Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 10 of 216
Found at i:3290501 original size:9 final size:9
Alignment explanation
Indices: 3290480--3290508 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
3290470 CCAACAAACT
3290480 ATTTTAA-A
1 ATTTTAACA
3290488 ATTTTAACA
1 ATTTTAACA
3290497 ATTTTAACA
1 ATTTTAACA
3290506 ATT
1 ATT
3290509 GAACTAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (9 bp):
ATTTTAACA
Found at i:3290909 original size:19 final size:18
Alignment explanation
Indices: 3290885--3290927 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
3290875 TATGTTTTTA
3290885 TTTAT-TTATAATATCATTT
1 TTTATGTTATAAT-T-ATTT
3290904 TTTATTGTTATAATTATTT
1 TTTA-TGTTATAATTATTT
3290923 TTTAT
1 TTTAT
3290928 CTCATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.05
19 12 0.55
20 2 0.09
21 7 0.32
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTATGTTATAATTATTT
Found at i:3294892 original size:35 final size:34
Alignment explanation
Indices: 3294848--3294949 Score: 123
Period size: 35 Copynumber: 2.9 Consensus size: 34
3294838 TAGTCTTGAC
* * *
3294848 TTGGCTTTATTAATGGAAAATTTAGGTCTTCATTT
1 TTGGTTTTATTAATGGAAATTTTAAGTCTTCA-TT
* ** *
3294883 TTGGTTTTATTCATGGAAATTTTACTTCTTTGATT
1 TTGGTTTTATTAATGGAAATTTTAAGTC-TTCATT
3294918 TTGGTTTTATTAATGGAAATTTTAAGTCTTCA
1 TTGGTTTTATTAATGGAAATTTTAAGTCTTCA
3294950 GATTGCTTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
34 3 0.05
35 50 0.89
36 3 0.05
ACGTcount: A:0.25, C:0.08, G:0.16, T:0.52
Consensus pattern (34 bp):
TTGGTTTTATTAATGGAAATTTTAAGTCTTCATT
Found at i:3296412 original size:73 final size:74
Alignment explanation
Indices: 3296326--3296472 Score: 251
Period size: 73 Copynumber: 2.0 Consensus size: 74
3296316 TTAAAAATTA
* * *
3296326 TCAAGTTTTAAATGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTATTGGGCATGAT-CCT
1 TCAAGTTTTAAATGATCTCAGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCT
3296390 TTTTTTTTC
66 TTTTTTTTC
3296399 TCAAGTTTTAAATGATCTCAGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCC
1 TCAAGTTTTAAATGATCTCAGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGAT-CCC
3296464 TTTTTTTTT
65 TTTTTTTTT
3296473 TAAATCTAAG
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
73 58 0.84
75 11 0.16
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (74 bp):
TCAAGTTTTAAATGATCTCAGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCT
TTTTTTTTC
Found at i:3301043 original size:31 final size:31
Alignment explanation
Indices: 3301008--3301069 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
3300998 ATGATCATTG
3301008 AACTATTCAAAAATTTTCATTTAAGACACTA
1 AACTATTCAAAAATTTTCATTTAAGACACTA
* * * *
3301039 AACTATTCAAGAGTTTTTATTTAAGTCACTA
1 AACTATTCAAAAATTTTCATTTAAGACACTA
3301070 GACTGTTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.39
Consensus pattern (31 bp):
AACTATTCAAAAATTTTCATTTAAGACACTA
Found at i:3310211 original size:3 final size:3
Alignment explanation
Indices: 3310203--3310232 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
3310193 AATTCGATGG
3310203 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3310233 ATTTCTTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3312612 original size:22 final size:24
Alignment explanation
Indices: 3312565--3312613 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
3312555 ATGTTGATGT
*
3312565 AAATGGATTGATTTTTAACAACAA
1 AAATGGATGGATTTTTAACAACAA
*
3312589 AAATTGATGGATTTTT-A-AACAA
1 AAATGGATGGATTTTTAACAACAA
3312611 AAA
1 AAA
3312614 GACCTATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 8 0.35
23 1 0.04
24 14 0.61
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.33
Consensus pattern (24 bp):
AAATGGATGGATTTTTAACAACAA
Found at i:3315563 original size:30 final size:31
Alignment explanation
Indices: 3315527--3315602 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 31
3315517 CATTTTCATG
*
3315527 ACTAAAATTAATAATTTAGGAGTTTATTTA-
1 ACTAAAATTAATAATTTAAGAGTTTATTTAT
3315557 ACTAAAA--AA-AA--TAAGAGTTTATTTAT
1 ACTAAAATTAATAATTTAAGAGTTTATTTAT
3315583 AC-AAAATCTAATAATTTAAG
1 ACTAAAAT-TAATAATTTAAG
3315603 GGTATTTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
25 17 0.45
26 2 0.05
27 2 0.05
28 4 0.11
29 2 0.05
30 7 0.18
31 4 0.11
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (31 bp):
ACTAAAATTAATAATTTAAGAGTTTATTTAT
Found at i:3321856 original size:19 final size:19
Alignment explanation
Indices: 3321832--3321874 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
3321822 TGTTCTTCAT
3321832 CACTTCTGCAGTGGAAAAA
1 CACTTCTGCAGTGGAAAAA
*
3321851 CACTTCTGCAGTGTAAAAA
1 CACTTCTGCAGTGGAAAAA
3321870 CACTT
1 CACTT
3321875 TTAACCCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (19 bp):
CACTTCTGCAGTGGAAAAA
Found at i:3336513 original size:28 final size:28
Alignment explanation
Indices: 3336475--3336538 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
3336465 ATGATTCCTG
*
3336475 CAAAATTCTTGGAGGAAATTCCTTATTC
1 CAAAACTCTTGGAGGAAATTCCTTATTC
* *
3336503 CAAAACTCTTGGTGGAAATTCCTTATTG
1 CAAAACTCTTGGAGGAAATTCCTTATTC
3336531 CAAAACTC
1 CAAAACTC
3336539 CAACTTGCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (28 bp):
CAAAACTCTTGGAGGAAATTCCTTATTC
Found at i:3337290 original size:35 final size:34
Alignment explanation
Indices: 3337251--3337359 Score: 98
Period size: 35 Copynumber: 3.2 Consensus size: 34
3337241 TTGACTTGGA
*
3337251 TTTATTAATGGAAATTTTAGGTCTTCATTTTTCGT
1 TTTATTAATGGAAATTTTAAGTCTTCA-TTTTCGT
* ** *
3337286 TTTATTCATGGAAATTTTACTTCTTTGATTTT-GAT
1 TTTATTAATGGAAATTTTAAGTC-TTCATTTTCG-T
* *
3337321 TTT-TTAATGGAGATTTTAAGTCTTCAGTTT-GCT
1 TTTATTAATGGAAATTTTAAGTCTTCATTTTCG-T
3337354 TTTATT
1 TTTATT
3337360 CTTGCACATT
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
33 11 0.18
34 18 0.30
35 28 0.47
36 3 0.05
ACGTcount: A:0.22, C:0.08, G:0.14, T:0.56
Consensus pattern (34 bp):
TTTATTAATGGAAATTTTAAGTCTTCATTTTCGT
Found at i:3337329 original size:69 final size:67
Alignment explanation
Indices: 3337249--3337386 Score: 168
Period size: 69 Copynumber: 2.0 Consensus size: 67
3337239 TCTTGACTTG
* * * * *
3337249 GATTTATTAATGGAAATTTTAGGTCTTCATTTTTCGTTTTATTCATGGAAATTTTACTTCTTTGA
1 GATTTATTAATGGAAATTTTAAGTCTTCAGTTTGC-TTTTATTCATGCAAATTTTACGT-TTTGA
3337314 TTTT
64 TTTT
* * * * *
3337318 GATTTTTTAATGGAGATTTTAAGTCTTCAGTTTGCTTTTATTCTTGCACATTTTAGGTTTTGATT
1 GATTTATTAATGGAAATTTTAAGTCTTCAGTTTGCTTTTATTCATGCAAATTTTACGTTTTGATT
3337383 TT
66 TT
3337385 GA
1 GA
3337387 AAATTTAGTT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
67 11 0.19
68 18 0.31
69 30 0.51
ACGTcount: A:0.22, C:0.09, G:0.15, T:0.54
Consensus pattern (67 bp):
GATTTATTAATGGAAATTTTAAGTCTTCAGTTTGCTTTTATTCATGCAAATTTTACGTTTTGATT
TT
Found at i:3337724 original size:35 final size:33
Alignment explanation
Indices: 3337678--3337800 Score: 106
Period size: 35 Copynumber: 3.6 Consensus size: 33
3337668 TTGACTTGGC
3337678 TTTATTAATGGAAAATTTAGATCTTCATTTTTTGT
1 TTTATTAATGGAAAATTTA-ATCTTCA-TTTTTGT
* * * *
3337713 TTTATTCATGGAAAATTTACTTCTTTGATTTTGGT
1 TTTATTAATGGAAAATTTA-ATC-TTCATTTTTGT
* *
3337748 TTTATTAATGGAAATTTTAAGTCTTCA-GTTTGCT
1 TTTATTAATGGAAAATTTAA-TCTTCATTTTTG-T
**
3337782 TTTATTCTTGG-AAATTTAA
1 TTTATTAATGGAAAATTTAA
3337801 ACATGATTAT
Statistics
Matches: 71, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
33 10 0.14
34 13 0.18
35 45 0.63
36 3 0.04
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (33 bp):
TTTATTAATGGAAAATTTAATCTTCATTTTTGT
Found at i:3337763 original size:34 final size:35
Alignment explanation
Indices: 3337673--3337787 Score: 110
Period size: 35 Copynumber: 3.3 Consensus size: 35
3337663 TAGTCTTGAC
* *
3337673 TTGGCTTTATTAATGGAAAATTTAGATCTTCATTT
1 TTGGTTTTATTAATGGAAAATTTACATCTTCATTT
* * * *
3337708 TTTGTTTTATTCATGGAAAATTTACTTCTTTGA-TT
1 TTGGTTTTATTAATGGAAAATTTACATC-TTCATTT
* *
3337743 TTGGTTTTATTAATGGAAATTTTA-AGTCTTCA-GT
1 TTGGTTTTATTAATGGAAAATTTACA-TCTTCATTT
*
3337777 TTGCTTTTATT
1 TTGGTTTTATT
3337788 CTTGGAAATT
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
34 14 0.22
35 48 0.74
36 3 0.05
ACGTcount: A:0.24, C:0.08, G:0.14, T:0.54
Consensus pattern (35 bp):
TTGGTTTTATTAATGGAAAATTTACATCTTCATTT
Found at i:3344103 original size:34 final size:34
Alignment explanation
Indices: 3344064--3344134 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
3344054 ATTTAAACAC
3344064 TTAAAGTAAAAATTTTGTAATTTAAGCACTCACA
1 TTAAAGTAAAAATTTTGTAATTTAAGCACTCACA
3344098 TTAAAGTAAAAATTTTGTAATTTAAGCACTCACA
1 TTAAAGTAAAAATTTTGTAATTTAAGCACTCACA
3344132 TTA
1 TTA
3344135 CATAGTTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (34 bp):
TTAAAGTAAAAATTTTGTAATTTAAGCACTCACA
Found at i:3352438 original size:34 final size:34
Alignment explanation
Indices: 3352399--3352469 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
3352389 CTAAACTATG
3352399 TAATGTGAGTGCTTAAATTACAAAATTTTTACTT
1 TAATGTGAGTGCTTAAATTACAAAATTTTTACTT
