Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 95 of 129
Found at i:17099962 original size:3 final size:3
Alignment explanation
Indices: 17099948--17100017 Score: 122
Period size: 3 Copynumber: 23.3 Consensus size: 3
17099938 TTAAGTCCCT
*
17099948 ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
17099996 ATA ATA ATA ATA ATC ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
17100018 CAACAACAAC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:17100353 original size:220 final size:221
Alignment explanation
Indices: 17100032--17100436 Score: 679
Period size: 220 Copynumber: 1.8 Consensus size: 221
17100022 AACAACAACA
* * * * * *
17100032 TATATCAAATTATAATAACAAATGCACCATTAAATTTAAAATTAAAAAAAGATAAAATTACTTAT
1 TATATCAAATGATAATAACAAATGCACCATCAAATTTAAAACTAAAAAAAGACAAAATAAATTAT
17100097 TATATATAAGAAATAAGTAATAATCTTATAAGTTACTAAAGCAATTTATACTAAACTTTTAGTCA
66 TATATATAAGAAATAAGTAATAATCTTATAAGTTACTAAAGCAATTTATACTAAACTTTTAGTCA
17100162 AAAATAAAATAATTAAATAATAAACTTACACTTATAAAATAAAAATAAAAATAAAATAAATATTA
131 AAAATAAAATAATTAAATAATAAACTTACACTTATAAAATAAAAATAAAAATAAAATAAATATTA
17100227 AAGTTAGATTAATACATGTAAATGCG
196 AAGTTAGATTAATACATGTAAATGCG
*
17100253 TATATCAAATGATAATAACAAATGCACCATCAAA-TTAAAACTAAGAAAAGACAAAATAAATTAT
1 TATATCAAATGATAATAACAAATGCACCATCAAATTTAAAACTAAAAAAAGACAAAATAAATTAT
* * * *
17100317 TATATATAA-AAGCTAAGTAATAATCTTATAAGTTACTAAAGCAATTTATATTAAACTTTTATTT
66 TATATATAAGAA-ATAAGTAATAATCTTATAAGTTACTAAAGCAATTTATACTAAACTTTTAGTC
*
17100381 AAAAATAAAATAATTAAATAATAAAGTTACACTTATAAAATAAAAATAAAAATAAA
130 AAAAATAAAATAATTAAATAATAAACTTACACTTATAAAATAAAAATAAAAATAAA
17100437 TATTAAAATT
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
219 2 0.01
220 137 0.80
221 32 0.19
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (221 bp):
TATATCAAATGATAATAACAAATGCACCATCAAATTTAAAACTAAAAAAAGACAAAATAAATTAT
TATATATAAGAAATAAGTAATAATCTTATAAGTTACTAAAGCAATTTATACTAAACTTTTAGTCA
AAAATAAAATAATTAAATAATAAACTTACACTTATAAAATAAAAATAAAAATAAAATAAATATTA
AAGTTAGATTAATACATGTAAATGCG
Found at i:17101353 original size:21 final size:20
Alignment explanation
Indices: 17101328--17101381 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
17101318 AATTTGCTTG
17101328 AAAATAAAAATATTATCTTAT
1 AAAATAAAAATATTAT-TTAT
* * * *
17101349 AAAATACAACTTTTATTTTT
1 AAAATAAAAATATTATTTAT
*
17101369 AAAATAGAAATAT
1 AAAATAAAAATAT
17101382 AATGGTGAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAATAAAAATATTATTTAT
Found at i:17103414 original size:7 final size:7
Alignment explanation
Indices: 17103402--17103662 Score: 131
Period size: 7 Copynumber: 39.0 Consensus size: 7
17103392 CAATAATAGA
17103402 GTTTAGG
1 GTTTAGG
17103409 GTTTAGG
1 GTTTAGG
17103416 GTTT--G
1 GTTTAGG
* *
17103421 GATTAAG
1 GTTTAGG
*
17103428 GCTTAGG
1 GTTTAGG
*
17103435 GTATAGG
1 GTTTAGG
17103442 GTTTA-G
1 GTTTAGG
*
17103448 GTTGAGG
1 GTTTAGG
17103455 GTTTAGG
1 GTTTAGG
17103462 G-TT-GG
1 GTTTAGG
** *
17103467 GTAAAGA
1 GTTTAGG
17103474 GTTTAGG
1 GTTTAGG
*
17103481 ATTT--G
1 GTTTAGG
*
17103486 ATTTAGG
1 GTTTAGG
*
17103493 GTTTAGA
1 GTTTAGG
*
17103500 GTCTAGG
1 GTTTAGG
*
17103507 GATTA-G
1 GTTTAGG
17103513 GTTTAGG
1 GTTTAGG
*
17103520 GTTTAAG
1 GTTTAGG
17103527 GTTTA-G
1 GTTTAGG
*
17103533 GTTTAGA
1 GTTTAGG
17103540 GTTTA-G
1 GTTTAGG
* *
17103546 ATCTAGG
1 GTTTAGG
17103553 GTTTAGG
1 GTTTAGG
17103560 GTTT--G
1 GTTTAGG
* *
17103565 ATTTAAG
1 GTTTAGG
*
17103572 GTTTAAG
1 GTTTAGG
17103579 GTTTGATGAAG
1 GTTT-A-G--G
17103590 GTTTAGG
1 GTTTAGG
*
17103597 GTCTAGG
1 GTTTAGG
*
17103604 GTCTAGG
1 GTTTAGG
17103611 GTTTA-G
1 GTTTAGG
*
17103617 ATTTAGG
1 GTTTAGG
*
17103624 GGTTA--
1 GTTTAGG
17103629 GTTTAGG
1 GTTTAGG
*
17103636 GATTAGG
1 GTTTAGG
17103643 GTTT-GG
1 GTTTAGG
* *
17103649 GTCTAAG
1 GTTTAGG
17103656 GTTTAGG
1 GTTTAGG
17103663 ATCTAGGTTT
Statistics
Matches: 190, Mismatches: 44, Indels: 40
0.69 0.16 0.15
Matches are distributed among these distances:
5 20 0.11
6 31 0.16
7 131 0.69
8 1 0.01
9 1 0.01
10 1 0.01
11 5 0.03
ACGTcount: A:0.21, C:0.02, G:0.37, T:0.39
Consensus pattern (7 bp):
GTTTAGG
Found at i:17103535 original size:13 final size:13
Alignment explanation
Indices: 17103511--17103582 Score: 51
Period size: 13 Copynumber: 5.5 Consensus size: 13
17103501 TCTAGGGATT
17103511 AGGTTTAGGGTTTA
1 AGGTTTA-GGTTTA
17103525 AGGTTTAGGTTT-
1 AGGTTTAGGTTTA
* *
17103537 AGAGTTTAGATCTA
1 AG-GTTTAGGTTTA
*
17103551 GGGTTTAGGGTTT-
1 AGGTTTA-GGTTTA
*
17103564 -GATTTAAGGTTTA
1 AGGTTT-AGGTTTA
17103577 AGGTTT
1 AGGTTT
17103583 GATGAAGGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
12 11 0.24
13 19 0.42
14 15 0.33
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.44
Consensus pattern (13 bp):
AGGTTTAGGTTTA
Found at i:17103538 original size:40 final size:41
Alignment explanation
Indices: 17103487--17103563 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 41
17103477 TAGGATTTGA
17103487 TTTAGGGTTTAGAGTCTAGGGAT-TA-GGTTTAGGGTTTAAGG
1 TTTAGGGTTTAGAGTCTA--GATCTAGGGTTTAGGGTTTAAGG
*
17103528 TTTA-GGTTTAGAGTTTAGATCTAGGGTTTAGGGTTT
1 TTTAGGGTTTAGAGTCTAGATCTAGGGTTTAGGGTTT
17103564 GATTTAAGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
38 3 0.09
39 2 0.06
40 24 0.73
41 4 0.12
ACGTcount: A:0.21, C:0.03, G:0.34, T:0.43
Consensus pattern (41 bp):
TTTAGGGTTTAGAGTCTAGATCTAGGGTTTAGGGTTTAAGG
Found at i:17103576 original size:19 final size:20
Alignment explanation
Indices: 17103398--17103598 Score: 87
Period size: 20 Copynumber: 9.9 Consensus size: 20
17103388 TAAGCAATAA
*
17103398 TAGAGTTTAGGGTTTAGGGTT
1 TAGA-TTTAAGGTTTAGGGTT
* * *
17103419 TGGA-TTAAGGCTTAGGGTA
1 TAGATTTAAGGTTTAGGGTT
* *
17103438 TAGGGTTT-AGGTTGAGGGTT
1 TA-GATTTAAGGTTTAGGGTT
* *
17103458 TAGGGTTGGGTAAAGAGTTTAGGATT
1 TA-GATT---T-AAG-GTTTAGGGTT
* * *
17103484 T-GATTTAGGGTTTAGAGTC
1 TAGATTTAAGGTTTAGGGTT
17103503 TAGGGA-TT-AGGTTTAGGGTT
1 TA--GATTTAAGGTTTAGGGTT
* *
17103523 TAAGGTTT-AGGTTTAGAGTT
1 T-AGATTTAAGGTTTAGGGTT
* *
17103543 TAGATCTAGGGTTTAGGGTT
1 TAGATTTAAGGTTTAGGGTT
*
17103563 T-GATTTAAGGTTTAAGGTT
1 TAGATTTAAGGTTTAGGGTT
*
17103582 T-GA-TGAAGGTTTAGGGT
1 TAGATTTAAGGTTTAGGGT
17103599 CTAGGGTCTA
Statistics
Matches: 136, Mismatches: 30, Indels: 31
0.69 0.15 0.16
Matches are distributed among these distances:
18 12 0.09
19 44 0.32
20 54 0.40
21 9 0.07
22 2 0.01
23 1 0.01
24 3 0.02
25 2 0.01
26 9 0.07
ACGTcount: A:0.22, C:0.01, G:0.36, T:0.40
Consensus pattern (20 bp):
TAGATTTAAGGTTTAGGGTT
Found at i:17103592 original size:18 final size:19
Alignment explanation
Indices: 17103552--17103594 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
17103542 TTAGATCTAG
* *
17103552 GGTTTAGGGTTTGATTTAA
1 GGTTTAAGGTTTGATTGAA
17103571 GGTTTAAGGTTTGA-TGAA
1 GGTTTAAGGTTTGATTGAA
17103589 GGTTTA
1 GGTTTA
17103595 GGGTCTAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (19 bp):
GGTTTAAGGTTTGATTGAA
Found at i:17108459 original size:84 final size:84
Alignment explanation
Indices: 17108351--17108750 Score: 321
Period size: 84 Copynumber: 4.8 Consensus size: 84
17108341 GAAGACTTTA
** *
17108351 GATTCACAGCAAAGTAAATGATTCACAGTTTGAAAGACTATTGATTCACAACAGAGTAAAAGATT
1 GATTCACAATAAAGTAAATGATTCACAGTTTGAAAGACTATAGATTCACAACAGAGTAAAAGATT
*
17108416 CATACTTTAGAGGATTTTG
66 CATAATTTAGAGGATTTTG
** * * * *
17108435 GATTCACAATAAAGTAAACAATTCACAGTTTGGAAGACTCTAGATTCACAATAAAGTAAACA-AT
1 GATTCACAATAAAGTAAATGATTCACAGTTTGAAAGACTATAGATTCACAACAGAGTAAA-AGAT
* ** *
17108499 TCACAATTTAGATAACTTTG
65 TCATAATTTAGAGGATTTTG
* * * * * *
17108519 GACTCATACTAAAGTAAATGATTCACAGTTTGAACA-ACTATGGATTCACAGCAGAGTAAATGAT
1 GATTCACAATAAAGTAAATGATTCACAGTTTGAA-AGACTATAGATTCACAACAGAGTAAAAGAT
* * *
17108583 TCATAGTTT-GAGGACTCTAG
65 TCATAATTTAGAGGA-TTTTG
* * * * * * *
17108603 G-TTCACAATAAAGTAAATGATTCA-TGGTT-AGAGGCTCTAGATTCACAACAAAGTAAACGATT
1 GATTCACAATAAAGTAAATGATTCACAGTTTGAAAGACTATAGATTCACAACAGAGTAAAAGATT
* * * * *
17108665 CAT-AGTTAGAAGACTCTA
66 CATAATTTAGAGGATTTTG
* * * * * ** * *
17108683 GATTCACAACAAAGTAAATGATGCACAG-TTGGAGGACTCTAGATTCGTAATAGAGTAAATGATT
1 GATTCACAATAAAGTAAATGATTCACAGTTTGAAAGACTATAGATTCACAACAGAGTAAAAGATT
17108747 CATA
66 CATA
17108751 TTTGAAAGAC
Statistics
Matches: 241, Mismatches: 65, Indels: 21
0.74 0.20 0.06
Matches are distributed among these distances:
80 4 0.02
81 54 0.22
82 31 0.13
83 23 0.10
84 127 0.53
85 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.28
Consensus pattern (84 bp):
GATTCACAATAAAGTAAATGATTCACAGTTTGAAAGACTATAGATTCACAACAGAGTAAAAGATT
CATAATTTAGAGGATTTTG
Found at i:17108535 original size:126 final size:126
Alignment explanation
Indices: 17108311--17108761 Score: 303
Period size: 126 Copynumber: 3.6 Consensus size: 126
17108301 AAAACTCTCA
** * ** **
17108311 ATTCACAATAAAGTAAATAATTCACA-ACTGGAAGACTTTAGATTCACAGCAAAGTAAATGATTC
1 ATTCACAATAAAGTAAATAATTCACAGTTTGGAAGACTCTAGATTCACAATAAAGTAAACAATTC
* * * * ** * *
17108375 ACAGTTTGAAAGACTATTGATTCACAACAGAGTAAAAGATTCATACTTT-AGAGGATTTTGG
66 ACAATTTGAAAGACTATTGACTCACAACAAAGTAAAAGATTCACACTTTGA-ACAACTATGG
*
17108436 ATTCACAATAAAGTAAACAATTCACAGTTTGGAAGACTCTAGATTCACAATAAAGTAAACAATTC
1 ATTCACAATAAAGTAAATAATTCACAGTTTGGAAGACTCTAGATTCACAATAAAGTAAACAATTC
* * * *
17108501 ACAATTTAGATA-ACT-TTGGACTCA-TACTAAAGTAAATGATTCACAGTTTGAACAACTATGG
66 ACAATTT-GAAAGACTATT-GACTCACAAC-AAAGTAAAAGATTCACACTTTGAACAACTATGG
** * * * * * **
17108562 ATTCACAGCAGAGTAAATGATTCATAGTTT-GAGGACTCTAGGTTCACAATAAAGTAAATGATTC
1 ATTCACAATAAAGTAAATAATTCACAGTTTGGAAGACTCTAGATTCACAATAAAGTAAACAATTC
*** * * * * * * * * * * * *
17108626 A-TGGTT-AGAGGCTCTAGATTCACAACAAAGTAAACGATTCATAGTTAGAA-GACTCTAG
66 ACAATTTGAAAGACTATTGACTCACAACAAAGTAAAAGATTCACACTTTGAACAACTATGG
* * * * ** * **
17108684 ATTCACAACAAAGTAAATGATGCACAG-TTGGAGGACTCTAGATTCGTAATAGAGTAAATGATTC
1 ATTCACAATAAAGTAAATAATTCACAGTTTGGAAGACTCTAGATTCACAATAAAGTAAACAATTC
*
17108748 A-TATTTGAAAGACT
66 ACAATTTGAAAGACT
17108762 CCGGGTTCAC
Statistics
Matches: 260, Mismatches: 56, Indels: 22
0.77 0.17 0.07
Matches are distributed among these distances:
121 2 0.01
122 64 0.25
123 33 0.13
124 5 0.02
125 60 0.23
126 92 0.35
127 4 0.02
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (126 bp):
ATTCACAATAAAGTAAATAATTCACAGTTTGGAAGACTCTAGATTCACAATAAAGTAAACAATTC
ACAATTTGAAAGACTATTGACTCACAACAAAGTAAAAGATTCACACTTTGAACAACTATGG
Found at i:17108620 original size:41 final size:41
Alignment explanation
Indices: 17108203--17108816 Score: 394
Period size: 41 Copynumber: 14.9 Consensus size: 41
17108193 ATATAAGAGA
* * *
17108203 AAATGATTCATAGTTGGAAAACTCTGGATTCACAATAAAGT
1 AAATGATTCATAGTTTGAAGACTCTAGATTCACAATAAAGT
* * * * * * * *
17108244 GAACGATT-ACAGTTGGAGGATTCTAGATTCA-TATAAAAGA
1 AAATGATTCATAGTTTGAAGACTCTAGATTCACAAT-AAAGT
* * * *
17108284 AAATGATTTATAGATGGAAAACTCTCA-ATTCACAATAAAGT
1 AAATGATTCATAGTTTGAAGACTCT-AGATTCACAATAAAGT
* * ** * * **
17108325 AAATAATTCACAACTGGAAGACTTTAGATTCACAGCAAAGT
