGTGTAGTATTCAATTA
1 TCACTCCACCTCATGCACCACAAAGATACATGAGTCATATGAGTGATCTGTGCAGTATTCAATTA
* * *
2734069 TCACTCCACCTCATGCACCACAAAGGTACACGAGTCATATGAGTGATCTGTGCAATATTCAATTA
1 TCACTCCACCTCATGCACCACAAAGATACATGAGTCATATGAGTGATCTGTGCAGTATTCAATTA
*
2734134 TCACTCCACCTCATGCACCACAAAGATACATGAATCATATGAGTGA
1 TCACTCCACCTCATGCACCACAAAGATACATGAGTCATATGAGTGA
2734180 GGTCCCAATA
Statistics
Matches: 418, Mismatches: 78, Indels: 11
0.82 0.15 0.02
Matches are distributed among these distances:
64 1 0.00
65 388 0.93
66 28 0.07
67 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.31
Consensus pattern (65 bp):
TCACTCCACCTCATGCACCACAAAGATACATGAGTCATATGAGTGATCTGTGCAGTATTCAATTA
Done.