3352433 TAATGTGAGTGCTTAAATTACAAAATTTTTACTT
1 TAATGTGAGTGCTTAAATTACAAAATTTTTACTT
3352467 TAA
1 TAA
3352470 GTGTTTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (34 bp):
TAATGTGAGTGCTTAAATTACAAAATTTTTACTT
Found at i:3352477 original size:29 final size:29
Alignment explanation
Indices: 3352406--3352480 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 29
3352396 ATGTAATGTG
*
3352406 AGTGCTTAAATTACAAAATTTTTACTTTA
1 AGTGTTTAAATTACAAAATTTTTACTTTA
3352435 ATGTGAGTGCTTAAATTACAAAATTTTTACTTTA
1 A-GT--GT--TTAAATTACAAAATTTTTACTTTA
3352469 AGTGTTTAAATT
1 AGTGTTTAAATT
3352481 TTTTAAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
29 8 0.20
30 2 0.05
31 2 0.05
32 1 0.03
33 2 0.05
34 25 0.62
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (29 bp):
AGTGTTTAAATTACAAAATTTTTACTTTA
Found at i:3352741 original size:18 final size:17
Alignment explanation
Indices: 3352697--3352741 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
3352687 TATAACATTT
3352697 AAAATTATATTTTTAAA
1 AAAATTATATTTTTAAA
*
3352714 ATACATTATATTTTTAAA
1 A-AAATTATATTTTTAAA
*
3352732 GAAAAATATA
1 -AAAATTATA
3352742 AGTTCAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.91
19 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
AAAATTATATTTTTAAA
Found at i:3358743 original size:34 final size:33
Alignment explanation
Indices: 3358670--3358795 Score: 101
Period size: 34 Copynumber: 3.7 Consensus size: 33
3358660 TAATCATGTT
** * * *
3358670 TAAATTTCCAAGAATAAAAGCAAACTGAAG-AC
1 TAAATTTCCATTAATAAAACCAAAATAAAGAAC
*
3358702 TTAAAATTTCCATTAATAAAACCAAAATCAAAGAAG
1 -T-AAATTTCCATTAATAAAACCAAAAT-AAAGAAC
* * * *
3358738 TAAATTTCCATGAATAAAACAAAAAATGAAGATC
1 TAAATTTCCATTAATAAAAC-CAAAATAAAGAAC
*
3358772 TAAATTTTCCATTAATAAAGCCAA
1 TAAA-TTTCCATTAATAAAACCAA
3358796 GTCAAGACTA
Statistics
Matches: 74, Mismatches: 14, Indels: 9
0.76 0.14 0.09
Matches are distributed among these distances:
33 1 0.01
34 49 0.66
35 23 0.31
36 1 0.01
ACGTcount: A:0.53, C:0.14, G:0.08, T:0.25
Consensus pattern (33 bp):
TAAATTTCCATTAATAAAACCAAAATAAAGAAC
Found at i:3359211 original size:70 final size:68
Alignment explanation
Indices: 3359082--3359214 Score: 167
Period size: 70 Copynumber: 1.9 Consensus size: 68
3359072 AACTAAATTT
* * * * *
3359082 TCAAAATCAAAACCTAAAATGTGCAAGAATAAAAGCAAACTGAAGACTTAAAATCTCCATTAAAA
1 TCAAAATCAAAAACTAAAATGTCCAAGAATAAAAGAAAAATGAAGACCTAAAATCTCCATTAAAA
3359147 AAA
66 AAA
* * * *
3359150 TCAAAATCAAAGAAGTAAAATTTCCATGAATAAAACGAAAAATGAAGACCTAAAATTTCCATTAA
1 TCAAAATCAAA-AACTAAAATGTCCAAGAATAAAA-GAAAAATGAAGACCTAAAATCTCCATTAA
3359215 TAAATCCAAG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
68 11 0.20
69 18 0.33
70 25 0.46
ACGTcount: A:0.55, C:0.15, G:0.09, T:0.21
Consensus pattern (68 bp):
TCAAAATCAAAAACTAAAATGTCCAAGAATAAAAGAAAAATGAAGACCTAAAATCTCCATTAAAA
AAA
Found at i:3359986 original size:28 final size:28
Alignment explanation
Indices: 3359946--3360011 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
3359936 CAGCAAGTTG
3359946 GAGTTTTGCAATAAGGAATTTCCACCAA
1 GAGTTTTGCAATAAGGAATTTCCACCAA
* *
3359974 GAGTTTTGGAATAAGGAATTTCCTCCAA
1 GAGTTTTGCAATAAGGAATTTCCACCAA
*
3360002 GAATTTTGCA
1 GAGTTTTGCA
3360012 GGAATCATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (28 bp):
GAGTTTTGCAATAAGGAATTTCCACCAA
Found at i:3363503 original size:21 final size:21
Alignment explanation
Indices: 3363477--3363517 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3363467 ATCTGCTCAA
* *
3363477 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
3363498 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
3363518 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:3369416 original size:8 final size:9
Alignment explanation
Indices: 3369389--3369417 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
3369379 ATCCTAGTTC
3369389 AATTGTTAA
1 AATTGTTAA
3369398 AATTGTTAA
1 AATTGTTAA
3369407 AATT-TTAA
1 AATTGTTAA
3369415 AAT
1 AAT
3369418 AGTTTGTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (9 bp):
AATTGTTAA
Found at i:3374295 original size:19 final size:19
Alignment explanation
Indices: 3374271--3374313 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
3374261 TTTGGGTTAA
3374271 AAGTGTTTTTACACTGCAG
1 AAGTGTTTTTACACTGCAG
*
3374290 AAGTGTTTTTCCACTGCAG
1 AAGTGTTTTTACACTGCAG
3374309 AAGTG
1 AAGTG
3374314 ATGAAGAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (19 bp):
AAGTGTTTTTACACTGCAG
Found at i:3379820 original size:22 final size:22
Alignment explanation
Indices: 3379773--3379826 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
3379763 AAAAATAGAT
* ***
3379773 AATAAGATAAACTTTCTTTTTG
1 AATAAGATAAACTTTCATTGAA
3379795 AATAAGATAAACTTTCATTGAA
1 AATAAGATAAACTTTCATTGAA
3379817 AATAA-ATAAA
1 AATAAGATAAA
3379827 TAAAGCTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.35
Consensus pattern (22 bp):
AATAAGATAAACTTTCATTGAA
Found at i:3384922 original size:22 final size:24
Alignment explanation
Indices: 3384897--3384945 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
3384887 CAAATAGGTC
*
3384897 TTTTTG-T-TTAAAAATCCATCAA
1 TTTTTGTTGTTAAAAATCAATCAA
*
3384919 TTTTTGTTGTTAAAAATCAATCCA
1 TTTTTGTTGTTAAAAATCAATCAA
3384943 TTT
1 TTT
3384946 ACATCAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 6 0.26
23 1 0.04
24 16 0.70
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.49
Consensus pattern (24 bp):
TTTTTGTTGTTAAAAATCAATCAA
Found at i:3387724 original size:6 final size:7
Alignment explanation
Indices: 3387706--3387731 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
3387696 ATTAACTTTG
3387706 ATTTTTT
1 ATTTTTT
3387713 ATTTTTT
1 ATTTTTT
3387720 ATTTTTT
1 ATTTTTT
3387727 ATTTT
1 ATTTT
3387732 GTGATGGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:3388149 original size:24 final size:24
Alignment explanation
Indices: 3388122--3388178 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
3388112 TGTTAATCCG
*
3388122 ATTTTAT-TTAAATAAATTATTAAA
1 ATTTTATAATAAA-AAATTATTAAA
3388146 ATTTTATAATAAAAAATTATTAAA
1 ATTTTATAATAAAAAATTATTAAA
*
3388170 ATATTATAA
1 ATTTTATAA
3388179 AATCATGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 26 0.87
25 4 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
ATTTTATAATAAAAAATTATTAAA
Found at i:3388768 original size:10 final size:10
Alignment explanation
Indices: 3388753--3388786 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
3388743 TAATACATAA
3388753 TTTTAATATT
1 TTTTAATATT
*
3388763 TTTTAATTAAT
1 TTTTAA-TATT
3388774 TTTTAATATT
1 TTTTAATATT
3388784 TTT
1 TTT
3388787 ATCTTAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTAATATT
Found at i:3388818 original size:25 final size:25
Alignment explanation
Indices: 3388763--3388818 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
3388753 TTTTAATATT
* **
3388763 TTTTAATTAATTTTTAATATTTTTA
1 TTTTAATTAATTTTTAATAATTACA
* * *
3388788 TCTTAATTATTTTTTTATAATTACA
1 TTTTAATTAATTTTTAATAATTACA
3388813 TTTTAA
1 TTTTAA
3388819 AAATTTTAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTTAATTAATTTTTAATAATTACA
Found at i:3395755 original size:31 final size:31
Alignment explanation
Indices: 3395682--3395766 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 31
3395672 ATAATATAAC
* *
3395682 TTTTGACCCTTGAACTTGGTAAATAAATTCA
1 TTTTGACCCTTGAACTTGATAAATAAATCCA
** * *
3395713 CATTGACCCTTGAACTTGATAACTAGATCCA
1 TTTTGACCCTTGAACTTGATAAATAAATCCA
*
3395744 TTTTGATCCTTGAACTTGA-AAAT
1 TTTTGACCCTTGAACTTGATAAAT
3395767 TCTATATGTT
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
30 3 0.07
31 41 0.93
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (31 bp):
TTTTGACCCTTGAACTTGATAAATAAATCCA
Found at i:3400365 original size:7 final size:7
Alignment explanation
Indices: 3400355--3400381 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
3400345 CAAACATCAA
3400355 AATCCAC
1 AATCCAC
3400362 AATCCAC
1 AATCCAC
3400369 AATCCAC
1 AATCCAC
3400376 AATCCA
1 AATCCA
3400382 AAAATCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (7 bp):
AATCCAC
Found at i:3401840 original size:21 final size:21
Alignment explanation
Indices: 3401814--3401856 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
3401804 GGTTCGCTGT
*
3401814 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
3401835 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
3401856 A
1 A
3401857 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:3401856 original size:16 final size:16
Alignment explanation
Indices: 3401837--3401869 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
3401827 TGTATTGGAT
*
3401837 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
3401853 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
3401869 T
1 T
3401870 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:3401914 original size:45 final size:44
Alignment explanation
Indices: 3401848--3401942 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