1 AAATGATTCATAGTTTGAAGACTCTAGATTCACAATAAAGT
* * * * *
17108366 AAATGATTCACAGTTTGAAAGACTATTGATTCACAACAGAGT
1 AAATGATTCATAGTTTG-AAGACTCTAGATTCACAATAAAGT
* * * * * *
17108408 AAAAGATTCATACTTTAGAGGATTTTGGATTCACAATAAAGT
1 AAATGATTCATAGTTT-GAAGACTCTAGATTCACAATAAAGT
** *
17108450 AAACAATTCACAGTTTGGAAGACTCTAGATTCACAATAAAGT
1 AAATGATTCATAGTTT-GAAGACTCTAGATTCACAATAAAGT
** * * * * * * *
17108492 AAACAATTCACAATTTAGATA-ACTTTGGACTCATACTAAAGT
1 AAATGATTCATAGTTT-GA-AGACTCTAGATTCACAATAAAGT
* * * * ** *
17108534 AAATGATTCACAGTTTGAACAACTATGGATTCACAGCAGAGT
1 AAATGATTCATAGTTTGAA-GACTCTAGATTCACAATAAAGT
* *
17108576 AAATGATTCATAGTTTGAGGACTCTAGGTTCACAATAAAGT
1 AAATGATTCATAGTTTGAAGACTCTAGATTCACAATAAAGT
* * * *
17108617 AAATGATTCATGGTTAG-AGGCTCTAGATTCACAACAAAGT
1 AAATGATTCATAGTTTGAAGACTCTAGATTCACAATAAAGT
* * *
17108657 AAACGATTCATAGTTAGAAGACTCTAGATTCACAACAAAGT
1 AAATGATTCATAGTTTGAAGACTCTAGATTCACAATAAAGT
* * * * ** *
17108698 AAATGATGCACAGTTGGAGGACTCTAGATTCGTAATAGAGT
1 AAATGATTCATAGTTTGAAGACTCTAGATTCACAATAAAGT
** * **
17108739 AAATGATTCATA-TTTGAAAGACTCCGGGTTCACAATAGTGT
1 AAATGATTCATAGTTTG-AAGACTCTAGATTCACAATAAAGT
* * * * *
17108780 AAAAGATTCATAGTTTGAGGGCTTTGGATTCACAATA
1 AAATGATTCATAGTTTGAAGACTCTAGATTCACAATA
17108817 GAGATTAAAG
Statistics
Matches: 448, Mismatches: 112, Indels: 26
0.76 0.19 0.04
Matches are distributed among these distances:
39 2 0.00
40 67 0.15
41 208 0.46
42 169 0.38
43 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Consensus pattern (41 bp):
AAATGATTCATAGTTTGAAGACTCTAGATTCACAATAAAGT
Found at i:17108810 original size:82 final size:82
Alignment explanation
Indices: 17108311--17108819 Score: 267
Period size: 84 Copynumber: 6.2 Consensus size: 82
17108301 AAAACTCTCA
* * * ** * * * **
17108311 ATTCACAATAAAGTAAATAATTCACAACTGGAAGACTTTAGATTCACAGCAAAGTAAATGATTCA
1 ATTCACAATAGAGTAAATGATTCATATTTGAAAGACTCTAGGTTCACAATAAAGTAAATGATTCA
* * * * * *
17108376 CAGTTTGAAAGACTATTG
66 TAGTTAG-AGGGCTCTAG
* * * * * **
17108394 ATTCACAACAGAGTAAAAGATTCATACTTT-AGAGGA-TTTTGGATTCACAATAAAGTAAACAAT
1 ATTCACAATAGAGTAAATGATTCATA-TTTGA-AAGACTCTAGG-TTCACAATAAAGTAAATGAT
* * * *
17108457 TCACAGTTTGGAAGACTCTAG
63 TCATAG-TTAGAGGGCTCTAG
* ** * * * * * *
17108478 ATTCACAATAAAGTAAACAATTCACAATTTAGATA-ACT-TTGGACTCATACTAAAGTAAATGAT
1 ATTCACAATAGAGTAAATGATTCA-TATTT-GAAAGACTCTAGG-TTCACAATAAAGTAAATGAT
* * *** * *
17108541 TCACAGTTTGAACAACTATGG
63 TCATAGTTAG-AGGGCTCTAG
** *
17108562 ATTCACAGCAGAGTAAATGATTCATAGTTTG-AGGACTCTAGGTTCACAATAAAGTAAATGATTC
1 ATTCACAATAGAGTAAATGATTCATA-TTTGAAAGACTCTAGGTTCACAATAAAGTAAATGATTC
*
17108626 ATGGTTAGA-GGCTCTAG
65 ATAGTTAGAGGGCTCTAG
* * * * * * *
17108643 ATTCACAACAAAGTAAACGATTCATAGTT-AGAAGACTCTAGATTCACAACAAAGTAAATGATGC
1 ATTCACAATAGAGTAAATGATTCATATTTGA-AAGACTCTAGGTTCACAATAAAGTAAATGATTC
* * *
17108707 ACAGTTGGAGGACTCTAG
65 ATAGTTAGAGGGCTCTAG
** ** ** *
17108725 ATTCGTAATAGAGTAAATGATTCATATTTGAAAGACTCCGGGTTCACAATAGTGTAAAAGATTCA
1 ATTCACAATAGAGTAAATGATTCATATTTGAAAGACTCTAGGTTCACAATAAAGTAAATGATTCA
* * *
17108790 TAGTTTGAGGGCTTTGG
66 TAGTTAGAGGGCTCTAG
17108807 ATTCACAATAGAG
1 ATTCACAATAGAG
17108820 ATTAAAGGCT
Statistics
Matches: 323, Mismatches: 87, Indels: 33
0.73 0.20 0.07
Matches are distributed among these distances:
80 2 0.01
81 62 0.19
82 80 0.25
83 58 0.18
84 115 0.36
85 5 0.02
86 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.28
Consensus pattern (82 bp):
ATTCACAATAGAGTAAATGATTCATATTTGAAAGACTCTAGGTTCACAATAAAGTAAATGATTCA
TAGTTAGAGGGCTCTAG
Found at i:17109324 original size:71 final size:71
Alignment explanation
Indices: 17109136--17109450 Score: 290
Period size: 71 Copynumber: 4.5 Consensus size: 71
17109126 CAAATTTTAG
* * * * * * *
17109136 CAAAAAGGGTTAAAGATTCATAAATTTTAAAAATTTGTAAGAGTCAACAAATTTTTAAAA-TTTC
1 CAAAAGGGGTTAAAGATTCACAAATTCTAGAGATTTATAAGAGTCAA-AGA--TTTAAAATTTTC
*
17109200 AAAGATTCG
63 AAAGATTCA
* * * * *
17109209 CAAGAGGAGTTAAAG-TTCACAAATTCTAGAGATTCACAAAAGTCAAAGATTTAAAATTTTCAAA
1 CAAAAGGGGTTAAAGATTCACAAATTCTAGAGATTTATAAGAGTCAAAGATTTAAAATTTTCAAA
*
17109273 GGTTCA
66 GATTCA
* * * * *
17109279 CAATAGGGGTTAAAGATTCATAAATTCCAGAGATTTTTTAGAGTCAAAGATTTAAAATTTTCAAA
1 CAAAAGGGGTTAAAGATTCACAAATTCTAGAGATTTATAAGAGTCAAAGATTTAAAATTTTCAAA
17109344 GATTCA
66 GATTCA
** * *
17109350 CAAAATAGGTTAAAGATTCACAAATTCTAGATATTCAT-A-AG----AGATTTAAAATTTT-AAA
1 CAAAAGGGGTTAAAGATTCACAAATTCTAGAGATTTATAAGAGTCAAAGATTTAAAATTTTCAAA
**
17109408 GATTTG
66 GATTCA
*
17109414 CAAGAA-GGGTTAAAGATTCACAAATTTTAGAGATTTA
1 CAA-AAGGGGTTAAAGATTCACAAATTCTAGAGATTTA
17109451 AAAATATAAA
Statistics
Matches: 201, Mismatches: 38, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
64 37 0.18
65 16 0.08
69 9 0.04
70 25 0.12
71 79 0.39
72 23 0.11
73 12 0.06
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.32
Consensus pattern (71 bp):
CAAAAGGGGTTAAAGATTCACAAATTCTAGAGATTTATAAGAGTCAAAGATTTAAAATTTTCAAA
GATTCA
Found at i:17109938 original size:21 final size:21
Alignment explanation
Indices: 17109912--17109952 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17109902 TTCAGTTTCA
*
17109912 AACATACAACATACAACATGT
1 AACATACAACACACAACATGT
*
17109933 AACATACAACACGCAACATG
1 AACATACAACACACAACATG
17109953 CATTTTGAAC
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:0.51, C:0.27, G:0.07, T:0.15
Consensus pattern (21 bp):
AACATACAACACACAACATGT
Found at i:17109950 original size:14 final size:14
Alignment explanation
Indices: 17109918--17109951 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17109908 TTCAAACATA
*
17109918 CAACATACAACATG
1 CAACATACAACACG
*
17109932 TAACATACAACACG
1 CAACATACAACACG
17109946 CAACAT
1 CAACAT
17109952 GCATTTTGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.29, G:0.06, T:0.15
Consensus pattern (14 bp):
CAACATACAACACG
Found at i:17111381 original size:10 final size:10
Alignment explanation
Indices: 17111368--17111426 Score: 66
Period size: 10 Copynumber: 5.9 Consensus size: 10
17111358 TTATTTCTCT
17111368 TTTCTTTTCA
1 TTTCTTTTCA
*
17111378 TTTCTATTCA
1 TTTCTTTTCA
17111388 TTTCTTTTCA
1 TTTCTTTTCA
* *
17111398 TTCCATTTTGA
1 TTTC-TTTTCA
*
17111409 TTTTTTTTCA
1 TTTCTTTTCA
17111419 TTT-TTTTC
1 TTTCTTTTC
17111427 TTTGTATGCC
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
9 5 0.12
10 29 0.71
11 7 0.17
ACGTcount: A:0.12, C:0.17, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTCTTTTCA
Found at i:17112057 original size:11 final size:11
Alignment explanation
Indices: 17112035--17112094 Score: 95
Period size: 11 Copynumber: 5.5 Consensus size: 11
17112025 TGAAAAACAC
17112035 CTTTTATTTTT
1 CTTTTATTTTT
17112046 CTTCTT-TTTTT
1 CTT-TTATTTTT
*
17112057 CTCTTATTTTT
1 CTTTTATTTTT
17112068 CTTTTATTTTT
1 CTTTTATTTTT
17112079 CTTTTATTTTT
1 CTTTTATTTTT
17112090 CTTTT
1 CTTTT
17112095 CTTCTCTCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
10 2 0.04
11 41 0.91
12 2 0.04
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (11 bp):
CTTTTATTTTT
Found at i:17115727 original size:246 final size:246
Alignment explanation
Indices: 17115293--17115785 Score: 959
Period size: 246 Copynumber: 2.0 Consensus size: 246
17115283 GACGTGGGGA
17115293 ATGAAATAAAAACCAAAACCAAAGAGTTGCCATAAATATTTTTTAAAGTGTGATTAGGCACCCAA
1 ATGAAATAAAAACCAAAACCAAAGAGTTGCCATAAATATTTTTTAAAGTGTGATTAGGCACCCAA
*
17115358 AAATTATCCTTTTAATAAAACATTTAAAACGAGTTTAAAGTTTACTGAAAGAACATTTTGATGTT
66 AAATTATCCTTTTAATAAAACATTTAAAACGAGTTTAAAGTTTACTGAAAGAACATTTTGATGCT
17115423 TGTGAAAATCAAATTTGGGTTCGGAAGTGGGTTACGTATGGAGAAAGATTAGCCCCCCACAATGC
131 TGTGAAAATCAAATTTGGGTTCGGAAGTGGGTTACGTATGGAGAAAGATTAGCCCCCCACAATGC
*
17115488 CTGTCTACCAATTAATACATGTTATCCTTAGATTTTCATAAAGATAGTCCT
196 CTGTATACCAATTAATACATGTTATCCTTAGATTTTCATAAAGATAGTCCT
*
17115539 ATGAAATAAAAACCAAAACCAAAGAGTTGCCATAAATATTTTTTAAGGTGTGATTAGGCACCCAA
1 ATGAAATAAAAACCAAAACCAAAGAGTTGCCATAAATATTTTTTAAAGTGTGATTAGGCACCCAA
17115604 AAATTATCCTTTTAATAAAACATTTAAAACGAGTTTAAAGTTTACTGAAAGAACATTTTGATGCT
66 AAATTATCCTTTTAATAAAACATTTAAAACGAGTTTAAAGTTTACTGAAAGAACATTTTGATGCT
17115669 TGTGAAAATCAAATTTGGGTTCGGAAGTGGGTTACGTATGGAGAAAGATTAGCCCCCCACAATGC
131 TGTGAAAATCAAATTTGGGTTCGGAAGTGGGTTACGTATGGAGAAAGATTAGCCCCCCACAATGC
17115734 CTGTATACCAATTAATACATGTTATCCTTAGATTTTCATAAAGATAGTCCT
196 CTGTATACCAATTAATACATGTTATCCTTAGATTTTCATAAAGATAGTCCT
17115785 A
1 A
17115786 CTTTAGTGTT
Statistics
Matches: 244, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
246 244 1.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (246 bp):
ATGAAATAAAAACCAAAACCAAAGAGTTGCCATAAATATTTTTTAAAGTGTGATTAGGCACCCAA
AAATTATCCTTTTAATAAAACATTTAAAACGAGTTTAAAGTTTACTGAAAGAACATTTTGATGCT
TGTGAAAATCAAATTTGGGTTCGGAAGTGGGTTACGTATGGAGAAAGATTAGCCCCCCACAATGC
CTGTATACCAATTAATACATGTTATCCTTAGATTTTCATAAAGATAGTCCT
Found at i:17115920 original size:35 final size:33
Alignment explanation
Indices: 17115847--17115912 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
17115837 CTAAATCTAT
* *
17115847 TTTTTTTAATTTTCTTTTAAAACCAAATCATCA
1 TTTTTTTAATTTTCTTTTAAAACAAAATAATCA
*
17115880 TTTTTTTAATTAATTTTTTTAAAACAAAATAAT
1 TTTTTTTAATT--TTCTTTTAAAACAAAATAAT
17115913 TTATTTTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 11 0.39
35 17 0.61
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (33 bp):
TTTTTTTAATTTTCTTTTAAAACAAAATAATCA
Found at i:17116350 original size:27 final size:27
Alignment explanation
Indices: 17116310--17116372 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
17116300 TGGGATCAAG
* * *
17116310 TTGGTTTTAGGGTTTGGTATT-AGGTT
1 TTGGTTTAAAGGTTTGGGATTAAGGTT
*
17116336 TATGGTTTAAAGGTTTGGGGTTAAGGTT
1 T-TGGTTTAAAGGTTTGGGATTAAGGTT
17116364 TTGGTTTAA
1 TTGGTTTAA
17116373 GGACTAAGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 1 0.03
27 24 0.77
28 6 0.19
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.49
Consensus pattern (27 bp):
TTGGTTTAAAGGTTTGGGATTAAGGTT
Found at i:17116393 original size:13 final size:13
Alignment explanation
Indices: 17116377--17116566 Score: 52
Period size: 13 Copynumber: 14.5 Consensus size: 13
17116367 GTTTAAGGAC
17116377 TAAGGTTAGGGTT
1 TAAGGTTAGGGTT
*
17116390 TAAGTTTA-GGTT
1 TAAGGTTAGGGTT
* *
17116402 TGGAGTTTA-GGTT
1 T-AAGGTTAGGGTT
*
17116415 TAGGGTTTAGGGTT
1 TAAGG-TTAGGGTT
*
17116429 T-AGGTTTAAGGTT
1 TAAGG-TTAGGGTT
*
17116442 TAATGTTTA-GGTT
1 TAA-GGTTAGGGTT
* * *
17116455 TAGGGTTTGGTTT
1 TAAGGTTAGGGTT
*
17116468 TAGGGCTTAGGGTT
1 TAAGG-TTAGGGTT
****
17116482 TGCTTTTAGGGTT
1 TAAGGTTAGGGTT
*
17116495 T-AGGATT-TGGTT
1 TAAGG-TTAGGGTT
* *
17116507 TAGGGTGTATGGTT
1 TAAGGT-TAGGGTT
*
17116521 TAATGTTTAGGGTT
1 TAA-GGTTAGGGTT
* * *
17116535 TGA-TTTATGGTT
1 TAAGGTTAGGGTT
* *
17116547 TAAGGTTTGAGTT
1 TAAGGTTAGGGTT
17116560 TAAGGTT
1 TAAGGTT
17116567 TAGAGTATAG
Statistics
Matches: 131, Mismatches: 33, Indels: 26
0.69 0.17 0.14
Matches are distributed among these distances:
12 25 0.19
13 72 0.55
14 31 0.24