3401838 GGATTAGAGG
* *
3401848 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
3401893 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
3401937 TGTAAT
1 TGTAAT
3401943 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:3402125 original size:18 final size:17
Alignment explanation
Indices: 3402104--3402138 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3402094 TTATTATTTA
*
3402104 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
3402122 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
3402139 GGTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:3402132 original size:28 final size:27
Alignment explanation
Indices: 3402062--3402134 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
3402052 TTTATTATCA
*
3402062 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
3402090 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
3402117 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
3402135 AAATGGTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:3402268 original size:18 final size:17
Alignment explanation
Indices: 3402247--3402281 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3402237 ATATTATTAA
*
3402247 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
3402265 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
3402282 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:3402269 original size:143 final size:147
Alignment explanation
Indices: 3402023--3402293 Score: 460
Period size: 143 Copynumber: 1.9 Consensus size: 147
3402013 ATGATTATTG
3402023 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
* *
3402088 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATGGTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATGCTTAATAATTAGC
3402153 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
3402172 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
*
3402234 ATAA-TATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATGCTTAATAATTA
3402294 ATATTCTTAT
Statistics
Matches: 118, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
143 53 0.45
144 36 0.31
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATGCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:3407263 original size:16 final size:16
Alignment explanation
Indices: 3407242--3407291 Score: 82
Period size: 16 Copynumber: 3.1 Consensus size: 16
3407232 GTTCGCTGTT
*
3407242 ATGGAATAGAGGTGTA
1 ATGGAATAGAGGCGTA
*
3407258 ATGGAATAGATGCGTA
1 ATGGAATAGAGGCGTA
3407274 ATGGAATAGAGGCGTA
1 ATGGAATAGAGGCGTA
3407290 AT
1 AT
3407292 AGGTAATTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.38, C:0.04, G:0.34, T:0.24
Consensus pattern (16 bp):
ATGGAATAGAGGCGTA
Found at i:3407326 original size:46 final size:44
Alignment explanation
Indices: 3407273--3407365 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
3407263 ATAGATGCGT
* *
3407273 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAAT-GATAATTC-TGTGTTTGGTTGAATGG
*
3407319 AATGGAATAGAGGCGTAATGATATTTCTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATGATAATTCTGTGTTTGGTTGAATGG
3407363 AAT
1 AAT
3407366 AGATGTGTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 19 0.43
45 6 0.14
46 19 0.43
ACGTcount: A:0.29, C:0.04, G:0.30, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATGATAATTCTGTGTTTGGTTGAATGG
Found at i:3407542 original size:16 final size:16
Alignment explanation
Indices: 3407523--3407556 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
3407513 AATTATTATT
3407523 AAATATAATTTAATAA
1 AAATATAATTTAATAA
3407539 AAATATAATTTAATAA
1 AAATATAATTTAATAA
3407555 AA
1 AA
3407557 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATATAATTTAATAA
Found at i:3407553 original size:26 final size:26
Alignment explanation
Indices: 3407482--3407558 Score: 66
Period size: 26 Copynumber: 3.0 Consensus size: 26
3407472 TATTAATATA
* *
3407482 AATAATAA-ATAATTTAATCATATTTT
1 AATAAAAATATAATTTAAT-ATAATTT
* * * * *
3407508 AACATAATTATTATTAAATATAATTT
1 AATAAAAATATAATTTAATATAATTT
*
3407534 AATAAAAATATAATTTAATAAAATT
1 AATAAAAATATAATTTAATATAATT
3407559 CTTAATATTA
Statistics
Matches: 37, Mismatches: 13, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
26 29 0.78
27 8 0.22
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.43
Consensus pattern (26 bp):
AATAAAAATATAATTTAATATAATTT
Found at i:3407625 original size:38 final size:36
Alignment explanation
Indices: 3407538--3407633 Score: 88
Period size: 38 Copynumber: 2.6 Consensus size: 36
3407528 TAATTTAATA
*
3407538 AAAATATAATTTAATAAAATTCTTAATATTAAATATT
1 AAAATATAATTTAATAAAA-TCATAATATTAAATATT
***
3407575 CTTATATGAATTTAATAAAATCATAATA-TATAATACTAT
1 AAAATAT-AATTTAATAAAATCATAATATTA-AATA-T-T
3407614 AAAATATAATTTTAA-AAAAT
1 AAAATATAA-TTTAATAAAAT
3407634 AAAAAAATCA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
36 2 0.04
37 15 0.32
38 20 0.43
39 10 0.21
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (36 bp):
AAAATATAATTTAATAAAATCATAATATTAAATATT
Found at i:3410418 original size:19 final size:19
Alignment explanation
Indices: 3410391--3410427 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
3410381 GATTTTAAAC
3410391 AATCAGAGTATTTCACCAA
1 AATCAGAGTATTTCACCAA
*
3410410 AATCCGAGTATTTCACCA
1 AATCAGAGTATTTCACCA
3410428 CATGGATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (19 bp):
AATCAGAGTATTTCACCAA
Found at i:3411318 original size:12 final size:11
Alignment explanation
Indices: 3411289--3411319 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
3411279 AAGGGGTGGA
3411289 AAAAGAGAAAT
1 AAAAGAGAAAT
3411300 AAAAGAGAAAT
1 AAAAGAGAAAT
3411311 AAACAGAGA
1 AAA-AGAGA
3411320 TAATCCATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.71, C:0.03, G:0.19, T:0.06
Consensus pattern (11 bp):
AAAAGAGAAAT
Found at i:3426552 original size:19 final size:19
Alignment explanation
Indices: 3426530--3426568 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
3426520 TTTCTAAAAT
3426530 AAATTTCATGCAATATATA
1 AAATTTCATGCAATATATA
* **
3426549 AAATTTGATTTAATATATA
1 AAATTTCATGCAATATATA
3426568 A
1 A
3426569 CACGTTTTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
AAATTTCATGCAATATATA
Found at i:3432590 original size:27 final size:27
Alignment explanation
Indices: 3432556--3432619 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
3432546 AACAAAACAG
*
3432556 AAAG-AAACAATATAAATCAAGAAG-C
1 AAAGCAAACAATATAAAGCAAGAAGCC
* *
3432581 AAATGCAAACATTATAAAGCAAGTAGCC
1 AAA-GCAAACAATATAAAGCAAGAAGCC
3432609 AAAGC-AACAAT
1 AAAGCAAACAAT
3432620 GAAATGGAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
25 3 0.09
26 6 0.19
27 19 0.59
28 4 0.12
ACGTcount: A:0.58, C:0.16, G:0.12, T:0.14
Consensus pattern (27 bp):
AAAGCAAACAATATAAAGCAAGAAGCC
Found at i:3436241 original size:21 final size:21
Alignment explanation
Indices: 3436200--3436242 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
3436190 ATTTCAAACT
* *
3436200 CTCAAACCTTTTTACTTTTCC
1 CTCAAAACTTTTTACTATTCC
3436221 CTCAAAAC-TTTTACTCATTCC
1 CTCAAAACTTTTTACT-ATTCC
3436242 C
1 C
3436243 ACTTTCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.23, C:0.35, G:0.00, T:0.42
Consensus pattern (21 bp):
CTCAAAACTTTTTACTATTCC
Found at i:3441755 original size:23 final size:24
Alignment explanation
Indices: 3441708--3441753 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
3441698 GAAATATATC
3441708 AAATATATATATTTTTTATTTTTA
1 AAATATATATATTTTTTATTTTTA
3441732 AAATATA-ATAGTTTTTTATTTT
1 AAATATATATA-TTTTTTATTTT
3441754 AAGTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATATATATTTTTTATTTTTA
Found at i:3441883 original size:59 final size:59
Alignment explanation
Indices: 3441820--3441989 Score: 295
Period size: 59 Copynumber: 2.9 Consensus size: 59
3441810 TCAAGTTTGT
* * *
3441820 TTTACTAATCAAATGCTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAG
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
*
3441879 TTTACTAATCAAATGTTAGAATTTATTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
*
3441938 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
3441990 AATAATTTGA
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 105 1.00
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:3442021 original size:16 final size:16
Alignment explanation
Indices: 3442000--3442041 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
3441990 AATAATTTGA
*
3442000 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
*
3442016 TAATTTTAATAATAAT
1 TAATTTTAATAACAAT
*
3442032 TAGTTTTAAT
1 TAATTTTAAT
3442042 TTTATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:3444096 original size:16 final size:16
Alignment explanation
Indices: 3444075--3444116 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
3444065 AAAAGCAACG
*
3444075 TATATACATACATACA
1 TATATACATACACACA
**
3444091 TATATATTTACACACA
1 TATATACATACACACA
3444107 TATATACATA
1 TATATACATA
3444117 ATCATGATTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.36
Consensus pattern (16 bp):
TATATACATACACACA
Found at i:3450468 original size:27 final size:27
Alignment explanation
Indices: 3450438--3450491 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
3450428 ATGGTGGGAT
3450438 GGATGGGAATAAATATCCCAATTTCTA
1 GGATGGGAATAAATATCCCAATTTCTA
3450465 GGATGGGAATAAATATCCCAATTTCTA
1 GGATGGGAATAAATATCCCAATTTCTA
3450492 ACCCTAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (27 bp):
GGATGGGAATAAATATCCCAATTTCTA
Found at i:3458683 original size:17 final size:16
Alignment explanation
Indices: 3458654--3458688 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
3458644 TGACAGAATT
*
3458654 AAAAATATTTTATATA
1 AAAAATATATTATATA
3458670 AAAAATTATATTATATA
1 AAAAA-TATATTATATA
3458687 AA
1 AA
3458689 TATCCATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAAATATATTATATA
Found at i:3459819 original size:18 final size:18
Alignment explanation
Indices: 3459779--3459829 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
3459769 TAATCCAAGA
*
3459779 ATATAA-GTTATAATATG
1 ATATAATGTAATAATATG
*
3459796 ATTATAATGTAATATTATG
1 A-TATAATGTAATAATATG
3459815 ATATAAT-TAA-AATAT
1 ATATAATGTAATAATAT
3459830 ATTATAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 4 0.14
17 4 0.14
18 11 0.38
19 10 0.34
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (18 bp):
ATATAATGTAATAATATG
Found at i:3459925 original size:13 final size:14
Alignment explanation
Indices: 3459891--3459919 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3459881 TGAATATTTG
3459891 AAAATTTATATAAT
1 AAAATTTATATAAT
3459905 AAAATTTAT-TAAT
1 AAAATTTATATAAT
3459918 AA
1 AA
3459920 TTTTTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATTTATATAAT
Found at i:3477490 original size:36 final size:37
Alignment explanation
Indices: 3477448--3477524 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 37
3477438 TTAGAAATTT
*
3477448 AATATTTATATAATAAATATTTATTTTTTA-TTTTAA
1 AATATTTATAAAATAAATATTTATTTTTTATTTTTAA
* ** *
3477484 AATATTTTTAAAATACTTTTTTATTTTTTATTTTTAA
1 AATATTTATAAAATAAATATTTATTTTTTATTTTTAA
3477521 AATA
1 AATA
3477525 CATTTTTGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
36 25 0.71
37 10 0.29
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (37 bp):
AATATTTATAAAATAAATATTTATTTTTTATTTTTAA
Found at i:3489484 original size:52 final size:52
Alignment explanation
Indices: 3489422--3489526 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
3489412 TGGTATCTAG
3489422 TTTTTATCAAATAAATTTATGTTTTTAGGGTTTTAATTCTACTAATGGTTCA
1 TTTTTATCAAATAAATTTATGTTTTTAGGGTTTTAATTCTACTAATGGTTCA
3489474 TTTTTATCAAATAAATTTATGTTTTTAGGGTTTTAATTCTACTAATGGTTCA
1 TTTTTATCAAATAAATTTATGTTTTTAGGGTTTTAATTCTACTAATGGTTCA
3489526 T
1 T
3489527 ACTTTCCATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.52
Consensus pattern (52 bp):
TTTTTATCAAATAAATTTATGTTTTTAGGGTTTTAATTCTACTAATGGTTCA
Found at i:3494849 original size:22 final size:22
Alignment explanation
Indices: 3494813--3494873 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
3494803 GCCCGGCCTG
* *
3494813 TTTTTAATTACAATTAAAATTAT
1 TTTTTAA-TAAAATTAAAATTAA
3494836 TTTTTAATAAAATTAAAATTAA
1 TTTTTAATAAAATTAAAATTAA
* *
3494858 TTGTTATTAAAATTAA
1 TTTTTAATAAAATTAA
3494874 TTGTTACTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 27 0.79
23 7 0.21
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTTTAATAAAATTAAAATTAA
Found at i:3494866 original size:16 final size:16
Alignment explanation
Indices: 3494847--3494888 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
3494837 TTTTAATAAA
3494847 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
3494863 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
*
3494879 ACTAAAATTA
1 ATTAAAATTA
3494889 TTAAATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:3494967 original size:59 final size:59
Alignment explanation
Indices: 3494899--3495068 Score: 304
Period size: 59 Copynumber: 2.9 Consensus size: 59
3494889 TTAAATTATT
* *
3494899 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAACTTATCA
*
3494958 AATTATTAATTGTATTAATTGTTGTAATAAATTCTAACATTTGATTAGTAAACTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAACTTATCA
*
3495017 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
3495069 ACAAACTTGA
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 106 1.00
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAACTTATCA
Found at i:3495164 original size:24 final size:24
Alignment explanation
Indices: 3495135--3495193 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
3495125 AAATAAACTT
3495135 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
3495159 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
3495183 AAAATAAAAAA
1 AAAATAAAAAA
3495194 ATATATTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.32
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:3498943 original size:15 final size:13
Alignment explanation
Indices: 3498905--3498943 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
3498895 CAATGAGTGT
*
3498905 CCTTGGACATATG
1 CCTTGGACATACG
3498918 CCTTGGACATACG
1 CCTTGGACATACG
3498931 CCTATGTGACATA
1 CCT-TG-GACATA
3498944 AAAATGTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 15 0.65
14 2 0.09
15 6 0.26
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (13 bp):
CCTTGGACATACG
Found at i:3502238 original size:30 final size:30
Alignment explanation
Indices: 3502204--3502286 Score: 84
Period size: 29 Copynumber: 2.8 Consensus size: 30
3502194 ATTGAACTTT
* *
3502204 AATTATTAAATCAAAAAAGTAATGAGATTA
1 AATTATTAAATCAAAAAAGTAAAGAGACTA
*
3502234 AATTATTGAAAT--TAAAAGTAAAGAGACTA
1 AATTATT-AAATCAAAAAAGTAAAGAGACTA
3502263 AATT-TTAAAGTCCAAAAAA-TAAAG
1 AATTATTAAA-T-CAAAAAAGTAAAG
3502287 GGGTTGGGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
27 3 0.07
28 3 0.07
29 18 0.41
30 12 0.27
31 8 0.18
ACGTcount: A:0.57, C:0.05, G:0.11, T:0.28
Consensus pattern (30 bp):
AATTATTAAATCAAAAAAGTAAAGAGACTA
Found at i:3506173 original size:39 final size:41
Alignment explanation
Indices: 3506094--3506173 Score: 101
Period size: 39 Copynumber: 2.0 Consensus size: 41
3506084 TTTATAAACT
* * *
3506094 TAAACATTAATTATTTAATTATATTTTTTATTACAATAAAA
1 TAAACATTAAATATTCAATTATATTTTTTATCACAATAAAA
* *
3506135 TAAA-ATTAAATATTCAATTCTA-TTTTTATCACAGTAAAA
1 TAAACATTAAATATTCAATTATATTTTTTATCACAATAAAA
3506174 CATTAATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 15 0.44
40 15 0.44
41 4 0.12
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.45
Consensus pattern (41 bp):
TAAACATTAAATATTCAATTATATTTTTTATCACAATAAAA
Found at i:3506715 original size:13 final size:14
Alignment explanation
Indices: 3506691--3506719 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
3506681 ATTAATTAAT
3506691 TTAATAAAAAATAA
1 TTAATAAAAAATAA
3506705 TTAAT-AAAAATAA
1 TTAATAAAAAATAA
3506718 TT
1 TT
3506720 GATTAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TTAATAAAAAATAA
Found at i:3506737 original size:24 final size:24
Alignment explanation
Indices: 3506700--3506747 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
3506690 TTTAATAAAA
3506700 AATAATTAATAAAAATAATTGATT
1 AATAATTAATAAAAATAATTGATT
*
3506724 AATAATTGAA-AAAAATATTTGATT
1 AATAATT-AATAAAAATAATTGATT
3506748 CAGATAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (24 bp):
AATAATTAATAAAAATAATTGATT
Found at i:3511653 original size:16 final size:18
Alignment explanation
Indices: 3511632--3511669 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3511622 TCGGGGGAGA
3511632 GAAT-AAACATTT-GAAT
1 GAATAAAACATTTGGAAT
*
3511648 GAATAAAATATTTGGAAT
1 GAATAAAACATTTGGAAT
3511666 GAAT
1 GAAT
3511670 TATTATTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 7 0.37
18 8 0.42
ACGTcount: A:0.50, C:0.03, G:0.16, T:0.32
Consensus pattern (18 bp):
GAATAAAACATTTGGAAT
Found at i:3516922 original size:28 final size:28
Alignment explanation
Indices: 3516889--3516942 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
3516879 ACCATTTTAA
3516889 AATAATT-CATA-TAAATTATAAATTTTCG
1 AATAATTACATATTAAA--ATAAATTTTCG
3516917 AATAATTACATATTAAAATAAATTTT
1 AATAATTACATATTAAAATAAATTTT
3516943 AAAATCATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 16 0.67
29 4 0.17
30 4 0.17
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (28 bp):
AATAATTACATATTAAAATAAATTTTCG
Found at i:3524130 original size:19 final size:19
Alignment explanation
Indices: 3524106--3524148 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
3524096 TGTTCTTCGT
3524106 CACTTCTGCAGTGGAAAAA
1 CACTTCTGCAGTGGAAAAA
*
3524125 CACTTCTGCAGTGTAAAAA
1 CACTTCTGCAGTGGAAAAA
3524144 CACTT
1 CACTT
3524149 TTAACCCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (19 bp):
CACTTCTGCAGTGGAAAAA
Found at i:3526506 original size:12 final size:11
Alignment explanation
Indices: 3526468--3526523 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