15 3 0.02
ACGTcount: A:0.18, C:0.01, G:0.34, T:0.47
Consensus pattern (13 bp):
TAAGGTTAGGGTT
Found at i:17116421 original size:7 final size:7
Alignment explanation
Indices: 17116382--17116587 Score: 116
Period size: 7 Copynumber: 31.3 Consensus size: 7
17116372 AGGACTAAGG
17116382 TTAGGGT
1 TTAGGGT
*
17116389 TTA-AGT
1 TTAGGGT
17116395 TTA-GGT
1 TTAGGGT
17116401 TT-GGAGT
1 TTAGG-GT
17116408 TTA-GGT
1 TTAGGGT
17116414 TTAGGGT
1 TTAGGGT
17116421 TTAGGGT
1 TTAGGGT
17116428 TTA-GGT
1 TTAGGGT
*
17116434 TTAAGGT
1 TTAGGGT
**
17116441 TTAATGT
1 TTAGGGT
17116448 TTA-GGT
1 TTAGGGT
17116454 TTAGGGT
1 TTAGGGT
*
17116461 TT-GGTT
1 TTAGGGT
*
17116467 TTAGGGC
1 TTAGGGT
17116474 TTAGGGT
1 TTAGGGT
**
17116481 TT-GCTT
1 TTAGGGT
17116487 TTAGGGT
1 TTAGGGT
*
17116494 TTAGGAT
1 TTAGGGT
17116501 TT--GGT
1 TTAGGGT
17116506 TTAGGGT
1 TTAGGGT
* *
17116513 GTATGGT
1 TTAGGGT
**
17116520 TTAATGT
1 TTAGGGT
17116527 TTAGGGT
1 TTAGGGT
*
17116534 TT--GAT
1 TTAGGGT
*
17116539 TTATGGT
1 TTAGGGT
*
17116546 TTAAGGT
1 TTAGGGT
*
17116553 TT-GAGT
1 TTAGGGT
*
17116559 TTAAGGT
1 TTAGGGT
*
17116566 TTAGAGT
1 TTAGGGT
* *
17116573 ATA-GAT
1 TTAGGGT
17116579 TTAGGGT
1 TTAGGGT
17116586 TT
1 TT
17116588 CATGGGAAAT
Statistics
Matches: 150, Mismatches: 35, Indels: 28
0.70 0.16 0.13
Matches are distributed among these distances:
5 8 0.05
6 42 0.28
7 100 0.67
ACGTcount: A:0.18, C:0.01, G:0.33, T:0.48
Consensus pattern (7 bp):
TTAGGGT
Found at i:17116429 original size:20 final size:20
Alignment explanation
Indices: 17116382--17116587 Score: 120
Period size: 20 Copynumber: 10.1 Consensus size: 20
17116372 AGGACTAAGG
*
17116382 TTAGGGTTTAAGTTTA-GGT
1 TTAGGGTTTAGGTTTAGGGT
17116401 TT-GGAGTTTAGGTTTAGGGT
1 TTAGG-GTTTAGGTTTAGGGT
*
17116421 TTAGGGTTTAGGTTTAAGGT
1 TTAGGGTTTAGGTTTAGGGT
**
17116441 TTAATGTTTAGGTTTAGGGT
1 TTAGGGTTTAGGTTTAGGGT
* *
17116461 TT-GGTTTTAGGGCTTAGGGTTTGCTT
1 TTAGGGTTTA-GGTTTA-GG---G--T
17116487 TTAGGGTTTAGGATTT--GGT
1 TTAGGGTTTAGG-TTTAGGGT
* **
17116506 TTAGGGTGTATGGTTTAATGT
1 TTAGGGTTTA-GGTTTAGGGT
* *
17116527 TTAGGGTTT-GATTTATGGT
1 TTAGGGTTTAGGTTTAGGGT
* *
17116546 TTAAGGTTT-GAGTTTAAGGT
1 TTAGGGTTTAG-GTTTAGGGT
* * *
17116566 TTAGAGTATAGATTTAGGGT
1 TTAGGGTTTAGGTTTAGGGT
17116586 TT
1 TT
17116588 CATGGGAAAT
Statistics
Matches: 145, Mismatches: 25, Indels: 33
0.71 0.12 0.16
Matches are distributed among these distances:
18 2 0.01
19 45 0.31
20 67 0.46
21 16 0.11
24 2 0.01
26 5 0.03
27 8 0.06
ACGTcount: A:0.18, C:0.01, G:0.33, T:0.48
Consensus pattern (20 bp):
TTAGGGTTTAGGTTTAGGGT
Found at i:17116567 original size:13 final size:14
Alignment explanation
Indices: 17116544--17116572 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17116534 TTGATTTATG
17116544 GTTTAAGGTTT-GA
1 GTTTAAGGTTTAGA
17116557 GTTTAAGGTTTAGA
1 GTTTAAGGTTTAGA
17116571 GT
1 GT
17116573 ATAGATTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (14 bp):
GTTTAAGGTTTAGA
Found at i:17118155 original size:128 final size:129
Alignment explanation
Indices: 17117949--17118184 Score: 316
Period size: 128 Copynumber: 1.8 Consensus size: 129
17117939 AGTTTTCATG
** * * *
17117949 AAAAATCAACCTCAAGAAGTTCAAATTATGAAATTACCCTTAAAAGGTATTTTAGTAATTTCACA
1 AAAAATCAACCTCAAGAAGTTCAAATTACAAAAATACCCTTAAAAGGCATTCTAGTAATTTCACA
* * * *
17118014 CTTTTCGATGTGTGATCAAGGTTTTTAATGCACCAAAAATCATTATGATCTGGAATGTTTTACA
66 CCTTCCAAGGTGTGATCAAGGTTTTTAATGCACCAAAAATCATTATGATCTGGAATGTTTTACA
*
17118078 AAAAATCAACCTTAA-AA-TGTCAAATTACAAAAATACCCCTT-AAAGGCATTCTAGTAATTTCA
1 AAAAATCAACCTCAAGAAGT-TCAAATTACAAAAATA-CCCTTAAAAGGCATTCTAGTAATTTCA
* **
17118140 CACCTTCCAAGGTGTGATCAAGGTTTTTATTGCATTAAAAATCAT
64 CACCTTCCAAGGTGTGATCAAGGTTTTTAATGCACCAAAAATCAT
17118185 GAAATAATAT
Statistics
Matches: 92, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
127 1 0.01
128 72 0.78
129 19 0.21
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.33
Consensus pattern (129 bp):
AAAAATCAACCTCAAGAAGTTCAAATTACAAAAATACCCTTAAAAGGCATTCTAGTAATTTCACA
CCTTCCAAGGTGTGATCAAGGTTTTTAATGCACCAAAAATCATTATGATCTGGAATGTTTTACA
Found at i:17123853 original size:213 final size:213
Alignment explanation
Indices: 17123486--17123911 Score: 834
Period size: 213 Copynumber: 2.0 Consensus size: 213
17123476 TGGATATCCA
*
17123486 TAAACTTACATTTATCCAACCAAGCTCTAAGCTTGTTAAATAATGCACATTTCACATAAGTCATG
1 TAAACTTACATTTATCCAACCAAGCTCTAAGCTTGTTAAATAATGCACACTTCACATAAGTCATG
17123551 CATTTTCCAAATCTTTTAAATATGACACATGTGGCATCTTGTCACTCTATATCTCATATGTTATC
66 CATTTTCCAAATCTTTTAAATATGACACATGTGGCATCTTGTCACTCTATATCTCATATGTTATC
17123616 ATGTCAATGGATTTGGATGGAACCTCTATTTAGTAGATAAGTGGTAGTCTCTAGAGTAAATCCCT
131 ATGTCAATGGATTTGGATGGAACCTCTATTTAGTAGATAAGTGGTAGTCTCTAGAGTAAATCCCT
17123681 AAAGGAAATAGGAAGATT
196 AAAGGAAATAGGAAGATT
*
17123699 TAAACTTACATTTATCCAACCAAGCTCTAAGCTTGTTAAATGATGCACACTTCACATAAGTCATG
1 TAAACTTACATTTATCCAACCAAGCTCTAAGCTTGTTAAATAATGCACACTTCACATAAGTCATG
17123764 CATTTTCCAAATCTTTTAAATATGACACATGTGGCATCTTGTCACTCTATATCTCATATGTTATC
66 CATTTTCCAAATCTTTTAAATATGACACATGTGGCATCTTGTCACTCTATATCTCATATGTTATC
17123829 ATGTCAATGGATTTGGATGGAACCTCTATTTAGTAGATAAGTGGTAGTCTCTAGAGTAAATCCCT
131 ATGTCAATGGATTTGGATGGAACCTCTATTTAGTAGATAAGTGGTAGTCTCTAGAGTAAATCCCT
17123894 AAAGGAAATAGGAAGATT
196 AAAGGAAATAGGAAGATT
17123912 ATATATTAAA
Statistics
Matches: 211, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
213 211 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (213 bp):
TAAACTTACATTTATCCAACCAAGCTCTAAGCTTGTTAAATAATGCACACTTCACATAAGTCATG
CATTTTCCAAATCTTTTAAATATGACACATGTGGCATCTTGTCACTCTATATCTCATATGTTATC
ATGTCAATGGATTTGGATGGAACCTCTATTTAGTAGATAAGTGGTAGTCTCTAGAGTAAATCCCT
AAAGGAAATAGGAAGATT
Found at i:17130594 original size:51 final size:52
Alignment explanation
Indices: 17130506--17130606 Score: 168
Period size: 51 Copynumber: 2.0 Consensus size: 52
17130496 CAACAAAGAT
* * *
17130506 TTTGTTGCTAAAAGCTTAGCAAACTTAGTTTTCACCTTTTAATGATGGAAAC
1 TTTGTTGCTAAAAGCTCAACAAACTTAGTTTACACCTTTTAATGATGGAAAC
17130558 TTTGTTGCTAAAAGCTCAAC-AACTTAGTTTACACCTTTTAATGATGGAA
1 TTTGTTGCTAAAAGCTCAACAAACTTAGTTTACACCTTTTAATGATGGAA
17130607 TTTCTCTCGT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 28 0.61
52 18 0.39
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (52 bp):
TTTGTTGCTAAAAGCTCAACAAACTTAGTTTACACCTTTTAATGATGGAAAC
Found at i:17134125 original size:12 final size:13
Alignment explanation
Indices: 17134108--17134138 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
17134098 ACCAATTTAG
17134108 GTTTTTATTAAA-
1 GTTTTTATTAAAT
17134120 GTTTTTATTAAAT
1 GTTTTTATTAAAT
17134133 GTTTTT
1 GTTTTT
17134139 TAGGAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.65
Consensus pattern (13 bp):
GTTTTTATTAAAT
Found at i:17134683 original size:15 final size:15
Alignment explanation
Indices: 17134660--17134693 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
17134650 TTCGAATCCT
*
17134660 AAAATATCCAAACCC
1 AAAAAATCCAAACCC
*
17134675 AAAAAATCCAAATCC
1 AAAAAATCCAAACCC
17134690 AAAA
1 AAAA
17134694 CTGAGATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.26, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAAAATCCAAACCC
Found at i:17136457 original size:21 final size:20
Alignment explanation
Indices: 17136433--17136481 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
17136423 TACAAAACAT
*
17136433 GATCAATTGTGTAATGGACCC
1 GATCAATT-AGTAATGGACCC
* **
17136454 GATCGATTAGTAATGGACTT
1 GATCAATTAGTAATGGACCC
17136474 GATCAATT
1 GATCAATT
17136482 CTGTGTCCTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (20 bp):
GATCAATTAGTAATGGACCC
Found at i:17137358 original size:30 final size:30
Alignment explanation
Indices: 17137287--17137343 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
17137277 TTGTCATAGG
17137287 AAAAGGTCATTTGCAAAAATTCATATAAAA
1 AAAAGGTCATTTGCAAAAATTCATATAAAA
17137317 AAAAGGTCATTTGCAAAAATTCATATA
1 AAAAGGTCATTTGCAAAAATTCATATA
17137344 TTCACAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.28
Consensus pattern (30 bp):
AAAAGGTCATTTGCAAAAATTCATATAAAA
Found at i:17145489 original size:16 final size:17
Alignment explanation
Indices: 17145453--17145490 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
17145443 GATTTCAGAC
* *
17145453 TTTTTTATGTTTGGATT
1 TTTTTTATGTTTGAATA
17145470 TTTTTTAT-TTTGAATA
1 TTTTTTATGTTTGAATA
17145486 TTTTT
1 TTTTT
17145491 GATAATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.74
Consensus pattern (17 bp):
TTTTTTATGTTTGAATA
Found at i:17145489 original size:17 final size:17
Alignment explanation
Indices: 17145453--17145490 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
17145443 GATTTCAGAC
*
17145453 TTTTTTATGTTTGGATT
1 TTTTTTATGTTTGAATT
17145470 TTTTTTAT-TTTGAATAT
1 TTTTTTATGTTTGAAT-T
17145487 TTTT
1 TTTT
17145491 GATAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.74
Consensus pattern (17 bp):
TTTTTTATGTTTGAATT
Found at i:17146159 original size:29 final size:30
Alignment explanation
Indices: 17146127--17146184 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
17146117 AAGCCAAGGA
17146127 TTGTTTAATATCT-T-AAGAAGTTTCATTTC
1 TTGTTTAATAT-TGTAAAGAAGTTTCATTTC
*
17146156 TTGTTTAATATTGTAAAGGAGTTTCATTT
1 TTGTTTAATATTGTAAAGAAGTTTCATTT
17146185 GTTAAGTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 1 0.04
29 12 0.46
30 13 0.50
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.52
Consensus pattern (30 bp):
TTGTTTAATATTGTAAAGAAGTTTCATTTC
Found at i:17150734 original size:4 final size:4
Alignment explanation
Indices: 17150727--17150762 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
17150717 CAAATTGTTC
17150727 TTCT TTCT TTCT TTCT TTCT TTCT TT-T TTGCT TTCT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TT-CT TTCT
17150763 GAGTTGTAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.10
4 24 0.80
5 3 0.10
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.75
Consensus pattern (4 bp):
TTCT
Found at i:17151533 original size:13 final size:13
Alignment explanation
Indices: 17151517--17151555 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
17151507 AATGATTAAA
17151517 TAAAAATTAAAAT
1 TAAAAATTAAAAT
*
17151530 TAAAAATAAAAAT
1 TAAAAATTAAAAT
17151543 TAATAAATTAAAA
1 TAA-AAATTAAAA
17151556 ACTTTTGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAAATTAAAAT
Found at i:17151552 original size:8 final size:7
Alignment explanation
Indices: 17151517--17151556 Score: 57
Period size: 6 Copynumber: 5.9 Consensus size: 7
17151507 AATGATTAAA
17151517 TAAAAAT
1 TAAAAAT
17151524 T-AAAAT
1 TAAAAAT
17151530 TAAAAA-
1 TAAAAAT
17151536 TAAAAAT
1 TAAAAAT
17151543 TAATAAAT
1 TAA-AAAT
17151551 TAAAAA
1 TAAAAA
17151557 CTTTTGTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
6 12 0.40
7 11 0.37
8 7 0.23
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
TAAAAAT
Found at i:17151805 original size:24 final size:24