3526458 CATAAATACA
*
3526468 ATAATAATAAT
1 ATAATAAAAAT
**
3526479 ATAATAATTAT
1 ATAATAAAAAT
3526490 AATAATAAACAAT
1 -ATAATAAA-AAT
3526503 ATAATAAAAAT
1 ATAATAAAAAT
3526514 A-AACTAAAAA
1 ATAA-TAAAAA
3526524 AACAAATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
10 2 0.05
11 20 0.51
12 15 0.38
13 2 0.05
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (11 bp):
ATAATAAAAAT
Found at i:3532696 original size:17 final size:18
Alignment explanation
Indices: 3532657--3532696 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
3532647 TAATATTTTT
*
3532657 ACCTTTCATATCTATTGA
1 ACCTTTCATATCCATTGA
*
3532675 TCCTTTCA-ATCCATTGA
1 ACCTTTCATATCCATTGA
3532692 ACCTT
1 ACCTT
3532697 ATGCTCAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.25, C:0.28, G:0.05, T:0.42
Consensus pattern (18 bp):
ACCTTTCATATCCATTGA
Found at i:3535565 original size:15 final size:16
Alignment explanation
Indices: 3535530--3535564 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
3535520 TCATTTTTTG
3535530 TTTTATTCATGGAAAT
1 TTTTATTCATGGAAAT
3535546 TTTTATTCATGGAAAT
1 TTTTATTCATGGAAAT
3535562 TTT
1 TTT
3535565 ACTTCTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.54
Consensus pattern (16 bp):
TTTTATTCATGGAAAT
Found at i:3537586 original size:23 final size:23
Alignment explanation
Indices: 3537538--3537590 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
3537528 AACAACTCTA
*
3537538 AATTTTTCAACAGAAATGAATAT
1 AATTTTTCAACAGAAATCAATAT
3537561 AATTTTT-AACAGAATGATCAAT-T
1 AATTTTTCAACAGAA--ATCAATAT
3537584 AATTTTT
1 AATTTTT
3537591 TTTATCAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 7 0.26
23 15 0.56
24 5 0.19
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (23 bp):
AATTTTTCAACAGAAATCAATAT
Found at i:3537590 original size:24 final size:23
Alignment explanation
Indices: 3537538--3537591 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
3537528 AACAACTCTA
* *
3537538 AATTTTTCAACAGAAATGAATAT
1 AATTTTTTAACAGAAATCAATAT
3537561 AA-TTTTTAACAGAATGATCAAT-T
1 AATTTTTTAACAGAA--ATCAATAT
3537584 AATTTTTT
1 AATTTTTT
3537592 TTATCAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 11 0.42
23 5 0.19
24 10 0.38
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (23 bp):
AATTTTTTAACAGAAATCAATAT
Found at i:3546660 original size:13 final size:12
Alignment explanation
Indices: 3546626--3546663 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
3546616 GTACCAAATA
3546626 TTTATATTATTT
1 TTTATATTATTT
*
3546638 TTT-TAGTATTT
1 TTTATATTATTT
3546649 TCTTATATTATTT
1 T-TTATATTATTT
3546662 TT
1 TT
3546664 GAATATAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 8 0.36
12 6 0.27
13 8 0.36
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTATATTATTT
Found at i:3547523 original size:18 final size:18
Alignment explanation
Indices: 3547469--3547516 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
3547459 TAAATATATG
3547469 TATTTTTTATTTATAATA
1 TATTTTTTATTTATAATA
3547487 TCATTTTTTATTGTTATAAT-
1 T-ATTTTTTA-T-TTATAATA
3547507 TATTTTTTAT
1 TATTTTTTAT
3547517 CTCATAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 2 0.07
19 16 0.59
20 2 0.07
21 7 0.26
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TATTTTTTATTTATAATA
Found at i:3550636 original size:34 final size:34
Alignment explanation
Indices: 3550580--3550671 Score: 87
Period size: 35 Copynumber: 2.6 Consensus size: 34
3550570 TAGTCTTGAC
* * *
3550580 TTGGCTTTATTAATGGAAAATTTAGATC-TTCATTT
1 TTGGTTTTATTAATAG-AAATTTACATCTTTCA-TT
* * *
3550615 TTGGTTTTATTCATAGAAATTTTACTTCTTTGATT
1 TTGGTTTTATTAATAGAAA-TTTACATCTTTCATT
*
3550650 TTGGTTTTATTAATGGAAATTT
1 TTGGTTTTATTAATAGAAATTT
3550672 TAAGTCTTCA
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
34 6 0.13
35 38 0.81
36 3 0.06
ACGTcount: A:0.26, C:0.07, G:0.14, T:0.53
Consensus pattern (34 bp):
TTGGTTTTATTAATAGAAATTTACATCTTTCATT
Found at i:3552238 original size:21 final size:24
Alignment explanation
Indices: 3552209--3552272 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 24
3552199 ATGCAATGTA
3552209 TATATTTATTTATTTTAAA-C-TT-
1 TATA-TTATTTATTTTAAATCGTTC
3552231 TATATTATTTATTTTAAATCGTTC
1 TATATTATTTATTTTAAATCGTTC
*
3552255 TATTACTATTTATTTTAA
1 TA-TATTATTTATTTTAA
3552273 GCCTTTTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
21 14 0.38
22 5 0.14
23 2 0.05
24 2 0.05
25 14 0.38
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (24 bp):
TATATTATTTATTTTAAATCGTTC
Found at i:3552264 original size:25 final size:21
Alignment explanation
Indices: 3552215--3552272 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 21
3552205 TGTATATATT
*
3552215 TATTTATTTTAAACTTTATAT
1 TATTTATTTTAAACTTTATAC
3552236 TATTTATTTTAAATCGTTCTATTAC
1 TATTTATTTTAAA-C-TT-TA-TAC
3552261 TATTTATTTTAA
1 TATTTATTTTAA
3552273 GCCTTTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 13 0.41
22 1 0.03
23 2 0.06
24 2 0.06
25 14 0.44
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTTATTTTAAACTTTATAC
Found at i:3556727 original size:27 final size:26
Alignment explanation
Indices: 3556660--3556728 Score: 81
Period size: 28 Copynumber: 2.7 Consensus size: 26
3556650 GTTTAGATTC
3556660 AAAAAAA--AAATCAAAATAAAAAAA
1 AAAAAAATCAAATCAAAATAAAAAAA
*
3556684 AGAAAAATCAAAGTCAAAAGTAAAAAAA
1 AAAAAAATCAAA-TCAAAA-TAAAAAAA
3556712 AAAAGAAATC-AATCAAA
1 AAAA-AAATCAAATCAAA
3556729 GTCAAAACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
24 6 0.16
26 3 0.08
27 11 0.29
28 13 0.34
29 5 0.13
ACGTcount: A:0.77, C:0.07, G:0.06, T:0.10
Consensus pattern (26 bp):
AAAAAAATCAAATCAAAATAAAAAAA
Found at i:3557133 original size:20 final size:20
Alignment explanation
Indices: 3557110--3557149 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3557100 TGATGAAGTT
3557110 AAAA-AAAAGAATGAAAAATG
1 AAAATAAAA-AATGAAAAATG
*
3557130 AAAATGAAAAATGAAAAATG
1 AAAATAAAAAATGAAAAATG
3557150 GAGAGGCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.12
Consensus pattern (20 bp):
AAAATAAAAAATGAAAAATG
Found at i:3557135 original size:6 final size:7
Alignment explanation
Indices: 3557119--3557149 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
3557109 TAAAAAAAAG
3557119 AATGAAA
1 AATGAAA
3557126 AATG-AA
1 AATGAAA
3557132 AATGAAA
1 AATGAAA
3557139 AATGAAA
1 AATGAAA
3557146 AATG
1 AATG
3557150 GAGAGGCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (7 bp):
AATGAAA
Found at i:3557135 original size:13 final size:13
Alignment explanation
Indices: 3557119--3557146 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3557109 TAAAAAAAAG
3557119 AATGAAAAATGAA
1 AATGAAAAATGAA
3557132 AATGAAAAATGAA
1 AATGAAAAATGAA
3557145 AA
1 AA
3557147 ATGGAGAGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AATGAAAAATGAA
Found at i:3558399 original size:42 final size:43
Alignment explanation
Indices: 3558350--3558472 Score: 176
Period size: 43 Copynumber: 2.9 Consensus size: 43
3558340 AATATTGCGG
* *
3558350 ATCTTATCTTCCCCAGGAGTAAGGAAATAGATCTAAGC-ACGA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGACGA
* *
3558392 ATCTTATCTTCCCCAGGAGTAGGGAAGCAGATCTAAGCGGCGA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGACGA
* * *
3558435 ATCTTATCGTCCCCAGGAGTAGGGAAACAAATTTAAGC
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGC
3558473 CACAAGTCTT
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 35 0.49
43 37 0.51
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.23
Consensus pattern (43 bp):
ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGACGA
Found at i:3558483 original size:43 final size:43
Alignment explanation
Indices: 3558350--3558489 Score: 169
Period size: 43 Copynumber: 3.3 Consensus size: 43
3558340 AATATTGCGG
* * *
3558350 ATCTTATCTTCCCCAGGAGTAAGGAAATAGATCTAAG-CACGA
1 ATCTTATCGTCCCCAGGAGTAGGGAAACAGATCTAAGCCACGA
* * **
3558392 ATCTTATCTTCCCCAGGAGTAGGGAAGCAGATCTAAGCGGCGA
1 ATCTTATCGTCCCCAGGAGTAGGGAAACAGATCTAAGCCACGA
* *
3558435 ATCTTATCGTCCCCAGGAGTAGGGAAACAAATTTAAGCCAC-A
1 ATCTTATCGTCCCCAGGAGTAGGGAAACAGATCTAAGCCACGA
3558477 AGTCTTAT-GTCCC
1 A-TCTTATCGTCCC
3558490 TGACCAACAG
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 41 0.48
43 44 0.52
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (43 bp):
ATCTTATCGTCCCCAGGAGTAGGGAAACAGATCTAAGCCACGA
Found at i:3558773 original size:128 final size:130
Alignment explanation
Indices: 3558608--3558852 Score: 361
Period size: 129 Copynumber: 1.9 Consensus size: 130
3558598 CGAAATCGAT
* * **
3558608 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATT-AAACAACAGATCTTATCTCCC-TAAGCAG
1 AATCCTATCTCCCTAAAATTACAGTGGAGCGGATTAAAACAACAGATCTTATC-CCCTTAAGCAG
* * *
3558671 TAGTGGAGCAGATCGCATCAAGTTTTATCTCCCT-AAGTAGTAGTGGAGCAGATGAAAAAAAAAC
65 TAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTAGCAGCGGAGCAGATGAAAAAAAAAC
3558735 C
130 C
*
3558736 AATCCTATCTCCCTAAAATTACAGTGGAGCGGATTAAAACAATAGATCTTATCCCCTTAAGCAGT
1 AATCCTATCTCCCTAAAATTACAGTGGAGCGGATTAAAACAACAGATCTTATCCCCTTAAGCAGT
** *
3558801 AGTGGAGCAGATCGCATCGGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGA
66 AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTAGCAGCGGAGCAGA
3558853 CTGAGCGAAC
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
128 34 0.33
129 54 0.52
130 15 0.15
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (130 bp):
AATCCTATCTCCCTAAAATTACAGTGGAGCGGATTAAAACAACAGATCTTATCCCCTTAAGCAGT
AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTAGCAGCGGAGCAGATGAAAAAAAAACC
Found at i:3558871 original size:84 final size:83
Alignment explanation
Indices: 3558782--3559064 Score: 317
Period size: 84 Copynumber: 3.4 Consensus size: 83
3558772 AAACAATAGA
*
3558782 TCTTATC-CCCTTAAGCAGTAGTGGAGCAGATCGCATCGGGTCTTATCTCCCTGAAGTTGCAGCG
1 TCTTATCTCCC-TAAGCAGTAGTGGAGCAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCG
*
3558846 GAGCAGACTGAGCGAACAAG
65 GAGCAGACTGAG-AAACAAG
* * * * * *
3558866 TCTTATCTCCCTAAGCAGTAGT-GAGCAGA-CGAAAAAACCA-ATCATATCTTCCTGAAATTGCA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG----CATCAGGTCTTATCTCCCTGAAGTTGCA
* * *
3558928 GTGGAGCGGA-TTA-AAACAATAG
62 GCGGAGCAGACTGAGAAAC-A-AG
* *
3558950 ATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCG
3559015 GAGCAGACTGAGAAAACAAG
65 GAGCAGACTGAG-AAACAAG
3559035 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
3559065 CGGAAAAAAA
Statistics
Matches: 161, Mismatches: 24, Indels: 28
0.76 0.11 0.13
Matches are distributed among these distances:
82 5 0.03
83 11 0.07
84 76 0.47
85 54 0.34
86 9 0.06
87 6 0.04
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (83 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCGG
AGCAGACTGAGAAACAAG
Found at i:3558872 original size:44 final size:44
Alignment explanation
Indices: 3558821--3559046 Score: 132
Period size: 44 Copynumber: 5.3 Consensus size: 44
3558811 ATCGCATCGG
**
3558821 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGCGAACAA
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAAACAA
** * * *
3558865 GTCTTATCTCCCT-AAGCAGTAG-TGAGCAGAC-GAAAAAACCAA
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAAA-CAA
* * * * * *
3558907 -TCATATCTTCCTGAAATTGCAGTGGAGCGGA-T--TAAAACAATA
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAAAC-A-A
**** * * * * * *
3558949 GATCTTATCTCCCT-AAGCAATAGTGGAGTAGA-T-CG-CATCAG
1 G-TCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAAACAA
3558990 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAAACAA
1 GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAAACAA
3559034 GTCTTATCTCCCT
1 GTCTTATCTCCCT
3559047 AAGCAGTAGT
Statistics
Matches: 130, Mismatches: 39, Indels: 26
0.67 0.20 0.13
Matches are distributed among these distances:
40 13 0.10
41 32 0.25
42 19 0.15
43 27 0.21
44 39 0.30
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (44 bp):
GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAAACAA
Found at i:3558932 original size:169 final size:171
Alignment explanation
Indices: 3558518--3559219 Score: 731
Period size: 169 Copynumber: 4.1 Consensus size: 171
3558508 TTTGGAAATT
* * * ** **
3558518 ACAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACCG-AAGAAGCAAATTTTATCTCCCTGAGG
1 ACAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAAACCAATCCTATCTCCCTGAAA
* * * * * * *** * **
3558582 TTACAGTGGAGCAGATCGAAATCGATA-ATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAA
65 TTGCAGTGGAGCGGAT-TAAAACAATAGATCTTATCTCCCT-AAGCAATAGTGGAGCAGA-T-CG
* * ** * * * *
3558646 CAACAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-T-CG-CA
126 CATCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAA
* * * * *
3558688 TCAAGTTTTATCTCCCTAAGTAGTAGTGGAGCAGATGAAAAAAAAACCAATCCTATCTCCCTAAA
1 ACAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACG--AAAAAAACCAATCCTATCTCCCTGAA
* *
3558753 ATTACAGTGGAGCGGATTAAAACAATAGATCTTATC-CCCTTAAGCAGTAGTGGAGCAGATCGCA
64 ATTGCAGTGGAGCGGATTAAAACAATAGATCTTATCTCCC-TAAGCAATAGTGGAGCAGATCGCA
* **
3558817 TCGGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGCGA
128 TCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAA
* *
3558861 ACAAGTCTTATCTCCCTAAGCAGTAGT-GAGCAGACG-AAAAAACCAATCATATCTTCCTGAAAT
1 ACAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAAAAACCAATCCTATCTCCCTGAAAT
*
3558924 TGCAGTGGAGCGGATTAAAACAATAGATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGCATCA
66 TGCAGTGGAGCGGATTAAAACAATAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCA
3558989 GGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAA
131 GGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAA
*
3559030 ACAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGGAAAAAAAACCAATCCTATCTCCCTGAG
1 ACAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAC-G-AAAAAAACCAATCCTATCTCCCTGAA
* * * * *
3559095 ATTGCAATGGAACGGATTAAAACCACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCAA
64 ATTGCAGTGGAGCGGATTAAAACAATAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCAT
* * * * ** * *
3559160 CAAGTCTTTTCCCCCTGAAATCACAGTGGGGCAGACTGA-AGAA
129 CAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGA-AA
* *
3559203 GCAAATCTTATCTCCCT
1 ACAAGTCTTATCTCCCT
3559220 GAGGTTGTAG
Statistics
Matches: 454, Mismatches: 63, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
169 164 0.36
170 58 0.13
171 27 0.06
172 51 0.11
173 154 0.34
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.24
Consensus pattern (171 bp):
ACAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAAAAACCAATCCTATCTCCCTGAAAT
TGCAGTGGAGCGGATTAAAACAATAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCA
GGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAA
Found at i:3558934 original size:85 final size:85
Alignment explanation
Indices: 3558518--3559153 Score: 315
Period size: 84 Copynumber: 7.4 Consensus size: 85
3558508 TTTGGAAATT
* * * ** **
3558518 ACAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACCGAAGAAGCAAATTTTATCTCCCTGAGGT
1 ACAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAACCAATCATATCTCCCTGAAAT
* *
3558583 TACAGTGGAGCAGA-TCGA-AA
65 TGCAGCGGAGCAGACT-GAGAA
* * * ** * ** * *
3558603 TCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAACAA-CAGATCTTATCTCCCT-A
1 AC-A-AGTCTTATCTCCCT-AAGCAGTAGTGGAGCAGACGAAAAAACCA-ATCATATCTCCCTGA
*** * * * *
3558666 AGCAGTAGTGGAGCAGA-T-CGCA
62 AATTGCAGCGGAGCAGACTGAGAA
* * * * * *
3558688 TCAAGTTTTATCTCCCTAAGTAGTAGTGGAGCAGATGAAAAAAAAACCAATCCTATCTCCCTAAA
1 ACAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACG---AAAAAACCAATCATATCTCCCTGAA
* * * *
3558753 ATTACAGTGGAGCGGA-TTA-AA
63 ATTGCAGCGGAGCAGACTGAGAA
* * *** *
3558774 ACAATAGATCTTATC-CCCTTAAGCAGTAGTGGAGCAGATCG---CATCGGGTCTTATCTCCCTG
1 AC-A-AG-TCTTATCTCCC-TAAGCAGTAGTGGAGCAGA-CGAAAAAACCAATCATATCTCCCTG
* *
3558835 AAGTTGCAGCGGAGCAGACTGAGCGA
61 AAATTGCAGCGGAGCAGACTGAG-AA
*
3558861 ACAAGTCTTATCTCCCTAAGCAGTAGT-GAGCAGACGAAAAAACCAATCATATCTTCCTGAAATT
1 ACAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAAAACCAATCATATCTCCCTGAAATT
* * *
3558925 GCAGTGGAGCGGA-TTA-AA
66 GCAGCGGAGCAGACTGAGAA
* * * * * *
3558943 ACAATAGATCTTATCTCCCTAAGCAATAGTGGAGTAGATCG----CATCAGGTCTTATCTCCCTG
1 AC-A-AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAAAACCA-ATCATATCTCCCTG
*
3559004 AAGTTGCAGCGGAGCAGACTGAGAAA
61 AAATTGCAGCGGAGCAGACTGAG-AA
* *
3559030 ACAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGGAAAAAAAACCAATCCTATCTCCCTGAG
1 ACAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAC-G--AAAAAACCAATCATATCTCCCTGAA
** * * *
3559095 ATTGCAATGGAACGGA-TTA-AA
63 ATTGCAGCGGAGCAGACTGAGAA
*
3559116 ACCACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGA
1 A-CA-AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
3559154 TCGCAACAAG
Statistics
Matches: 419, Mismatches: 90, Indels: 80
0.71 0.15 0.14
Matches are distributed among these distances:
82 22 0.05
83 23 0.05
84 105 0.25
85 81 0.19
86 44 0.11
87 39 0.09
88 24 0.06
89 77 0.18
90 4 0.01
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (85 bp):
ACAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAAAACCAATCATATCTCCCTGAAATT
GCAGCGGAGCAGACTGAGAA
Found at i:3559178 original size:173 final size:173
Alignment explanation
Indices: 3558689--3559219 Score: 741
Period size: 173 Copynumber: 3.1 Consensus size: 173
3558679 CAGATCGCAT
* * * * *
3558689 CAAGTTTTATCTCCCTAAGTAGTAGTGGAGCAGATGAAAAAAAAACCAATCCTATCTCCCTAAAA
1 CAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGGAAAAAAAACCAATCCTATCTCCCTGAAA
* *
3558754 TTACAGTGGAGCGGATTAAAACAATAGATCTTATC-CCCTTAAGCAGTAGTGGAGCAGATCGCAT
66 TTGCAGTGGAGCGGATTAAAACAATAGATCTTATCTCCC-TAAGCAATAGTGGAGCAGATCGCAT
* **
3558818 CGGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGCGAA
130 CAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAAA
* *
3558862 CAAGTCTTATCTCCCTAAGCAGTAGT-GAGCAGAC-G--AAAAAACCAATCATATCTTCCTGAAA
1 CAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGGAAAAAAAACCAATCCTATCTCCCTGAAA