Alignment explanation
Indices: 17151760--17151805 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
17151750 ATCTATCAAT
* *
17151760 TTAAATATTTTATTAAAGTTTTTA
1 TTAAATATTTTATAAAAATTTTTA
17151784 TTAAATCATTTT-TAAAAATTTT
1 TTAAAT-ATTTTATAAAAATTTT
17151806 ATAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
TTAAATATTTTATAAAAATTTTTA
Found at i:17157193 original size:2 final size:2
Alignment explanation
Indices: 17157186--17157221 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
17157176 GGCTTACCAA
*
17157186 CT CT CT CT CT CT CT CT CC CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
17157222 TTACCTTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:17160040 original size:27 final size:27
Alignment explanation
Indices: 17160010--17160077 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
17160000 TAAATAGTAA
* *
17160010 TAATTTAATTTTGAGTTTGATAGCTTT
1 TAATATAATTTTGAGTTTGATAACTTT
*
17160037 TAATATAATTTTGATTTTGATAACTTT
1 TAATATAATTTTGAGTTTGATAACTTT
* *
17160064 TAACAAAATTTTGA
1 TAATATAATTTTGA
17160078 TAACTTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.34, C:0.04, G:0.10, T:0.51
Consensus pattern (27 bp):
TAATATAATTTTGAGTTTGATAACTTT
Found at i:17160157 original size:22 final size:21
Alignment explanation
Indices: 17160108--17160164 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
17160098 ATAATTTATT
17160108 ATATAA-TTTGGTAACCATTG
1 ATATAATTTTGGTAACCATTG
*
17160128 ATAAAATTTTGGTAACTTC-TTG
1 ATATAATTTTGGTAAC--CATTG
*
17160150 ATATAATTTTTGTAA
1 ATATAATTTTGGTAA
17160165 TTAATCTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 5 0.16
21 9 0.29
22 16 0.52
23 1 0.03
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.46
Consensus pattern (21 bp):
ATATAATTTTGGTAACCATTG
Found at i:17160492 original size:22 final size:22
Alignment explanation
Indices: 17160467--17160520 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
17160457 ATGATTAATA
*
17160467 ATTAAGTTATTATTAATTTATT
1 ATTAAGTTATTAGTAATTTATT
* *
17160489 ATTATGTTATTAGTGATTTATT
1 ATTAAGTTATTAGTAATTTATT
*
17160511 GTTAAGTTAT
1 ATTAAGTTAT
17160521 CAATAATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (22 bp):
ATTAAGTTATTAGTAATTTATT
Found at i:17160559 original size:22 final size:21
Alignment explanation
Indices: 17160534--17160749 Score: 92
Period size: 22 Copynumber: 10.0 Consensus size: 21
17160524 TAATATATTG
17160534 CTAAATTATCAATGATTTACTA
1 CTAAATTAT-AATGATTTACTA
*
17160556 CTAAATTAGTACTGATTTACTA
1 CTAAATTA-TAATGATTTACTA
* * *
17160578 CTAATTTATAAAAGATTTATTA
1 CTAAATTAT-AATGATTTACTA
*
17160600 ATAAATTATGAATGATTTATTACTTA
1 CTAAATTAT-AATGA--T-TTAC-TA
* * * *
17160626 CTAAGTTACTGATAATTT-GTA
1 CTAAATTA-TAATGATTTACTA
17160647 -TAAAGTTATAACCT-ATTTACTA
1 CTAAA-TTATAA--TGATTTACTA
* *
17160669 -TTAA-T-T--T-ATTTACAA
1 CTAAATTATAATGATTTACTA
* *
17160684 TTAAATTATTAGTGATTTACTA
1 CTAAATTA-TAATGATTTACTA
*
17160706 CTAAATTAATAATAATTTA-TA
1 CTAAATT-ATAATGATTTACTA
17160727 TCTAAATTATCAATGATTTACTA
1 -CTAAATTAT-AATGATTTACTA
17160750 TTATGTTATT
Statistics
Matches: 146, Mismatches: 26, Indels: 43
0.68 0.12 0.20
Matches are distributed among these distances:
15 8 0.05
16 3 0.02
17 1 0.01
19 2 0.01
20 6 0.04
21 15 0.10
22 88 0.60
23 6 0.04
24 2 0.01
25 3 0.02
26 11 0.08
27 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (21 bp):
CTAAATTATAATGATTTACTA
Found at i:17160680 original size:15 final size:15
Alignment explanation
Indices: 17160660--17160693 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
17160650 AGTTATAACC
* *
17160660 TATTTACTATTAATT
1 TATTTACAATTAAAT
17160675 TATTTACAATTAAAT
1 TATTTACAATTAAAT
17160690 TATT
1 TATT
17160694 AGTGATTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTTACAATTAAAT
Found at i:17160758 original size:22 final size:22
Alignment explanation
Indices: 17160733--17160798 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
17160723 TATATCTAAA
17160733 TTATCAATGATTTACTATTATG
1 TTATCAATGATTTACTATTATG
* *
17160755 TTAT-TATGCATTTATTATTATG
1 TTATCAATG-ATTTACTATTATG
*
17160777 TTATCATTGATTTACTACTTAT
1 TTATCAATGATTTACTA-TTAT
17160799 TTTTTGATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 3 0.08
22 27 0.75
23 6 0.17
ACGTcount: A:0.29, C:0.09, G:0.08, T:0.55
Consensus pattern (22 bp):
TTATCAATGATTTACTATTATG
Found at i:17160927 original size:22 final size:21
Alignment explanation
Indices: 17160902--17161009 Score: 67
Period size: 22 Copynumber: 4.8 Consensus size: 21
17160892 ATAATTTATC
17160902 ATTAAGTTATTGATGATTAACT
1 ATTAAGTTATT-ATGATTAACT
* *
17160924 ATT-ACTTAGTTAT-ATTAATTT
1 ATTAAGTTA-TTATGATTAA-CT
*
17160945 ATTTTTAAGTTTTTAATGATTAACT
1 A---TTAAGTTATT-ATGATTAACT
* *
17160970 ATTAAATTATTATTGATTTACT
1 ATTAAGTTATTA-TGATTAACT
*
17160992 ACTAAGTTATTTATGATT
1 ATTAAGTTA-TTATGATT
17161010 TGCTATAAAG
Statistics
Matches: 66, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
20 5 0.08
21 9 0.14
22 33 0.50
23 3 0.05
24 4 0.06
25 7 0.11
26 5 0.08
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (21 bp):
ATTAAGTTATTATGATTAACT
Found at i:17161075 original size:22 final size:22
Alignment explanation
Indices: 17160931--17161114 Score: 81
Period size: 22 Copynumber: 8.4 Consensus size: 22
17160921 ACTATTACTT
* *
17160931 AGTTAT-ATTAATTTATTTTTA
1 AGTTATCATTAATTTACTATTA
* * * * *
17160952 AGTTTTTAATGATTAACTATTA
1 AGTTATCATTAATTTACTATTA
* * * *
17160974 AATTATTATTGATTTACTACTA
1 AGTTATCATTAATTTACTATTA
* *
17160996 AGTTAT--TTATGATTTGCTATAA
1 AGTTATCATTA--ATTTACTATTA
17161018 AGTTTATCAATTAA-TTACTATTAA
1 AG-TTATC-ATTAATTTACTATT-A
* * * *
17161042 ACTGA-AACTAATTTACTATTA
1 AGTTATCATTAATTTACTATTA
*
17161063 AGTTATCATTAATTTATTATTA
1 AGTTATCATTAATTTACTATTA
* * * *
17161085 TGTTATCAATAATTAACTACTA
1 AGTTATCATTAATTTACTATTA
*
17161107 ATTTATCA
1 AGTTATCA
17161115 CTTTTTTTTT
Statistics
Matches: 119, Mismatches: 34, Indels: 19
0.69 0.20 0.11
Matches are distributed among these distances:
20 2 0.02
21 13 0.11
22 86 0.72
23 12 0.10
24 3 0.03
26 3 0.03
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.49
Consensus pattern (22 bp):
AGTTATCATTAATTTACTATTA
Found at i:17161821 original size:30 final size:30
Alignment explanation
Indices: 17161785--17161844 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
17161775 ATGATTCATT
*
17161785 ATCAAGTTATTATTGATTTATAATAAATTA
1 ATCAAGTTATTACTGATTTATAATAAATTA
*
17161815 ATCAAGTTGTTACTGATTTATAATAAATTA
1 ATCAAGTTATTACTGATTTATAATAAATTA
17161845 TGTATGATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (30 bp):
ATCAAGTTATTACTGATTTATAATAAATTA
Found at i:17162005 original size:22 final size:22
Alignment explanation
Indices: 17161934--17162005 Score: 81
Period size: 22 Copynumber: 3.3 Consensus size: 22
17161924 TTAAGTTTTC
* *
17161934 AATGATTAACTAATAAATTATT
1 AATGATTTACTACTAAATTATT
* * *
17161956 AATTATTTACTACTAATTTATC
1 AATGATTTACTACTAAATTATT
*
17161978 ATTGATTTACTACTAAATTATT
1 AATGATTTACTACTAAATTATT
*
17162000 TATGAT
1 AATGAT
17162006 CTCGTATTGT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.47
Consensus pattern (22 bp):
AATGATTTACTACTAAATTATT
Found at i:17162307 original size:22 final size:21
Alignment explanation
Indices: 17162258--17162341 Score: 100
Period size: 21 Copynumber: 4.0 Consensus size: 21
17162248 GAAGTCAACA
*
17162258 ATTATTTACTACTAA-ATATC
1 ATTATTTACTACTAAGTTATC
*
17162278 ATTCATTTACTATTAAGTTATC
1 ATT-ATTTACTACTAAGTTATC
17162300 ACTTATTTACTACTAAGTTATC
1 A-TTATTTACTACTAAGTTATC
*
17162322 GATGA-TTACTACTAAGTTAT
1 -ATTATTTACTACTAAGTTAT
17162342 ACTAATTATA
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
20 3 0.05
21 26 0.46
22 24 0.43
23 3 0.05
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (21 bp):
ATTATTTACTACTAAGTTATC
Found at i:17162331 original size:43 final size:43
Alignment explanation
Indices: 17162259--17162341 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
17162249 AAGTCAACAA
*
17162259 TTATTTACTACTAAATATCATTCATTTACTATTAAGTTATCAC
1 TTATTTACTACTAAATATCATTCATTTACTACTAAGTTATCAC
* *
17162302 TTATTTACTACTAAGTTATCGA-TGA-TTACTACTAAGTTAT
1 TTATTTACTACTAA-ATATC-ATTCATTTACTACTAAGTTAT
17162342 ACTAATTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
43 28 0.80
44 6 0.17
45 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (43 bp):
TTATTTACTACTAAATATCATTCATTTACTACTAAGTTATCAC
Found at i:17165460 original size:17 final size:17
Alignment explanation
Indices: 17165438--17165482 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
17165428 GAGAATCTTT
*
17165438 AAATTCTTACGAACCTG
1 AAATTCTTACGAACATG
***
17165455 AAATTCTTGTAAACATG
1 AAATTCTTACGAACATG
17165472 AAATTCTTACG
1 AAATTCTTACG
17165483 CATTTGAAAG
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (17 bp):
AAATTCTTACGAACATG
Found at i:17165607 original size:17 final size:17
Alignment explanation
Indices: 17165563--17165639 Score: 54
Period size: 17 Copynumber: 4.5 Consensus size: 17
17165553 ATTTTTGAAC
*
17165563 TCTTGC-AAACTTGGAAT
1 TCTTGCGAAAC-TGAAAT
*
17165580 TCTTACG-AACTGAAAT
1 TCTTGCGAAACTGAAAT
*
17165596 TCTTGCGAAACT-AAAGC
1 TCTTGCGAAACTGAAA-T
*
17165613 TCTTGC-AAATCTAAAAT
1 TCTTGCGAAA-CTGAAAT
17165630 TCTTAGCGAA
1 TCTT-GCGAA
17165640 TCCTAAAACC
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
16 17 0.35
17 24 0.50
18 5 0.10
19 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.31
Consensus pattern (17 bp):
TCTTGCGAAACTGAAAT
Found at i:17165758 original size:18 final size:18
Alignment explanation
Indices: 17165710--17165893 Score: 80
Period size: 18 Copynumber: 10.3 Consensus size: 18
17165700 AATTGGTGTG
*
17165710 AATC-TTGACGAATCATGA
1 AATCTTTGA-GAATCTTGA
*
17165728 AACCTTT-ACGAATCTTGA
1 AATCTTTGA-GAATCTTGA
17165746 AATCTTTGAGAATCTTGA
1 AATCTTTGAGAATCTTGA
* * *
17165764 ATTATTTGCAAAAT-TTGA
1 AATCTTTG-AGAATCTTGA
* *
17165782 AA-CTTTTGCA-AAACCTGA
1 AATC-TTTG-AGAATCTTGA
*
17165800 AACCTTT-ACGAATCTTG-
1 AATCTTTGA-GAATCTTGA
* * *
17165817 AATTTTTGTGAATCTCGA
1 AATCTTTGAGAATCTTGA
* * * *
17165835 AATTTTTGTGAATTTTGG
1 AATCTTTGAGAATCTTGA
* *
17165853 TATCTTT-ACGAATCTTAA
1 AATCTTTGA-GAATCTTGA
*
17165871 AATGTTTGAGAATCTTG-
1 AATCTTTGAGAATCTTGA
17165888 AATCTT
1 AATCTT
17165894 GAAACCTTTA
Statistics
Matches: 125, Mismatches: 29, Indels: 25
0.70 0.16 0.14
Matches are distributed among these distances:
16 1 0.01
17 19 0.15
18 96 0.77
19 9 0.07
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (18 bp):
AATCTTTGAGAATCTTGA
Found at i:17166007 original size:36 final size:36
Alignment explanation
Indices: 17165967--17166035 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
17165957 TACAAATCTT
* * *
17165967 GAATCCTTTGCGAATTTTTAAATCTTTGTGAAACTC
1 GAATCCTTTACAAATTTTTAAATCTTTGGGAAACTC
* *
17166003 GAATCTTTTACAAATTTTTGAATCTTTGGGAAA
1 GAATCCTTTACAAATTTTTAAATCTTTGGGAAA