*
3558923 TTGCAGTGGAGCGGATTAAAACAATAGATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGCATC
66 TTGCAGTGGAGCGGATTAAAACAATAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATC
3558988 AGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAAA
131 AGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAAA
*
3559031 CAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGGAAAAAAAACCAATCCTATCTCCCTGAGA
1 CAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGGAAAAAAAACCAATCCTATCTCCCTGAAA
* * * * *
3559096 TTGCAATGGAACGGATTAAAACCACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCAAC
66 TTGCAGTGGAGCGGATTAAAACAATAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATC
* * * * ** * * *
3559161 AAGTCTTTTCCCCCTGAAATCACAGTGGGGCAGACTGA-AGAAG
131 AGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGA-AAA
*
3559204 CAAATCTTATCTCCCT
1 CAAGTCTTATCTCCCT
3559220 GAGGTTGTAG
Statistics
Matches: 320, Mismatches: 32, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
169 147 0.46
170 11 0.03
171 1 0.00
172 8 0.03
173 153 0.48
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (173 bp):
CAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGGAAAAAAAACCAATCCTATCTCCCTGAAA
TTGCAGTGGAGCGGATTAAAACAATAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATC
AGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAGAAAA
Found at i:3559452 original size:142 final size:142
Alignment explanation
Indices: 3559205--3559477 Score: 390
Period size: 142 Copynumber: 1.9 Consensus size: 142
3559195 CTGAAGAAGC
* ** * * *
3559205 AAATCTTATCTCCCTGAGGTTGTAGTGGAGTAGATTGAATTCGATAATCCTACCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAACTAGATAATCCTACCTCCCTGAAGTT
* * * *
3559270 GTAGTGGAGCGGATTAAAGTAATGGATCTTATCTTTCTGAAGTTACAGTAGAGTAGATCGCATCA
66 GTAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
3559335 GATTGAAGTCAG
131 GATTGAAGTCAG
* *
3559347 AAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAACTAG-TAATCCTATCTCCCT-TAGT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTG-AACTAGATAATCCTACCTCCCTGAAGT
3559410 T-TACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
65 TGT--AGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
3559474 TCAG
128 TCAG
3559478 GAATTATCTC
Statistics
Matches: 116, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
140 1 0.01
141 4 0.03
142 107 0.92
143 4 0.03
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (142 bp):
AAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAACTAGATAATCCTACCTCCCTGAAGTT
GTAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
GATTGAAGTCAG
Found at i:3561090 original size:21 final size:24
Alignment explanation
Indices: 3561061--3561124 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 24
3561051 ATGCAATGTA
3561061 TATATTTATTTATTTTAAA-C-TT-
1 TATA-TTATTTATTTTAAATCGTTC
3561083 TATATTATTTATTTTAAATCGTTC
1 TATATTATTTATTTTAAATCGTTC
*
3561107 TATTACTATTTATTTTAA
1 TA-TATTATTTATTTTAA
3561125 GCCTTTTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
21 14 0.38
22 5 0.14
23 2 0.05
24 2 0.05
25 14 0.38
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (24 bp):
TATATTATTTATTTTAAATCGTTC
Found at i:3561116 original size:25 final size:21
Alignment explanation
Indices: 3561067--3561124 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 21
3561057 TGTATATATT
*
3561067 TATTTATTTTAAACTTTATAT
1 TATTTATTTTAAACTTTATAC
3561088 TATTTATTTTAAATCGTTCTATTAC
1 TATTTATTTTAAA-C-TT-TA-TAC
3561113 TATTTATTTTAA
1 TATTTATTTTAA
3561125 GCCTTTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 13 0.41
22 1 0.03
23 2 0.06
24 2 0.06
25 14 0.44
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTTATTTTAAACTTTATAC
Found at i:3565368 original size:19 final size:20
Alignment explanation
Indices: 3565344--3565388 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
3565334 TGTTGTTCAT
*
3565344 CACTTCTGCA-GTGGAAAAA
1 CACTTCTCCAGGTGGAAAAA
*
3565363 CACTTCTCCATGGTGTAAAAA
1 CACTTCTCCA-GGTGGAAAAA
3565384 CACTT
1 CACTT
3565389 TTACCCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.41
21 13 0.59
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (20 bp):
CACTTCTCCAGGTGGAAAAA
Found at i:3576030 original size:23 final size:21
Alignment explanation
Indices: 3575963--3576038 Score: 66
Period size: 21 Copynumber: 3.5 Consensus size: 21
3575953 TGTGCATATA
* * *
3575963 TATATATAAATTATAAAAAATA
1 TATATGTATATTAT-AAAAATG
3575985 TATATG-ATATTATAAAAATG
1 TATATGTATATTATAAAAATG
*
3576005 TATGCATGTATATATATTAAAA-G
1 TAT--ATGTATAT-TATAAAAATG
3576028 TATATGTATAT
1 TATATGTATAT
3576039 GTGTATTTCG
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
20 9 0.20
21 14 0.30
22 8 0.17
23 8 0.17
24 7 0.15
ACGTcount: A:0.50, C:0.01, G:0.08, T:0.41
Consensus pattern (21 bp):
TATATGTATATTATAAAAATG
Found at i:3576195 original size:20 final size:20
Alignment explanation
Indices: 3576158--3576196 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3576148 CACGTGTATA
* * *
3576158 TATGTATATATTAGAAAATG
1 TATGAATATATAACAAAATG
3576178 TATGAATATATAACAAAAT
1 TATGAATATATAACAAAAT
3576197 TTGGAATTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (20 bp):
TATGAATATATAACAAAATG
Found at i:3580120 original size:30 final size:30
Alignment explanation
Indices: 3580084--3580151 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
3580074 TGGTTTCAAT
*
3580084 TCAGTCACTCAAC-TTTCAAAAAATAACAAA
1 TCAGTCACT-AACGTTACAAAAAATAACAAA
* *
3580114 TCAGTCACTAACGTTACAAAAAGTGACAAA
1 TCAGTCACTAACGTTACAAAAAATAACAAA
*
3580144 TCAATCAC
1 TCAGTCAC
3580152 CCATTAACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 3 0.09
30 30 0.91
ACGTcount: A:0.47, C:0.24, G:0.07, T:0.22
Consensus pattern (30 bp):
TCAGTCACTAACGTTACAAAAAATAACAAA
Found at i:3580892 original size:3 final size:3
Alignment explanation
Indices: 3580884--3580929 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
3580874 TTCCATTTTC
* *
3580884 TCT TCT TCT CCA T-T TCT TC- TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
3580930 ACTGCCCAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 3 0.08
3 34 0.92
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:3582209 original size:112 final size:104
Alignment explanation
Indices: 3582062--3582281 Score: 343
Period size: 105 Copynumber: 2.0 Consensus size: 104
3582052 AAAATAAAAA
3582062 AGTTGTGTGAAGCAGCCCAAGCTTATGACAGAAAAAAAAAACACGGCCCAAAGCTAAGGTTACGT
1 AGTTGTGTGAAGCAGCCCAAGCTTATGAC--AAAAAAAAAACACGGCCCAAAGCT-A-G-TAC--
*
3582127 GTTAGAAAGGGAATGTCATGATAGGGGTGATTTATGTCGATC-AGTCG
59 GTTAGAAAGGGAATGTCATGATAGGGGTGA-GTAT-TCGATCAAGTCG
3582174 AGTTGTGTGAAGCAGCCCAAGCTTATGACAAAAAAAAAACACGGCCCAAAGCTAGTACGTTAGAA
1 AGTTGTGTGAAGCAGCCCAAGCTTATGACAAAAAAAAAACACGGCCCAAAGCTAGTACGTTAGAA
3582239 AGGGAATGTCATGATAGGGGTGAGTATTCGATCAAGTCG
66 AGGGAATGTCATGATAGGGGTGAGTATTCGATCAAGTCG
3582278 AGTT
1 AGTT
3582282 AAATTGAGTC
Statistics
Matches: 106, Mismatches: 1, Indels: 10
0.91 0.01 0.09
Matches are distributed among these distances:
103 6 0.06
104 12 0.11
105 30 0.28
107 3 0.03
108 1 0.01
109 1 0.01
110 24 0.23
112 29 0.27
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.22
Consensus pattern (104 bp):
AGTTGTGTGAAGCAGCCCAAGCTTATGACAAAAAAAAAACACGGCCCAAAGCTAGTACGTTAGAA
AGGGAATGTCATGATAGGGGTGAGTATTCGATCAAGTCG
Found at i:3583433 original size:6 final size:7
Alignment explanation
Indices: 3583404--3583430 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
3583394 AATATGTTAT
3583404 GAAAAAA
1 GAAAAAA
3583411 GAAAAAA
1 GAAAAAA
3583418 GAAAAAA
1 GAAAAAA
3583425 GAAAAA
1 GAAAAA
3583431 GAAGAGAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:3589097 original size:17 final size:18
Alignment explanation
Indices: 3589073--3589114 Score: 77
Period size: 17 Copynumber: 2.4 Consensus size: 18
3589063 AAAATATGTG
3589073 TATTTTTATTTATAATAT
1 TATTTTTATTTATAATAT
3589091 T-TTTTTATTTATAATAT
1 TATTTTTATTTATAATAT
3589108 TATTTTT
1 TATTTTT
3589115 TATCTCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTTTATTTATAATAT
Found at i:3590470 original size:21 final size:21
Alignment explanation
Indices: 3590428--3590470 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
3590418 TTAAATTCTT
* **
3590428 AAAAATAAAAGTTGAAGGAAA
1 AAAAATAAAAGTTAAACAAAA
*
3590449 AAAAATAAAATTTAAACAAAA
1 AAAAATAAAAGTTAAACAAAA
3590470 A
1 A
3590471 CGAAAGTTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.16
Consensus pattern (21 bp):
AAAAATAAAAGTTAAACAAAA
Found at i:3592195 original size:240 final size:242
Alignment explanation
Indices: 3591770--3592232 Score: 700
Period size: 240 Copynumber: 1.9 Consensus size: 242
3591760 GCACAAATAC
** *
3591770 TTATACCTTGGTTTGAGATGCTTTCAATGTTGTTGTAACTTAAATCCAAGTACTTCAAGTTTGTC
1 TTATACCTTGGTTTGAGATGCTTTCAATGTTGTTCCAACTTAAATCCAAGGACTTCAAGTTTGTC
* * * *
3591835 AAATTATTCCATTCTGATGAAAGTCAATCCCAATGTTGATCAGTTATGTTTTCATGATAAGATAA
66 AAATTATTCAATTCTGA-GAAAGTCAATCCCAATGTTGATCAGTTATATTTTCAGGACAAGATAA
* * * *
3591900 AAGCAAATGAAATATTGCAATAGCTTTTTCTTAAACCAAATTGATTTTAAAGT-AAAAGGAAGCA
130 AAGCAAATGAAATATTGCAATAACTTTTCCTTAAACCAAATTGATTTTAAAGTAAAAAAGAAACA
* *
3591964 TGTAAAA-TAAGTCTACCTTGAATATGAAATAATATATAAATACTATAT
195 GGTAAAACCAA-TCTACCTTGAATATGAAATAATATATAAATACTATAT
* * *
3592012 TTATACCTTTGTTTGAGATGCTTTCAATTTTGTTCCCACTTAAATCCAAGGACTTCAAGTTTGTC
1 TTATACCTTGGTTTGAGATGCTTTCAATGTTGTTCCAACTTAAATCCAAGGACTTCAAGTTTGTC
*
3592077 AAATTATTCAATTCT-A-AAATTCAATCCCAAATGTTGATCAGTTATATTTTCAGGACAAGATAA
66 AAATTATTCAATTCTGAGAAAGTCAATCCC-AATGTTGATCAGTTATATTTTCAGGACAAGATAA
*
3592140 AAGCAAATGACATATTGCAATAACTTTTCCTTAAACCAAATTGATTTTAAAGTAAAAAAGAAACA
130 AAGCAAATGAAATATTGCAATAACTTTTCCTTAAACCAAATTGATTTTAAAGTAAAAAAGAAACA
*
3592205 GGTAAAACCAATCTACCTTGAGTATGAA
195 GGTAAAACCAATCTACCTTGAATATGAA
3592233 TCAACTTTCC
Statistics
Matches: 199, Mismatches: 19, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
239 11 0.06
240 81 0.41
241 32 0.16
242 75 0.38
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (242 bp):
TTATACCTTGGTTTGAGATGCTTTCAATGTTGTTCCAACTTAAATCCAAGGACTTCAAGTTTGTC
AAATTATTCAATTCTGAGAAAGTCAATCCCAATGTTGATCAGTTATATTTTCAGGACAAGATAAA
AGCAAATGAAATATTGCAATAACTTTTCCTTAAACCAAATTGATTTTAAAGTAAAAAAGAAACAG
GTAAAACCAATCTACCTTGAATATGAAATAATATATAAATACTATAT
Found at i:3594369 original size:31 final size:29
Alignment explanation
Indices: 3594331--3594390 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 29
3594321 AAATATCAAA
*
3594331 ATTATATATGAATTTTAATTTAATGTGTAAT
1 ATTATATATAAATTTTAATTT--TGTGTAAT
*
3594362 ATTATATATAAATTTTGATTTTGTGTAAT
1 ATTATATATAAATTTTAATTTTGTGTAAT
3594391 TTTAAAATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 8 0.30
31 19 0.70
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (29 bp):
ATTATATATAAATTTTAATTTTGTGTAAT
Found at i:3594386 original size:29 final size:30
Alignment explanation
Indices: 3594331--3594411 Score: 94
Period size: 29 Copynumber: 2.7 Consensus size: 30
3594321 AAATATCAAA
* *
3594331 ATTATATATGAATTTTAATTTAATGTGTAAT
1 ATTATATATAAATTTTGATTT-ATGTGTAAT
3594362 ATTATATATAAATTTTGATTT-TGTGTAAT
1 ATTATATATAAATTTTGATTTATGTGTAAT
* *
3594391 TTTA-AAATGAAATTTTGATTT
1 ATTATATAT-AAATTTTGATTT
3594412 GATTTAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
28 3 0.07
29 23 0.51
31 19 0.42
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (30 bp):
ATTATATATAAATTTTGATTTATGTGTAAT
Found at i:3599004 original size:3 final size:3
Alignment explanation
Indices: 3598996--3599073 Score: 84
Period size: 3 Copynumber: 24.7 Consensus size: 3
3598986 ATAGTAATGG
* * * *
3598996 TAA TAA TAA TAA TGA TAA TAA TAA TAA AAA TGA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3599044 TAA TAA TAA TATA TGACA TAA TTAA TAA TA
1 TAA TAA TAA TA-A T-A-A TAA -TAA TAA TA
3599074 TAAAAAACAA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
3 54 0.86
4 6 0.10
5 3 0.05
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3602059 original size:19 final size:19
Alignment explanation
Indices: 3602035--3602077 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
3602025 TGTTCTTCAT
3602035 CACTTCTGCAGTGGAAAAA
1 CACTTCTGCAGTGGAAAAA
*
3602054 CACTTCTGCAGTGTAAAAA
1 CACTTCTGCAGTGGAAAAA
3602073 CACTT
1 CACTT
3602078 TTAACCCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (19 bp):
CACTTCTGCAGTGGAAAAA
Found at i:3620150 original size:19 final size:19
Alignment explanation
Indices: 3620126--3620165 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
3620116 CTTAAGCTTA
3620126 TATAGCCCCTACAATAATT
1 TATAGCCCCTACAATAATT
3620145 TATAGCCCCTACAATAATT
1 TATAGCCCCTACAATAATT
3620164 TA
1 TA
3620166 GGTTATGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.33
Consensus pattern (19 bp):
TATAGCCCCTACAATAATT
Found at i:3624518 original size:34 final size:34
Alignment explanation
Indices: 3624479--3624549 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
3624469 ATTTAAACAC
3624479 TTAAAGTAAAAATTTTGTAATTTAAGCACTCACA
1 TTAAAGTAAAAATTTTGTAATTTAAGCACTCACA
3624513 TTAAAGTAAAAATTTTGTAATTTAAGCACTCACA
1 TTAAAGTAAAAATTTTGTAATTTAAGCACTCACA
3624547 TTA
1 TTA
3624550 CATAGTTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (34 bp):
TTAAAGTAAAAATTTTGTAATTTAAGCACTCACA
Found at i:3629647 original size:19 final size:19
Alignment explanation
Indices: 3629623--3629665 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
3629613 TGTTCTTCAT
*
3629623 CACTTCTGGAGTGGAAAAA
1 CACTTCTGCAGTGGAAAAA
*
3629642 CACTTCTGCAGTGTAAAAA
1 CACTTCTGCAGTGGAAAAA
3629661 CACTT
1 CACTT
3629666 TTAATAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (19 bp):
CACTTCTGCAGTGGAAAAA
Found at i:3630505 original size:30 final size:30
Alignment explanation
Indices: 3630459--3630539 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
3630449 TTTTATTATG
*
3630459 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
3630490 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
3630520 CTATTATTTGATACCCATAT
1 CCAATATTTGATACCCATAT
3630540 TTGATTTTCC
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 40 0.85
31 7 0.15
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.42
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:3630514 original size:15 final size:15
Alignment explanation
Indices: 3630469--3630515 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
3630459 CCAATATCTC
3630469 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
3630484 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
3630499 GATACCCATATCTTT
1 GATACCCATATCTTT
3630514 GA
1 GA
3630516 CTTTCTATTA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:3635155 original size:30 final size:30
Alignment explanation
Indices: 3635116--3635227 Score: 188
Period size: 30 Copynumber: 3.7 Consensus size: 30
3635106 CCAATATCTC
*
3635116 GATATCCATATCTTTGACTTTCTAATATTT
1 GATACCCATATCTTTGACTTTCTAATATTT
*
3635146 GATACCCATATCTTTGACTTTCCAATATTT
1 GATACCCATATCTTTGACTTTCTAATATTT
*
3635176 GATACCCATATCTTTGACTTTCTATTATTT
1 GATACCCATATCTTTGACTTTCTAATATTT
*
3635206 GATACCCATATCTTTGATTTTC
1 GATACCCATATCTTTGACTTTC
3635228 CATAAATATG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 77 1.00
ACGTcount: A:0.25, C:0.21, G:0.07, T:0.47
Consensus pattern (30 bp):
GATACCCATATCTTTGACTTTCTAATATTT
Found at i:3635161 original size:15 final size:15
Alignment explanation
Indices: 3635143--3635223 Score: 67
Period size: 15 Copynumber: 5.4 Consensus size: 15
3635133 CTTTCTAATA
3635143 TTTGATACCCATATC
1 TTTGATACCCATATC
** *
3635158 TTTGACTTTCCA-ATA
1 TTTGA-TACCCATATC
3635173 TTTGATACCCATATC
1 TTTGATACCCATATC
** * *
3635188 TTTGACTTTCTAT-TA
1 TTTGA-TACCCATATC
3635203 TTTGATACCCATATC
1 TTTGATACCCATATC
3635218 TTTGAT
1 TTTGAT
3635224 TTTCCATAAA
Statistics
Matches: 48, Mismatches: 14, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
14 8 0.17
15 32 0.67
16 8 0.17
ACGTcount: A:0.25, C:0.21, G:0.07, T:0.47
Consensus pattern (15 bp):
TTTGATACCCATATC
Found at i:3641734 original size:35 final size:34
Alignment explanation
Indices: 3641683--3641797 Score: 131
Period size: 35 Copynumber: 3.3 Consensus size: 34
3641673 TAATCTTGAC
* * *
3641683 TTGGCTTTATTAATGGAAAATTTAGGTCTTCATTT
1 TTGGTTTTATTAATGGAAATTTTAAGTCTTCA-TT
* ** *
3641718 TTGGTTTTATTCATGGAAATTTTACTTCTTTGATT
1 TTGGTTTTATTAATGGAAATTTTAAGTC-TTCATT
*
3641753 TTGGTTTTATTAATGGAAATTTTAAGTCTTCATA
1 TTGGTTTTATTAATGGAAATTTTAAGTCTTCATT
*
3641787 TTGCTTTTATT
1 TTGGTTTTATT
3641798 CTTGCACGTT
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
34 14 0.21
35 50 0.75
36 3 0.04
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (34 bp):
TTGGTTTTATTAATGGAAATTTTAAGTCTTCATT
Found at i:3641831 original size:70 final size:70
Alignment explanation
Indices: 3641688--3641824 Score: 161
Period size: 70 Copynumber: 2.0 Consensus size: 70
3641678 TTGACTTGGC
* * * * *
3641688 TTTATTAATGGAAAATTTAGGTCTTCATTTTTGGTTTTATTCATGGAAATTTTACTTCTTTGATT
1 TTTATTAATGGAAAATTTAAGTCTTCATTATTGCTTTTATTCATGCAAATTTTACGTCTTTGATT
*
3641753 TTGGT
66 TTGAT
* * ** *
3641758 TTTATTAATGGAAATTTTAAGTCTTCA-TATTGCTTTTATTCTTGCACGTTTTAGGT-TTTGATT
1 TTTATTAATGGAAAATTTAAGTCTTCATTATTGCTTTTATTCATGCAAATTTTACGTCTTTGATT
3641821 TTGA
66 TTGA
3641825 AATTTTAGTT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
68 10 0.18
69 21 0.38
70 25 0.45
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (70 bp):
TTTATTAATGGAAAATTTAAGTCTTCATTATTGCTTTTATTCATGCAAATTTTACGTCTTTGATT
TTGAT
Found at i:3642357 original size:22 final size:22
Alignment explanation
Indices: 3642327--3642372 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
3642317 CTTCAGGATC
3642327 AAAGATAAATAATA-AATTTTAT
1 AAAGATAAA-AATATAATTTTAT
* *
3642349 AAAGTTAAAACTATAATTTTAT
1 AAAGATAAAAATATAATTTTAT
3642371 AA
1 AA
3642373 TTATATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (22 bp):
AAAGATAAAAATATAATTTTAT
Done.