17166036 TTTAAATCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.42
Consensus pattern (36 bp):
GAATCCTTTACAAATTTTTAAATCTTTGGGAAACTC
Found at i:17166030 original size:54 final size:54
Alignment explanation
Indices: 17165950--17166054 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
17165940 TGAACTTTTG
*
17165950 GAATCTTTACAAATCTTGAATCCTTTGCGAATTTTTAAATC-TTT-GTGAAACTC
1 GAATCTTTACAAATCTTGAATCCTTTGCGAA-ATTTAAATCATTTGGTGAAACTC
* *
17166003 GAATCTTTTACAAATTTTTGAAT-CTTTGGGAAATTTAAATCATTTGGTGAAA
1 GAATC-TTTACAAA-TCTTGAATCCTTTGCGAAATTTAAATCATTTGGTGAAA
17166055 TTTTGAATCT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
53 13 0.29
54 19 0.42
55 13 0.29
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.42
Consensus pattern (54 bp):
GAATCTTTACAAATCTTGAATCCTTTGCGAAATTTAAATCATTTGGTGAAACTC
Found at i:17166036 original size:19 final size:19
Alignment explanation
Indices: 17166018--17166066 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 19
17166008 TTTTACAAAT
17166018 TTTTGAATCTTTGG-GAAA
1 TTTTGAATCTTTGGTGAAA
*
17166036 -TTTAAATCATTTGGTGAAA
1 TTTTGAATC-TTTGGTGAAA
17166055 TTTTGAATCTTT
1 TTTTGAATCTTT
17166067 CAATATTCGC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 7 0.27
18 5 0.19
19 7 0.27
20 7 0.27
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.49
Consensus pattern (19 bp):
TTTTGAATCTTTGGTGAAA
Found at i:17166109 original size:19 final size:19
Alignment explanation
Indices: 17166081--17166120 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
17166071 ATTCGCTATC
*
17166081 TTGAGTATTTT-CTGAATTT
1 TTGAGCATTTTACT-AATTT
17166100 TTGAGCATTTTACTAATTT
1 TTGAGCATTTTACTAATTT
17166119 TT
1 TT
17166121 AAATTTTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.23, C:0.07, G:0.12, T:0.57
Consensus pattern (19 bp):
TTGAGCATTTTACTAATTT
Found at i:17166668 original size:15 final size:15
Alignment explanation
Indices: 17166650--17166701 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
17166640 TAATTCATGC
*
17166650 AAAATCAAATCATAG
1 AAAATCAAATCATAA
* *
17166665 AAAATTAATTCATAA
1 AAAATCAAATCATAA
17166680 AAAATCAAATCA-AA
1 AAAATCAAATCATAA
17166694 TAAAATCA
1 -AAAATCA
17166702 CGAATGTGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 2 0.06
15 29 0.94
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.23
Consensus pattern (15 bp):
AAAATCAAATCATAA
Found at i:17166699 original size:30 final size:30
Alignment explanation
Indices: 17166639--17166699 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
17166629 AGTTTGGGGC
** *
17166639 TTAATTCATGCAAAATCAAATCATAGAAAA
1 TTAATTCATAAAAAATCAAATCAAAGAAAA
*
17166669 TTAATTCATAAAAAATCAAATCAAATAAAA
1 TTAATTCATAAAAAATCAAATCAAAGAAAA
17166699 T
1 T
17166700 CACGAATGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.28
Consensus pattern (30 bp):
TTAATTCATAAAAAATCAAATCAAAGAAAA
Found at i:17168243 original size:6 final size:5
Alignment explanation
Indices: 17168201--17168255 Score: 60
Period size: 5 Copynumber: 10.8 Consensus size: 5
17168191 ATATGGGTTG
*
17168201 AAAAT AAAAT AAAAT AAAAT AAAAT AGAAAT -CAA- AAAAT AAAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT -AAAAT AAAAT
17168251 GAAAA
1 -AAAA
17168256 AGGAAAAACC
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
4 4 0.09
5 26 0.60
6 13 0.30
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:17168262 original size:19 final size:20
Alignment explanation
Indices: 17168221--17168263 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
17168211 AAAATAAAAT
*
17168221 AAAATAGAAATCAAAAAATA
1 AAAATAGAAATCAAAAAAGA
* *
17168241 AAAATA-AAATGAAAAAGGA
1 AAAATAGAAATCAAAAAAGA
17168260 AAAA
1 AAAA
17168264 CCTGCAATCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.12
Consensus pattern (20 bp):
AAAATAGAAATCAAAAAAGA
Found at i:17168667 original size:19 final size:20
Alignment explanation
Indices: 17168645--17168682 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
17168635 CTTAAAAACA
17168645 AAAAAAACCAA-AAAAATTT
1 AAAAAAACCAAGAAAAATTT
*
17168664 AAAAAAATCAAGAAAAATT
1 AAAAAAACCAAGAAAAATT
17168683 CATAAATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.16
Consensus pattern (20 bp):
AAAAAAACCAAGAAAAATTT
Found at i:17169129 original size:3 final size:3
Alignment explanation
Indices: 17169114--17169189 Score: 93
Period size: 3 Copynumber: 25.7 Consensus size: 3
17169104 AAAATAAAAT
* ** *
17169114 TAA TAA TAT TAA TAA TGG GAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17169162 TAA TAA TAA TAA TAGA -AA -AA TAA TAA TA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TA
17169190 GTAAACAAGC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
2 3 0.05
3 59 0.94
4 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:17169860 original size:115 final size:116
Alignment explanation
Indices: 17169614--17170024 Score: 422
Period size: 116 Copynumber: 3.5 Consensus size: 116
17169604 GTTGCGAGTT
* * * * * *
17169614 TAAAAATGATTTGATCTGAGTCGAA-ATCAAATGACCGGGATGATGTTGTGAA-TCAAAATAAAG
1 TAAAGATGATTTGACCTGAGTC-AAGATCAAATGACTGGAATGATGCTG-CAAGTCAAAATAAAG
* * * ** * * *
17169677 TGATCAGGATCGAGTCGAGGTCAAAAAT-AATGATCGAACTGATGTCACAAATA
64 TGACCAAGATCGAGTTGAGGTTGAAAATAAATGACCAAACTGATGTC-TAAATA
* * * *
17169730 TGAAA-ATAATCTGACCTGAATCAAGATCAAATAACT-GAGATGATGC-GACAAGTC-AAATAAA
1 T-AAAGATGATTTGACCTGAGTCAAGATCAAATGACTGGA-ATGATGCTG-CAAGTCAAAATAAA
*
17169791 GCGACCAAGATCGAGTTGAGGTTGAAAATAAATGACCAAACTGATGTCTAAATA
63 GTGACCAAGATCGAGTTGAGGTTGAAAATAAATGACCAAACTGATGTCTAAATA
* *
17169845 TAAAGATGATTTGACCTGAGTCAAGATCAAATGATTGGAATGATGCTGCGAGTCAAAATAAAGTG
1 TAAAGATGATTTGACCTGAGTCAAGATCAAATGACTGGAATGATGCTGCAAGTCAAAATAAAGTG
* * *
17169910 ACCAAGATCGAGTTGAGGTTGAAAATAAATGACCAGACTGATGTTGTAAATT
66 ACCAAGATCGAGTTGAGGTTGAAAATAAATGACCAAACTGATG-TCTAAATA
* * * *** * *
17169962 TGAAGATGATTTAACCTGAGTCGAGATCAAATGACTGGGGCGATGCTGCGAGTCAAAACAAAG
1 TAAAGATGATTTGACCTGAGTCAAGATCAAATGACTGGAATGATGCTGCAAGTCAAAATAAAG
17170025 CAACTAGAAT
Statistics
Matches: 248, Mismatches: 37, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
114 3 0.01
115 80 0.32
116 101 0.41
117 64 0.26
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (116 bp):
TAAAGATGATTTGACCTGAGTCAAGATCAAATGACTGGAATGATGCTGCAAGTCAAAATAAAGTG
ACCAAGATCGAGTTGAGGTTGAAAATAAATGACCAAACTGATGTCTAAATA
Found at i:17170052 original size:117 final size:117
Alignment explanation
Indices: 17169584--17170133 Score: 353
Period size: 117 Copynumber: 4.7 Consensus size: 117
17169574 TCGAGATCGT
* * ** * * * * *
17169584 AAATAAATGATCGGACTGATGTTGCGAGTTTAAAAATGATTTGATCTGAGTCGAAATCAAATGAC
1 AAATAAATGACCAGACTGATGTTGTAAATATAAAGATGATTTGACCTGAGTCGAGATCAAATGAC
* * * * * * ** * * * ** *
17169649 CGGGATGATGTTGTGAATCAAAATAAAGTGATCAGGATCGAGTCGAGGTCAA
66 TGGGACGATGCTGCGAGTCAAAACAAAGCAACCAAGATCGAATTAAGGTAAA
* *** * * * * *
17169701 AAAT-AATGATC-GAACTGATGTCACAAATATGAAA-ATAATCTGACCTGAATCAAGATCAAATA
1 AAATAAATGACCAG-ACTGATGTTGTAAATAT-AAAGATGATTTGACCTGAGTCGAGATCAAATG
* * * * * * * **
17169763 ACTGAGATGATGC-GACAAGTC-AAATAAAGCGACCAAGATCGAGTTGAGGTTGA
64 ACTGGGACGATGCTG-CGAGTCAAAACAAAGCAACCAAGATCGAATTAAGGTAAA
* * * *
17169816 AAATAAATGACCAAACTGATG-TCTAAATATAAAGATGATTTGACCTGAGTCAAGATCAAATGAT
1 AAATAAATGACCAGACTGATGTTGTAAATATAAAGATGATTTGACCTGAGTCGAGATCAAATGAC
* * * ** * * **
17169880 TGGAATGATGCTGCGAGTCAAAATAAAGTGACCAAGATCGAGTTGAGGTTGA
66 TGGGACGATGCTGCGAGTCAAAACAAAGCAACCAAGATCGAATTAAGGTAAA
* * *
17169932 AAATAAATGACCAGACTGATGTTGTAAATTTGAAGATGATTTAACCTGAGTCGAGATCAAATGAC
1 AAATAAATGACCAGACTGATGTTGTAAATATAAAGATGATTTGACCTGAGTCGAGATCAAATGAC
* * *
17169997 TGGGGCGATGCTGCGAGTCAAAACAAAGCAA-CTAGAAT-TAATTCAAGGTAAA
66 TGGGACGATGCTGCGAGTCAAAACAAAGCAACCAAG-ATCGAATT-AAGGTAAA
** * * * * * *
17170049 AAATAAATGA-TTGAACTGATGTTGTGAGTCTAAAGATGATCTGACCTAAGTTGAGATCAAATGA
1 AAATAAATGACCAG-ACTGATGTTGTAAATATAAAGATGATTTGACCTGAGTCGAGATCAAATGA
* *
17170113 CTGAGACGATGTTGCGAGTCA
65 CTGGGACGATGCTGCGAGTCA
17170134 TAAGAAATGA
Statistics
Matches: 351, Mismatches: 70, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
114 3 0.01
115 77 0.22
116 125 0.36
117 146 0.42
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (117 bp):
AAATAAATGACCAGACTGATGTTGTAAATATAAAGATGATTTGACCTGAGTCGAGATCAAATGAC
TGGGACGATGCTGCGAGTCAAAACAAAGCAACCAAGATCGAATTAAGGTAAA
Found at i:17170676 original size:19 final size:20
Alignment explanation
Indices: 17170630--17170678 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
17170620 CCATTCATGG
* *
17170630 CAATGTATAAAGAGAAAGGA
1 CAATGTATAAAAAGAAAGAA
*
17170650 CAAGGTATAAAAAGAAA-AA
1 CAATGTATAAAAAGAAAGAA
17170669 CAATGTATAA
1 CAATGTATAA
17170679 GACTAAAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.59, C:0.06, G:0.18, T:0.16
Consensus pattern (20 bp):
CAATGTATAAAAAGAAAGAA
Found at i:17174984 original size:5 final size:5
Alignment explanation
Indices: 17174974--17175015 Score: 75
Period size: 5 Copynumber: 8.2 Consensus size: 5
17174964 AAATAGGTTG
17174974 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AATAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AAAAT A
17175016 GAGAAAGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 31 0.86
6 5 0.14
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:17175867 original size:3 final size:3
Alignment explanation
Indices: 17175859--17175947 Score: 96
Period size: 3 Copynumber: 30.7 Consensus size: 3
17175849 ATAATGAAAA
* * *
17175859 AAT AAT AAT AA- AA- AAT AAT AAT ATT AAT ATT AAT AAT GGA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* *
17175902 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AA- AAT AAT GAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17175948 ACAAGCTATC
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
2 7 0.10
3 64 0.89
4 1 0.01
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17176062 original size:26 final size:26
Alignment explanation
Indices: 17176003--17176063 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
17175993 CTGAACTTTG
* **
17176003 ATGGGCCCAATTAGGCCCAGACCTTA
1 ATGGGCCTAATTAGGCCCAGACCACA
* *
17176029 ATGGGCCTAATTGGGCCCATACCACA
1 ATGGGCCTAATTAGGCCCAGACCACA
17176055 ATGGGCCTA
1 ATGGGCCTA
17176064 GACACAAATG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.26, C:0.30, G:0.25, T:0.20
Consensus pattern (26 bp):
ATGGGCCTAATTAGGCCCAGACCACA
Found at i:17176450 original size:19 final size:20
Alignment explanation
Indices: 17176413--17176454 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
17176403 TATATATTTA
17176413 ATTGCATAATATATTATATT
1 ATTGCATAATATATTATATT
*
17176433 ATTGCATGATAT-TTATATT
1 ATTGCATAATATATTATATT
17176452 ATT
1 ATT
17176455 ACATTATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (20 bp):
ATTGCATAATATATTATATT
Found at i:17176483 original size:14 final size:14
Alignment explanation
Indices: 17176461--17176492 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
17176451 TATTACATTA
17176461 TTTGCATGATAATT
1 TTTGCATGATAATT
*
17176475 TTTGGATGATAATT
1 TTTGCATGATAATT
17176489 TTTG
1 TTTG
17176493 TTTATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.03, G:0.19, T:0.53
Consensus pattern (14 bp):
TTTGCATGATAATT
Found at i:17177822 original size:20 final size:20
Alignment explanation
Indices: 17177793--17177830 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17177783 GCCATTTAAG
* *
17177793 TTGTTTTTTGTATTTATTTA
1 TTGTTCTTTGTATATATTTA
17177813 TTGTTCTTTGTATATATT
1 TTGTTCTTTGTATATATT
17177831 ATGTGCATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.03, G:0.11, T:0.71
Consensus pattern (20 bp):
TTGTTCTTTGTATATATTTA
Found at i:17181035 original size:9 final size:9
Alignment explanation
Indices: 17181030--17181066 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
17181020 ATGAAAAATG
17181030 AAAA-AAAA
1 AAAAGAAAA
17181038 AAAAGAAAA
1 AAAAGAAAA
17181047 AAAAGAAAAA
1 AAAAG-AAAA
17181057 AAAAGAAAA
1 AAAAGAAAA
17181066 A
1 A
17181067 GGGAAAAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 4 0.15
9 14 0.52
10 9 0.33
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:17181036 original size:10 final size:10
Alignment explanation
Indices: 17181033--17181066 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
17181023 AAAAATGAAA
17181033 AAAAAAAAAG
1 AAAAAAAAAG
17181043 -AAAAAAAAG
1 AAAAAAAAAG
17181052 AAAAAAAAAG
1 AAAAAAAAAG
17181062 AAAAA
1 AAAAA
17181067 GGGAAAAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:17181079 original size:12 final size:12
Alignment explanation
Indices: 17181064--17181103 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
17181054 AAAAAAAGAA
17181064 AAAGGGAAAAGG
1 AAAGGGAAAAGG
17181076 AAAGGGAAAAGG
1 AAAGGGAAAAGG
*
17181088 AAAGGGAAAGGG
1 AAAGGGAAAAGG
17181100 AAAG
1 AAAG
17181104 AATTAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.57, C:0.00, G:0.42, T:0.00
Consensus pattern (12 bp):
AAAGGGAAAAGG
Found at i:17181103 original size:6 final size:6
Alignment explanation
Indices: 17181064--17181103 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
17181054 AAAAAAAGAA
* *
17181064 AAAGGG AAAAGG AAAGGG AAAAGG AAAGGG AAAGGG AAAG
1 AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG AAAG
17181104 AATTAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.57, C:0.00, G:0.42, T:0.00
Consensus pattern (6 bp):
AAAGGG
Found at i:17182646 original size:46 final size:47
Alignment explanation
Indices: 17182569--17182720 Score: 168
Period size: 46 Copynumber: 3.3 Consensus size: 47
17182559 CTTCAGGCAT
* *
17182569 AATCACTAAAGTTTTTTGAATGAGAATCTTTGAAATTTTGGATGTGA
1 AATCACTAAAATTTTTTGAATGAAAATCTTTGAAATTTTGGATGTGA
* * * *
17182616 AATCA-TAAAATTTTTTGAATAAAAACCTTTGCAATTTTGGATATGA
1 AATCACTAAAATTTTTTGAATGAAAATCTTTGAAATTTTGGATGTGA
* * ** *
17182662 AA-CAGTAAAATTTTTCGAATGTCAATCTTTGAAATCTTGGATGTG-
1 AATCACTAAAATTTTTTGAATGAAAATCTTTGAAATTTTGGATGTGA
*
17182707 AATC-CTGAAATTTT
1 AATCACTAAAATTTT
17182721 CAAAGAAAAA
Statistics
Matches: 87, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
45 12 0.14
46 70 0.80
47 5 0.06
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (47 bp):
AATCACTAAAATTTTTTGAATGAAAATCTTTGAAATTTTGGATGTGA
Found at i:17183097 original size:18 final size:18
Alignment explanation
Indices: 17183047--17183110 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
17183037 ATATGAAATT
* *
17183047 CTTTGTGAATCCTGAAAC
1 CTTTGAGAATCATGAAAC
** *
17183065 CTTACA-AATCTTGAAAC
1 CTTTGAGAATCATGAAAC
*
17183082 CTTTGAGAATCATGAAAA
1 CTTTGAGAATCATGAAAC
*
17183100 TTTTGAGAATC
1 CTTTGAGAATC
17183111 TTAAAAATTT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
17 14 0.39
18 22 0.61
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (18 bp):
CTTTGAGAATCATGAAAC
Found at i:17183117 original size:18 final size:18
Alignment explanation
Indices: 17183083--17183121 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
17183073 TCTTGAAACC
*
17183083 TTTGAGAATCATGAAAAT
1 TTTGAGAATCATAAAAAT
*
17183101 TTTGAGAATCTTAAAAAT
1 TTTGAGAATCATAAAAAT
17183119 TTT
1 TTT
17183122 TTTAATCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (18 bp):
TTTGAGAATCATAAAAAT
Found at i:17183265 original size:18 final size:18
Alignment explanation
Indices: 17183233--17183267 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17183223 CAAATCTTAA
*
17183233 ATCTTTATGAATCTTGAT
1 ATCTTTATCAATCTTGAT
*
17183251 ATCTTTATCACTCTTGA
1 ATCTTTATCAATCTTGA
17183268 ATCATTGAGA
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:0.26, C:0.17, G:0.09, T:0.49
Consensus pattern (18 bp):
ATCTTTATCAATCTTGAT
Found at i:17183458 original size:44 final size:43
Alignment explanation
Indices: 17183400--17183486 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 43
17183390 AATATTTTAC
* *
17183400 AAATTTCTAAATCTTTAGGAAA-CTTAAATCATTTGGTGAATTTT
1 AAATCTCTAAATCTTTA-CAAATCTTAAAT-ATTTGGTGAATTTT
* * *
17183444 AAATCTCTGAATCTTTACAAATCTTGAATATTTTGTGAATTTT
1 AAATCTCTAAATCTTTACAAATCTTAAATATTTGGTGAATTTT
17183487 CTCTCTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
43 16 0.43
44 21 0.57
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (43 bp):
AAATCTCTAAATCTTTACAAATCTTAAATATTTGGTGAATTTT
Found at i:17184083 original size:30 final size:30
Alignment explanation
Indices: 17184023--17184083 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
17184013 AGTTTCAGGT
* * * *
17184023 TTAATTCATGCAAAATTAAATCACAGAAAA
1 TTAATTCATGAAAAATCAAATCAAACAAAA
17184053 TTAATTCAT-AAAGAATCAAATCAAACAAAA
1 TTAATTCATGAAA-AATCAAATCAAACAAAA
17184083 T
1 T
17184084 CACAAATTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.26
Consensus pattern (30 bp):
TTAATTCATGAAAAATCAAATCAAACAAAA
Found at i:17186203 original size:21 final size:20
Alignment explanation
Indices: 17186179--17186252 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 20
17186169 ATTTTAATAA
17186179 AATTTTGGTAACCTTCGATAT
1 AATTTTGGTAACCTT-GATAT
*
17186200 AATTTTGGTAACTTATGATAT
1 AATTTTGGTAACCT-TGATAT
*
17186221 AATTTTGATAACCACTT-ATAT
1 AATTTTGGTAA-C-CTTGATAT
17186242 AATTTTGGTAA
1 AATTTTGGTAA
17186253 TTTTTGATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
21 42 0.91
22 3 0.07
23 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (20 bp):
AATTTTGGTAACCTTGATAT
Found at i:17186233 original size:42 final size:40
Alignment explanation
Indices: 17186178--17186308 Score: 126
Period size: 42 Copynumber: 3.2 Consensus size: 40
17186168 GATTTTAATA
*
17186178 AAATTTTGGTAACCTTCGATATAATTTTGGTAACTTATGAT
1 AAATTTTGATAACCTTCGATATAATTTTGGTAA-TTATGAT
*
17186219 ATAATTTTGATAACCACTT--ATATAATTTTGGTAATTTTTGAT
1 A-AATTTTGATAA-C-CTTCGATATAATTTTGGTAA-TTATGAT
* * *
17186261 AAA-TTTGATAA-CTTACGATTTATTTTTCGTAATTATTGAT
1 AAATTTTGATAACCTT-CGATATAATTTTGGTAATTA-TGAT
17186301 AAATTTTG
1 AAATTTTG
17186309 TGTCATAATA
Statistics
Matches: 75, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
37 3 0.04
39 2 0.03
40 27 0.36
41 7 0.09
42 32 0.43
43 1 0.01
44 3 0.04
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (40 bp):
AAATTTTGATAACCTTCGATATAATTTTGGTAATTATGAT
Found at i:17186714 original size:22 final size:22
Alignment explanation
Indices: 17186599--17186714 Score: 85
Period size: 22 Copynumber: 5.3 Consensus size: 22
17186589 ATTATCTGTA
17186599 ATTTACTAT-TAAATTATCAATG
1 ATTTAC-ATCTAAATTATCAATG
* * * *
17186621 ATATA-TTGCTAAATTATCACTT
1 ATTTACAT-CTAAATTATCAATG
* * * *
17186643 ATTTATAACTAAATTATTAGTG
1 ATTTACATCTAAATTATCAATG
* *
17186665 ATTTAC-TACTAAGTTATCAATA
1 ATTTACAT-CTAAATTATCAATG
*
17186687 ATTTACATCTAAATTATTAATG
1 ATTTACATCTAAATTATCAATG
17186709 ATTTAC
1 ATTTAC
17186715 TATTATATTA
Statistics
Matches: 70, Mismatches: 19, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
20 1 0.01
22 68 0.97
23 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (22 bp):
ATTTACATCTAAATTATCAATG
Found at i:17186724 original size:22 final size:22
Alignment explanation
Indices: 17186650--17186783 Score: 103
Period size: 22 Copynumber: 6.1 Consensus size: 22
17186640 CTTATTTATA
* *
17186650 ACTAAATTATTAGTGATTTACT
1 ACTATATTATTAATGATTTACT
* *
17186672 ACTA-AGTTATCAATAATTTAC-
1 ACTATA-TTATTAATGATTTACT
*
17186693 ATCTAAATTATTAATGATTTACT
1 A-CTATATTATTAATGATTTACT
*
17186716 ATTATATTATT-ATGCATTTACT
1 ACTATATTATTAATG-ATTTACT
* * *
17186738 ACTATGTTATCATTGATTTACT
1 ACTATATTATTAATGATTTACT
* * * *
17186760 ACTAAATTTTTGATTATTTACT
1 ACTATATTATTAATGATTTACT
17186782 AC
1 AC
17186784 AAAATCATCA
Statistics
Matches: 88, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
21 5 0.06
22 79 0.90
23 4 0.05
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (22 bp):
ACTATATTATTAATGATTTACT
Found at i:17186779 original size:66 final size:66
Alignment explanation
Indices: 17186543--17186782 Score: 186
Period size: 66 Copynumber: 3.6 Consensus size: 66
17186533 CAAATATAAA
* * * * * *
17186543 AAGTTATCAATGATTGACAAT-TAAGTTATTATTGATTTATTATTATATTATCT-GTAATTTACT
1 AAGTTATCAATAATTTAC-ATCTAAATTATTAATGATTTACTATTATATTAT-TAGTGATTTACT
*
17186606 ATT
64 ACT
* * * * * * * * *
17186609 AAATTATCAATGATATA-TTGCTAAATTATCACTTATTTA-TAACTAAATTATTAGTGATTTACT
1 AAGTTATCAATAATTTACAT-CTAAATTATTAATGATTTACT-ATTATATTATTAGTGATTTACT
17186672 ACT
64 ACT
17186675 AAGTTATCAATAATTTACATCTAAATTATTAATGATTTACTATTATATTATTA-TGCATTTACTA
1 AAGTTATCAATAATTTACATCTAAATTATTAATGATTTACTATTATATTATTAGTG-ATTTACTA
17186739 CT
65 CT
* * * * * *
17186741 ATGTTATCATTGATTTAC-TACTAAATTTTTGATTATTTACTA
1 AAGTTATCAATAATTTACAT-CTAAATTATTAATGATTTACTA
17186783 CAAAATCATC
Statistics
Matches: 139, Mismatches: 27, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
64 1 0.01
65 5 0.04
66 131 0.94
67 2 0.01
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (66 bp):
AAGTTATCAATAATTTACATCTAAATTATTAATGATTTACTATTATATTATTAGTGATTTACTAC
T
Found at i:17187090 original size:44 final size:43
Alignment explanation
Indices: 17186543--17187126 Score: 214
Period size: 44 Copynumber: 13.2 Consensus size: 43
17186533 CAAATATAAA
* * * * * *
17186543 AAGTTATCAATGATTGACAATTAAGTTATTATTGATTTATTATT
1 AAGTTATC-ATAATTTACTATTAAATTATCATTGATTTACTATT
* * * * **
17186587 ATA-TTATCTGTAATTTACTATTAAATTATCAATGATATATTGCT
1 A-AGTTATC-ATAATTTACTATTAAATTATCATTGATTTACTATT
* * * * * *
17186631 AAATTATCACTTATTTA-TAACTAAATTATTAGTGATTTACTACT
1 AAGTTATCA-TAATTTACT-ATTAAATTATCATTGATTTACTATT
* *
17186675 AAGTTATCAATAATTTAC-ATCTAAATTATTAATGATTTACTATT
1 AAGTTATC-ATAATTTACTAT-TAAATTATCATTGATTTACTATT
* * * ** *
17186719 ATA-TTATTATGCATTTACTACTATGTTATCATTGATTTACTACTA
1 A-AGTTATCAT-AATTTACTATTAAATTATCATTGATTTACTA-TT
* * * * ** * *** *
17186764 AATTTTTGATTATTTACTACAAAATCATCACAAATTT-CTTATAA
1 AAGTTATCATAATTTACTATTAAATTATCATTGATTTAC-TAT-T
* * * * * * * *
17186808 AACTAACCATAATTCATTATCAAGTTATCATTGTTTTA-TATT
1 AAGTTATCATAATTTACTATTAAATTATCATTGATTTACTATT
* * * *
17186850 AAATTATCCATGATTTACTATTAAATTCTCATTGATTAACTATT
1 AAGTTAT-CATAATTTACTATTAAATTATCATTGATTTACTATT
* * * *
17186894 AAGTTATTGATAATTAACTACTTCTAAGTTAT-ATTGATTTACTTTT
1 AAGTTA-TCATAATTTACTA--T-TAAATTATCATTGATTTACTATT
* * * * * *
17186940 AAGTTTTCAATAATTAATTACTAAATTATCATTGATTCAATATT
1 AAGTTATC-ATAATTTACTATTAAATTATCATTGATTTACTATT
* * * * * *
17186984 AAGTTATTTATGATTTTATTACTAAATTTATCAATT-AATTGCTATT
1 AAGTTA-TCAT-AATTTACTATTAAA-TTATC-ATTGATTTACTATT
* ** * *
17187030 AAATTAAAACTAATTTACTATTAAGTTATCATTAATTTACTATT
1 AAGTTATCA-TAATTTACTATTAAATTATCATTGATTTACTATT
* * * *
17187074 AAGTTATCATTGATTTATTATTAAATTATCAATT-ATTAACTACT
1 AAGTTATCA-TAATTTACTATTAAATTATC-ATTGATTTACTATT
17187118 AAGTTATCA
1 AAGTTATCA
17187127 CTTATTTTTT
Statistics
Matches: 398, Mismatches: 112, Indels: 60
0.70 0.20 0.11
Matches are distributed among these distances:
42 4 0.01
43 43 0.11
44 257 0.65
45 40 0.10
46 45 0.11
47 9 0.02
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.47
Consensus pattern (43 bp):
AAGTTATCATAATTTACTATTAAATTATCATTGATTTACTATT
Found at i:17187132 original size:22 final size:22
Alignment explanation
Indices: 17186829--17187126 Score: 140
Period size: 22 Copynumber: 13.4 Consensus size: 22
17186819 ATTCATTATC
**
17186829 AAGTTATCATTGTTTTA-TATT
1 AAGTTATCATTAATTTACTATT
* *
17186850 AAATTATCCA-TGATTTACTATT
1 AAGTTAT-CATTAATTTACTATT
* * * *
17186872 AAATTCTCATTGATTAACTATT
1 AAGTTATCATTAATTTACTATT
* *
17186894 AAGTTATTGA-TAATTAACTACTTCT
1 AAGTTA-TCATTAATTTACTA--T-T
* *
17186919 AAGTTAT-ATTGATTTACTTTT
1 AAGTTATCATTAATTTACTATT
* * * * *
17186940 AAGTTTTCAATAATTAATTACT
1 AAGTTATCATTAATTTACTATT
* * * *
17186962 AAATTATCATTGATTCAATATT
1 AAGTTATCATTAATTTACTATT
* * * * *
17186984 AAGTTATTTATGATTTTATTACTA
1 AAGTTA-TCATTAATTTACTA-TT
* *
17187008 AATTTATCAATTAA-TTGCTATT
1 AAGTTATC-ATTAATTTACTATT
* ** *
17187030 AAATTAAAACTAATTTACTATT
1 AAGTTATCATTAATTTACTATT
17187052 AAGTTATCATTAATTTACTATT
1 AAGTTATCATTAATTTACTATT
* *
17187074 AAGTTATCATTGATTTATTATT
1 AAGTTATCATTAATTTACTATT
* * *
17187096 AAATTATCAATT-ATTAACTACT
1 AAGTTATC-ATTAATTTACTATT
17187118 AAGTTATCA
1 AAGTTATCA
17187127 CTTATTTTTT
Statistics
Matches: 207, Mismatches: 56, Indels: 28
0.71 0.19 0.10
Matches are distributed among these distances:
21 26 0.13
22 137 0.66
23 19 0.09
24 18 0.09
25 7 0.03
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.48
Consensus pattern (22 bp):
AAGTTATCATTAATTTACTATT
Found at i:17187600 original size:22 final size:21
Alignment explanation
Indices: 17187575--17187625 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
17187565 TATAACTGAT
*
17187575 TTACTAACAATTTACCAATGA
1 TTACTAAAAATTTACCAATGA
*
17187596 GTTACTAAAAATTTATCAATGA
1 -TTACTAAAAATTTACCAATGA
17187618 TTAACTAA
1 TT-ACTAA
17187626 TTTATTACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 24 0.92
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (21 bp):
TTACTAAAAATTTACCAATGA
Found at i:17187715 original size:19 final size:19
Alignment explanation
Indices: 17187691--17187730 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
17187681 GTTAATAGTG
*
17187691 ATTTACTACTAAGTTATCA
1 ATTTACTACTAAATTATCA
*
17187710 ATTTACTATTAAATTATCA
1 ATTTACTACTAAATTATCA
17187729 AT
1 AT
17187731 AATTTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (19 bp):
ATTTACTACTAAATTATCA
Found at i:17187741 original size:22 final size:22
Alignment explanation
Indices: 17187623--17187764 Score: 80
Period size: 22 Copynumber: 6.6 Consensus size: 22
17187613 AATGATTAAC
* * *
17187623 TAATTTATTACTAAATTATCAC
1 TAATTTACTATTAAATTATCAG
*
17187645 TAATTTA-TAATTAAATTATTAG
1 TAATTTACT-ATTAAATTATCAG
* **
17187667 TAATTTGCTATTAGGTTAAT-AG
1 TAATTTACTATTAAATT-ATCAG
* * *
17187689 TGATTTACTACTAAGTTATC--
1 TAATTTACTATTAAATTATCAG
*
17187709 -AATTTACTATTAAATTATCAA
1 TAATTTACTATTAAATTATCAG
* * * *
17187730 TAATTTATTATTATATTTTTA-
1 TAATTTACTATTAAATTATCAG
17187751 TATATTTACTATTA
1 TA-ATTTACTATTA
17187765 TGGTATCATT
Statistics
Matches: 94, Mismatches: 18, Indels: 16
0.73 0.14 0.12
Matches are distributed among these distances:
19 16 0.17
21 5 0.05
22 70 0.74
23 3 0.03
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (22 bp):
TAATTTACTATTAAATTATCAG
Found at i:17187783 original size:85 final size:85
Alignment explanation
Indices: 17187624--17187794 Score: 195
Period size: 85 Copynumber: 2.0 Consensus size: 85
17187614 ATGATTAACT
* * *
17187624 AATTTATTACTAAATTATCACTAATTTATAATTAAATTATTAGTAATTTGCTATTAGGTTAATAG
1 AATTTACTACTAAATTATCAATAATTTATAATTAAATTATTAGTAATTTACTATTAGGTTAATAG
*
17187689 TGATTTACTACTAAGTTATC
66 TGATCTACTACTAAGTTATC
* * * *
17187709 AATTTACTATTAAATTATCAATAATTTATTATTATATTTTTA-TATATTTACTATTATGG-T-AT
1 AATTTACTACTAAATTATCAATAATTTATAATTAAATTATTAGTA-ATTTACTATTA-GGTTAAT
* * *
17187771 CATTGATCTACTACTTATTTATC
64 -AGTGATCTACTACTAAGTTATC
17187794 A
1 A
17187795 CAAAATTATC
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
84 4 0.06
85 66 0.92
86 2 0.03
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (85 bp):
AATTTACTACTAAATTATCAATAATTTATAATTAAATTATTAGTAATTTACTATTAGGTTAATAG
TGATCTACTACTAAGTTATC
Found at i:17187890 original size:22 final size:21
Alignment explanation
Indices: 17187837--17187953 Score: 78
Period size: 22 Copynumber: 5.4 Consensus size: 21
17187827 TATAATTCAT
* *
17187837 TATTAAGTTATTACTGTTTTA-
1 TATTAAGTTA-TATTGATTTAC
*
17187858 TATTAAATTATGCA-TGATTTAC
1 TATTAAGTTAT--ATTGATTTAC
*
17187880 TATTAAGTTATCATTGATTAAC
1 TATTAAGTTAT-ATTGATTTAC
* * *
17187902 CATTATGTTAT-TGATGATCTAC
1 TATTAAGTTATAT--TGATTTAC
*
17187924 TATTAAATTATATTGATTTAC
1 TATTAAGTTATATTGATTTAC
*
17187945 TTTTAAGTT
1 TATTAAGTT
17187954 TTTGATGAAT
Statistics
Matches: 75, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
20 2 0.03
21 31 0.41
22 41 0.55
23 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.50
Consensus pattern (21 bp):
TATTAAGTTATATTGATTTAC
Found at i:17188047 original size:22 final size:22
Alignment explanation
Indices: 17187980--17188048 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
17187970 TATCAATTAA
* *
17187980 TTACTATTAAATTGAAC-CTGAT
1 TTACTAATAAATT-ATCACTGAT
* * *
17188002 TTACTATTAGATTATCACTAAT
1 TTACTAATAAATTATCACTGAT
* *
17188024 TTGCTAATAAATTATCATTGAT
1 TTACTAATAAATTATCACTGAT
17188046 TTA
1 TTA
17188049 TTACTAAGTT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
21 2 0.05
22 35 0.95
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (22 bp):
TTACTAATAAATTATCACTGAT
Found at i:17188302 original size:22 final size:22
Alignment explanation
Indices: 17188276--17188334 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
17188266 CTGATTACAT
17188276 TAAGTT-TTCAATTAT-TAATTAC
1 TAAGTTATT-AATTATCT-ATTAC
17188298 TAAGTTATTAATTATCTATTAC
1 TAAGTTATTAATTATCTATTAC
* *
17188320 TATGTTATTATTTAT
1 TAAGTTATTAATTAT
17188335 TTATATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 30 0.91
23 3 0.09
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (22 bp):
TAAGTTATTAATTATCTATTAC
Found at i:17189373 original size:16 final size:16
Alignment explanation
Indices: 17189352--17189410 Score: 75
Period size: 16 Copynumber: 3.6 Consensus size: 16
17189342 ATTTATTTTT
*
17189352 TTTAAATTATTTAAAA
1 TTTAAATTTTTTAAAA
17189368 TTTAAATATTTTCTAAAA
1 TTTAAAT-TTTT-TAAAA
*
17189386 ATTAAATTTTTTAAAA
1 TTTAAATTTTTTAAAA
17189402 -TTAAATTTT
1 TTTAAATTTT
17189411 ATCAAAACTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
15 9 0.23
16 12 0.31
17 7 0.18
18 11 0.28
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAAATTTTTTAAAA
Found at i:17189390 original size:18 final size:16
Alignment explanation
Indices: 17189353--17189410 Score: 73
Period size: 15 Copynumber: 3.6 Consensus size: 16
17189343 TTTATTTTTT
* *
17189353 TTAAATTATTTAAAAT
1 TTAAATTTTTTAAAAA
17189369 TTAAATATTTTCTAAAAA
1 TTAAAT-TTTT-TAAAAA
17189387 TTAAATTTTTT-AAAA
1 TTAAATTTTTTAAAAA
17189402 TTAAATTTT
1 TTAAATTTT
17189411 ATCAAAACTA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
15 13 0.34
16 7 0.18
17 7 0.18
18 11 0.29
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAAATTTTTTAAAAA
Found at i:17189417 original size:16 final size:15
Alignment explanation
Indices: 17189353--17189417 Score: 60
Period size: 16 Copynumber: 4.0 Consensus size: 15
17189343 TTTATTTTTT
17189353 TTAAATTATTT-AAAA
1 TTAAATT-TTTCAAAA
17189368 TTTAAATATTTTCTAAAAA
1 -TTAAAT-TTTTC--AAAA
*
17189387 TTAAATTTTTTAAAA
1 TTAAATTTTTCAAAA
17189402 TTAAATTTTATCAAAA
1 TTAAATTTT-TCAAAA
17189418 CTATATTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
15 13 0.31
16 14 0.33
17 5 0.12
18 6 0.14
19 4 0.10
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAAATTTTTCAAAA
Found at i:17194445 original size:35 final size:37
Alignment explanation
Indices: 17194405--17194476 Score: 112
Period size: 38 Copynumber: 2.0 Consensus size: 37
17194395 ATTTAGTGAG
17194405 ATAGGCAG-T-TTGTATGATTGAAAGCTAAAATTTAT
1 ATAGGCAGTTATTGTATGATTGAAAGCTAAAATTTAT
*
17194440 ATAGGCAGTTACTTGTGTGATTGAAAGCTAAAATTTA
1 ATAGGCAGTTA-TTGTATGATTGAAAGCTAAAATTTA
17194477 AATGGTTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 8 0.24
36 1 0.03
38 24 0.73
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (37 bp):
ATAGGCAGTTATTGTATGATTGAAAGCTAAAATTTAT
Found at i:17199212 original size:160 final size:157
Alignment explanation
Indices: 17198845--17199339 Score: 524
Period size: 160 Copynumber: 3.1 Consensus size: 157
17198835 TAGGCAAGAT
* * **
17198845 TTACTAT-AAAGATAGTTCATTAACAATTACAATACATAACCAGAATCACAAAGCAAAATACACA
1 TTACTATAAAAG-TAGTTCATCAACAATCACAATACATAACCAGAATCACAAAGCAAAATATGCA
* *
17198909 ATAGTTTTCACCTTT-C-AA-TCATTGCATCGCAATGCACA-TAATATAATATCTAGTTCAATAA
65 ATAGTTTTCACATTTACAAAGTCATTGCATCGCAATACACACT-ATATAATATCTAGTTCAATAA
* * *
17198970 AGAATTTCTTACAA-ATTTTAGGCTTTGAA
129 AGAATTTCTTA-AACATATAAGGCTTTCAA
* * * * *** *
17198999 TTACTATAAATGTAGTTCATCAACAACCATAATGCATAACCATCTTCACAAAGCAAAACATGCAA
1 TTACTATAAAAGTAGTTCATCAACAATCACAATACATAACCAGAATCACAAAGCAAAATATGCAA
* * * *
17199064 TAGCTTTT-ACTTTTAACAAAGTCATTGCATTGCAATACAGACTATATAGTATCTAGTTC-A-AA
66 TAG-TTTTCACATTT-ACAAAGTCATTGCATCGCAATACACACTATATAATATCTAGTTCAATAA
17199126 AGAAATTTCCTCTAAACCATATAAGGCTTTCAA
129 AG-AATTT-CT-TAAA-CATATAAGGCTTTCAA
* * *
17199159 TTA-TAGTAAAAGTAGTTCATCAACAATCACAGTACACAATCAGAATCACAAAGCAAAATATGCA
1 TTACTA-TAAAAGTAGTTCATCAACAATCACAATACATAACCAGAATCACAAAGCAAAATATGCA
* * * *
17199223 ATAGTTTTGACCATTTACAAAGTCATTGCATCGTAATACACACTATATACTACCTAGTTCAATAA
65 ATAGTTTTCA-CATTTACAAAGTCATTGCATCGCAATACACACTATATAATATCTAGTTCAATAA
*
17199288 AGAATTTTCTATACATCATATAAGGCTTTCAA
129 AGAA-TTTCT-TA-AACATATAAGGCTTTCAA
*
17199320 TTACTATAAATGTAGTTCAT
1 TTACTATAAAAGTAGTTCAT
17199340 TAGTAAGTGC
Statistics
Matches: 281, Mismatches: 40, Indels: 33
0.79 0.11 0.09
Matches are distributed among these distances:
154 57 0.20
155 7 0.02
156 5 0.02
157 8 0.03
158 36 0.13
159 9 0.03
160 106 0.38
161 43 0.15
162 10 0.04
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.31
Consensus pattern (157 bp):
TTACTATAAAAGTAGTTCATCAACAATCACAATACATAACCAGAATCACAAAGCAAAATATGCAA
TAGTTTTCACATTTACAAAGTCATTGCATCGCAATACACACTATATAATATCTAGTTCAATAAAG
AATTTCTTAAACATATAAGGCTTTCAA
Found at i:17202976 original size:27 final size:27
Alignment explanation
Indices: 17202946--17203001 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 27
17202936 AATTCATGAG
17202946 ATGCATGA-ACATAATAAAAT-ATGATAA
1 ATGCATGACA-AT-ATAAAATAATGATAA
17202973 ATGCATGACAATATAAAATGAATGATAA
1 ATGCATGACAATATAAAAT-AATGATAA
17203001 A
1 A
17203002 GTATGAATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 7 0.27
27 10 0.38
28 9 0.35
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.25
Consensus pattern (27 bp):
ATGCATGACAATATAAAATAATGATAA
Found at i:17203001 original size:28 final size:27
Alignment explanation
Indices: 17202946--17203001 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 27
17202936 AATTCATGAG
17202946 ATGCATGAACATAATAAAATATGATAA
1 ATGCATGAACATAATAAAATATGATAA
17202973 ATGCATG-ACA-ATATAAAATGAATGATAA
1 ATGCATGAACATA-ATAAAAT--ATGATAA
17203001 A
1 A
17203002 GTATGAATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 1 0.04
26 10 0.38
27 7 0.27
28 8 0.31
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.25
Consensus pattern (27 bp):
ATGCATGAACATAATAAAATATGATAA
Found at i:17203028 original size:18 final size:18
Alignment explanation
Indices: 17202971--17203036 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
17202961 AAAATATGAT
*
17202971 AAATGCATGACAATAT-A
1 AAATGCATGATAATATAA
* *
17202988 AAATGAATGATAA-AGTAT
1 AAATGCATGATAATA-TAA
*
17203006 GAATGCATGATAATATAA
1 AAATGCATGATAATATAA
17203024 AAATGCATG-TAAT
1 AAATGCATGATAAT
17203037 GGGAAAATAA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
16 1 0.03
17 16 0.41
18 21 0.54
19 1 0.03
ACGTcount: A:0.52, C:0.06, G:0.15, T:0.27
Consensus pattern (18 bp):
AAATGCATGATAATATAA
Found at i:17203150 original size:40 final size:40
Alignment explanation
Indices: 17203102--17203190 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
17203092 TTGGTTTCTT
* * *
17203102 TTTAGGGTTTA-TGTTAGGGTTTCAAGTTTAAAGTTTAGGA
1 TTTAGGGTTTAGTATTACGGTTT-AAGGTTAAAGTTTAGGA
* * *
17203142 TTTAGGGTTTAGTATTACGGTTTATGGTTAAGGTTTAGGT
1 TTTAGGGTTTAGTATTACGGTTTAAGGTTAAAGTTTAGGA
17203182 TTTAGGGTT
1 TTTAGGGTT
17203191 AAGGGTTTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 33 0.79
41 9 0.21
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.47
Consensus pattern (40 bp):
TTTAGGGTTTAGTATTACGGTTTAAGGTTAAAGTTTAGGA
Found at i:17205453 original size:4 final size:4
Alignment explanation
Indices: 17205444--17205502 Score: 61
Period size: 4 Copynumber: 14.8 Consensus size: 4
17205434 TGCTCAATAA
*
17205444 AAAT AAAT AAAT -AAT AAAAGT AAAT AAAT AAA- AAAT GAA- AAAT ACAAT
1 AAAT AAAT AAAT AAAT -AAA-T AAAT AAAT AAAT AAAT AAAT AAAT A-AAT
17205492 AAAT AAAT AAA
1 AAAT AAAT AAA
17205503 AATAATTCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
3 8 0.17
4 29 0.62
5 9 0.19
6 1 0.02
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:17205474 original size:31 final size:31
Alignment explanation
Indices: 17205439--17205540 Score: 99
Period size: 31 Copynumber: 3.4 Consensus size: 31
17205429 TAAATTGCTC
17205439 AATAAAAATAAAT-AAATAATAAAAGTAAATA
1 AATAAAAATAAATCAAATAATAAAA-TAAATA
* *
17205470 AAT--AAA-AAATGAAA-AATACAATAAATA
1 AATAAAAATAAATCAAATAATAAAATAAATA
*
17205497 AATAAAAATAATTCAAGAT-ATAAAATAAATA
1 AATAAAAATAAATCAA-ATAATAAAATAAATA
*
17205528 AAAATAAAATAAA
1 AATA-AAAATAAA
17205541 ATGAAAAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
27 9 0.16
28 10 0.17
29 9 0.16
30 5 0.09
31 18 0.31
32 7 0.12
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.22
Consensus pattern (31 bp):
AATAAAAATAAATCAAATAATAAAATAAATA
Found at i:17205494 original size:19 final size:18
Alignment explanation
Indices: 17205439--17205540 Score: 79
Period size: 17 Copynumber: 5.7 Consensus size: 18
17205429 TAAATTGCTC
17205439 AATAAAAATAAATAAAT-
1 AATAAAAATAAATAAATA
*
17205456 AATAAAAGTAAATAAATAAAA
1 AATAAAAATAAATAAAT---A
17205477 AATGAAAAATACAATAAATA
1 AAT-AAAAATA-AATAAATA
* * *
17205497 AATAAAAATAATTCAAGA
1 AATAAAAATAAATAAATA
*
17205515 TAT-AAAATAAAT-AA-A
1 AATAAAAATAAATAAATA
17205530 AAT-AAAATAAA
1 AATAAAAATAAA
17205541 ATGAAAAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
15 11 0.15
16 2 0.03
17 24 0.34
18 7 0.10
19 7 0.10
20 4 0.06
21 3 0.04
22 6 0.08
23 7 0.10
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.22
Consensus pattern (18 bp):
AATAAAAATAAATAAATA
Found at i:17205548 original size:27 final size:26
Alignment explanation
Indices: 17205439--17205541 Score: 89
Period size: 27 Copynumber: 3.7 Consensus size: 26
17205429 TAAATTGCTC
*
17205439 AATAAAAATAAATAAATAATAAAAGTA
1 AATAAAAATAAATAAA-AATAAAAATA
*
17205466 AATAAATAAAAAATGAAAAATACAATAAATA
1 AATAAA-AATAAAT-AAAAAT--AA-AAATA
* * *
17205497 AATAAAAATAATTCAAGATATAAAATA
1 AATAAAAATAAATAAAAATA-AAAATA
17205524 AATAAAAATAAAATAAAA
1 AATAAAAAT-AAATAAAA
17205542 TGAAAAAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
27 21 0.35
28 15 0.25
29 7 0.12
30 7 0.12
31 10 0.17
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (26 bp):
AATAAAAATAAATAAAAATAAAAATA
Found at i:17206363 original size:3 final size:3
Alignment explanation
Indices: 17206344--17206436 Score: 93
Period size: 3 Copynumber: 31.7 Consensus size: 3
17206334 GGGAAAGAAA
* *
17206344 AAT AA- AAT AAA AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * **
17206391 AAT AAT AAA AAA ACAT AAT AAT -AT TAT AAT -AT TGT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17206435 AA
1 AA
17206437 CATAATATAG
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
2 6 0.08
3 68 0.89
4 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17206454 original size:32 final size:33
Alignment explanation
Indices: 17206393--17206464 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
17206383 ATAATAATAA
* * **
17206393 TAATAA-AAAAACATAATAATATTATAATATTG
1 TAATAATAAAAACATAATAATAGTACAATATAC
*
17206425 TAATAATAATAACATAAT-ATAGTACAATATAC
1 TAATAATAAAAACATAATAATAGTACAATATAC
17206457 TAATAATA
1 TAATAATA
17206465 TCCTATACTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 24 0.71
33 10 0.29
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (33 bp):
TAATAATAAAAACATAATAATAGTACAATATAC
Found at i:17206498 original size:15 final size:15
Alignment explanation
Indices: 17206478--17206537 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 15
17206468 TATACTCTAC
17206478 TATAATGTAATATAA
1 TATAATGTAATATAA
* * *
17206493 TATAATATGATTTAA
1 TATAATGTAATATAA
** *
17206508 TATAATGTGTTATAT
1 TATAATGTAATATAA
17206523 TAT-A-GTAATATAA
1 TATAATGTAATATAA
17206536 TA
1 TA
17206538 CTATTAACAA
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
13 8 0.23
14 1 0.03
15 26 0.74
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (15 bp):
TATAATGTAATATAA
Found at i:17206595 original size:18 final size:18
Alignment explanation
Indices: 17206546--17206586 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
17206536 TACTATTAAC
*
17206546 AACAATAACAAATAATAAT
1 AACACTAACAAA-AATAAT
*
17206565 AATACTAACAAAAATAAT
1 AACACTAACAAAAATAAT
17206583 AACA
1 AACA
17206587 GTAATAAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AACACTAACAAAAATAAT
Found at i:17218500 original size:27 final size:27
Alignment explanation
Indices: 17218468--17218528 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
17218458 AATTACTCAG
* * *
17218468 TAAAAAAATAAATAATAAAAGCAGTAAA
1 TAAAAAACTAAA-AATAAAAGAAATAAA
*
17218496 TAAAAAACTAAAAATAAAATAAATAAA
1 TAAAAAACTAAAAATAAAAGAAATAAA
17218523 TAAAAA
1 TAAAAA
17218529 TAATTCAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 18 0.62
28 11 0.38
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.18
Consensus pattern (27 bp):
TAAAAAACTAAAAATAAAAGAAATAAA
Found at i:17218517 original size:19 final size:19
Alignment explanation
Indices: 17218472--17218531 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 19
17218462 ACTCAGTAAA
17218472 AAAATAAAT-AATAAAAGCAGT
1 AAAATAAATAAATAAAA--A-T
17218493 -AAATAAA-AAACTAAAAAT
1 AAAATAAATAAA-TAAAAAT
17218511 AAAATAAATAAATAAAAAT
1 AAAATAAATAAATAAAAAT
17218530 AA
1 AA
17218532 TTCAAAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
18 1 0.03
19 17 0.49
20 12 0.34
21 5 0.14
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.18
Consensus pattern (19 bp):
AAAATAAATAAATAAAAAT
Found at i:17218551 original size:31 final size:31
Alignment explanation
Indices: 17218493--17218563 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
17218483 TAAAAGCAGT
* *
17218493 AAATAAAA-AACT-AAAAATAAAATAAATAA
1 AAATAAAATAATTCAAAAATAAAACAAATAA
*
17218522 ATA-AAAATAATTCAAAATATAAAACAAATAA
1 AAATAAAATAATTCAAAA-ATAAAACAAATAA
17218553 AAATAAAATAA
1 AAATAAAATAA
17218564 AAACCTACGA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 4 0.12
29 5 0.15
30 4 0.12
31 14 0.41
32 7 0.21
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (31 bp):
AAATAAAATAATTCAAAAATAAAACAAATAA
Found at i:17219076 original size:22 final size:22
Alignment explanation
Indices: 17219032--17219082 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
17219022 AATTTAAAAT
* *
17219032 CCAAAATCCTAGAAACCTGAAC
1 CCAAAATCATAGAAACCTAAAC
* *
17219054 CCAAAATTATAGAAACTTAAAC
1 CCAAAATCATAGAAACCTAAAC
*
17219076 CAAAAAT
1 CCAAAAT
17219083 GCCATAAGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.53, C:0.24, G:0.06, T:0.18
Consensus pattern (22 bp):
CCAAAATCATAGAAACCTAAAC
Found at i:17219468 original size:32 final size:33
Alignment explanation
Indices: 17219422--17219495 Score: 98
Period size: 32 Copynumber: 2.2 Consensus size: 33
17219412 AATATGATAA
* *
17219422 TAATAATAACATAACA-AATAATGGTACAATATAG
1 TAATAAT-ACATAACATAAT-ATAGTACAATATAC
17219456 TAATAATA-ATAACATAATATAGTACAATATAC
1 TAATAATACATAACATAATATAGTACAATATAC
17219488 TAATAATA
1 TAATAATA
17219496 TCCTATACTC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
32 26 0.70
33 4 0.11
34 7 0.19
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (33 bp):
TAATAATACATAACATAATATAGTACAATATAC
Found at i:17219529 original size:15 final size:15
Alignment explanation
Indices: 17219509--17219557 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
17219499 TATACTCCAC
17219509 TATAATGTGATATAA
1 TATAATGTGATATAA
* *
17219524 TATAATATGATTTAA
1 TATAATGTGATATAA
* *
17219539 TATAATGTGCTATAT
1 TATAATGTGATATAA
17219554 TATA
1 TATA
17219558 GTAACATAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (15 bp):
TATAATGTGATATAA
Done.