Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 29 of 222
Found at i:8780128 original size:6 final size:6
Alignment explanation
Indices: 8780117--8780141 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8780107 AGTTTTCTTC
8780117 AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG A
8780142 CCTGAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:8781979 original size:16 final size:16
Alignment explanation
Indices: 8781958--8781993 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
8781948 TTTGGTTCGC
8781958 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
8781974 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
8781990 TGTA
1 TGTA
8781994 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:8782058 original size:44 final size:45
Alignment explanation
Indices: 8781974--8782064 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
8781964 GGATTAGAGG
* * *
8781974 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
8782019 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
8782063 TG
1 TG
8782065 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:8782246 original size:16 final size:16
Alignment explanation
Indices: 8782209--8782263 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
8782199 TTAATCATAT
*
8782209 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
8782225 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
8782240 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
8782258 -TAAAAT
1 TTAAAAT
8782264 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:8782256 original size:18 final size:18
Alignment explanation
Indices: 8782215--8782263 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
8782205 ATATTTAAAC
8782215 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
8782233 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
8782249 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
8782264 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:8782400 original size:156 final size:156
Alignment explanation
Indices: 8782116--8782599 Score: 923
Period size: 156 Copynumber: 3.1 Consensus size: 156
8782106 TAGAATACCC
* *
8782116 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
8782181 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
8782246 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
8782272 TTAGCAGAAAATTGTTTTGGTAAATGATTACTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
8782337 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
8782402 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
8782428 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
8782493 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
8782558 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
8782584 TTAGCAGAAATTTGTT
1 TTAGCAGAAAATTGTT
8782600 ATTGTTATTT
Statistics
Matches: 322, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
156 322 1.00
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (156 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:8782402 original size:16 final size:16
Alignment explanation
Indices: 8782365--8782419 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
8782355 TTAATCATAT
*
8782365 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
8782381 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
8782396 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
8782414 -TAAAAT
1 TTAAAAT
8782420 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:8782410 original size:137 final size:146
Alignment explanation
Indices: 8782149--8782717 Score: 737
Period size: 156 Copynumber: 3.8 Consensus size: 146
8782139 ATGATTATTG
8782149 TTATTGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAA
8782214 CATAATTATAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTAGCAG
66 CATAATTATAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAT-ATTAG-AG
*
8782279 AAAATTGTTTTGGTAAATGA
129 AAAATTG-TAT-GTAAATGA
8782299 TTACTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATA
1 TTA----T--TGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATA
8782364 TTTAAACATAATTATAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATAAT
60 TTTAAACATAATTATAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAT-AT
*
8782429 TAGCAGAAAATTGTTTTGGTAAATGA
124 TAG-AGAAAATTG-TAT-GTAAATGA
8782455 TTATTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATA
1 TTA----T--TGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATA
*
8782520 TTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATAAT
60 TTTAAACATAATTATAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAT-AT
8782585 TAGCAG--AA----AT-T---TG-
124 TAG-AGAAAATTGTATGTAAATGA
* * *
8782598 TTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAA
* * * * ****
8782663 CAAAATTATTATTAAATACATTATAATTTTGGTATATAATTTAATAAAATTCTTA
66 CATAATTATAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTA
8782718 ATAATTCATA
Statistics
Matches: 400, Mismatches: 13, Indels: 25
0.91 0.03 0.06
Matches are distributed among these distances:
137 106 0.26
139 1 0.00
143 3 0.01
144 2 0.00
147 1 0.00
149 1 0.00
150 3 0.01
154 3 0.01
156 280 0.70
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (146 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAA
CATAATTATAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTATATTAGAGAA
AATTGTATGTAAATGA
Found at i:8782412 original size:18 final size:18
Alignment explanation
Indices: 8782371--8782419 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
8782361 ATATTTAAAC
8782371 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
8782389 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
8782405 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
8782420 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:8782538 original size:67 final size:67
Alignment explanation
Indices: 8782467--8782679 Score: 159
Period size: 67 Copynumber: 3.1 Consensus size: 67
8782457 ATTGTTAATG
*
8782467 TTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAAT
8782532 TA
66 TA
* * * * * * ***
8782534 TTATTAAATATATTTTAATTAAAATATATAATT-T-AATAA-AATTCTTATAAT--TAGCAGAAA
1 TTATT---TAAATTTTAA-TAAGAT-TATTATTATCAATAATAAATATTTTAATCATA-TTTAAA
** * *
8782594 TTTGTTATTG
60 --CATAATTA
* * *
8782604 TTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACAAAAT
1 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAAT
8782669 TA
66 TA
8782671 TTA-TTAAAT
1 TTATTTAAAT
8782680 ACATTATAAT
Statistics
Matches: 103, Mismatches: 30, Indels: 27
0.64 0.19 0.17
Matches are distributed among these distances:
65 5 0.05
66 12 0.12
67 27 0.26
68 11 0.11
69 12 0.12
70 24 0.23
71 6 0.06
72 6 0.06
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (67 bp):
TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAAT
TA
Found at i:8782562 original size:18 final size:17
Alignment explanation
Indices: 8782541--8782575 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8782531 TTATTATTAA
*
8782541 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
8782559 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8782576 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:8782757 original size:137 final size:135
Alignment explanation
Indices: 8782479--8782757 Score: 321
Period size: 137 Copynumber: 2.0 Consensus size: 135
8782469 ATTTAAATTT
* * * *
8782479 TAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACAAAATTATTATTAAATA
* * * * *
8782544 TATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTAGCAGAAATTTGTTATTGTTATT
66 CATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTA-CA-AAATTTGTAAATGTTACT
* **
8782609 TAAATTT
129 CAAATCA
8782616 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACAAAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACAAAATTATTATTAAATA
**** *
8782681 CATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT-C-ATATTCT-TAAATGAATTT
66 CATTATAATTAAAATATATAATTTAATAAAATTCTT-ATAATTACAAAATT-TGTAAATG---TT
8782743 ACTCAAATCA
126 ACTCAAATCA
8782753 TAATA
1 TAATA
8782758 TATGATACTA
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
134 8 0.07
135 1 0.01
136 1 0.01
137 104 0.87
138 6 0.05
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (135 bp):
TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACAAAATTATTATTAAATA
CATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTACAAAATTTGTAAATGTTACTCA
AATCA
Found at i:8782849 original size:23 final size:24
Alignment explanation
Indices: 8782807--8782855 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
8782797 TATATTTTAA
*
8782807 TTAAAATATATGATTTAATACAAT
1 TTAAAATATATGATTAAATACAAT
* *
8782831 TTAAAATA-ATTATTAAATATAAT
1 TTAAAATATATGATTAAATACAAT
8782854 TT
1 TT
8782856 CATAAAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
TTAAAATATATGATTAAATACAAT
Found at i:8793727 original size:32 final size:32
Alignment explanation
Indices: 8793686--8793747 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
8793676 CATCTATTTG
8793686 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
8793718 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
8793748 ACCAAGAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:8796790 original size:3 final size:3
Alignment explanation
Indices: 8796782--8796836 Score: 76
Period size: 3 Copynumber: 18.3 Consensus size: 3
8796772 GTATATATGT
* *
8796782 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATCC ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
8796828 AT- ATA ATA A
1 ATA ATA ATA A
8796837 CAAAAATAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 42 0.91
4 2 0.04
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8800663 original size:8 final size:8
Alignment explanation
Indices: 8800650--8800682 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
8800640 GATTTTTAAA
8800650 TATTATTT
1 TATTATTT
8800658 TATTATTT
1 TATTATTT
8800666 TATTATTT
1 TATTATTT
8800674 TATT-TTT
1 TATTATTT
8800681 TA
1 TA
8800683 GTATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.20
8 20 0.80
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTATTT
Found at i:8803571 original size:7 final size:7
Alignment explanation
Indices: 8803561--8803592 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
8803551 AAATACCGTT
8803561 TCTTGTC
1 TCTTGTC
8803568 TCTTGTC
1 TCTTGTC
8803575 TCTTGTC
1 TCTTGTC
8803582 TCTTGTC
1 TCTTGTC
8803589 TCTT
1 TCTT
8803593 CTGTCTTCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.00, C:0.28, G:0.12, T:0.59
Consensus pattern (7 bp):
TCTTGTC
Found at i:8803599 original size:14 final size:14
Alignment explanation
Indices: 8803561--8803599 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
8803551 AAATACCGTT
*
8803561 TCTTGTCTCTTGTC
1 TCTTCTCTCTTGTC
*
8803575 TCTTGTCTCTTGTC
1 TCTTCTCTCTTGTC
*
8803589 TCTTCTGTCTT
1 TCTTCTCTCTT
8803600 CAGTGTTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.00, C:0.28, G:0.13, T:0.59
Consensus pattern (14 bp):
TCTTCTCTCTTGTC
Found at i:8804464 original size:14 final size:15
Alignment explanation
Indices: 8804445--8804477 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8804435 AAAACATAAA
8804445 AAAATT-TAAAAAAT
1 AAAATTATAAAAAAT
*
8804459 AAAATTATGAAAAAT
1 AAAATTATAAAAAAT
8804474 AAAA
1 AAAA
8804478 ACTAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (15 bp):
AAAATTATAAAAAAT
Found at i:8804919 original size:23 final size:23
Alignment explanation
Indices: 8804875--8804919 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
8804865 TGGCCAATCC
*
8804875 AAAAAAATAAATTATTAAAAAAT
1 AAAAAAATAAAATATTAAAAAAT
*
8804898 AAAAAAATAAGAATATTTAAAA
1 AAAAAAATAA-AATATTAAAAA
8804920 CTTTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (23 bp):
AAAAAAATAAAATATTAAAAAAT
Found at i:8808546 original size:96 final size:96
Alignment explanation
Indices: 8808436--8808666 Score: 304
Period size: 96 Copynumber: 2.4 Consensus size: 96
8808426 TGTTTATTAT
*
8808436 TTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGT-AATTGAATTAAAAATTAT
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATT-AATTAAAAATT-T
*
8808500 TTA-AAAATCAGATAATGGTTTAGAGTTAAGGG
64 TTATAAAATCAGATAAGGGTTTAGAGTTAAGGG
** * *
8808532 TTTTTAAGGGAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTATAAATTTTT
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAATTTTT
* * * * *
8808597 ATAAAATTATATTAGGGTTTAGTGTTTAGGG
66 ATAAAATCAGATAAGGGTTTAGAGTTAAGGG
* *
8808628 TTTTTAAGTAAAAACTCAAATAAATTAGGGTTTGGGGTT
1 TTTTTAAG-AAAAAATCAAATAAATTAGGGTTTAGGGTT
8808667 TAGGATTACT
Statistics
Matches: 116, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
95 4 0.03
96 83 0.72
97 29 0.25
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.39
Consensus pattern (96 bp):
TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAATTTTT
ATAAAATCAGATAAGGGTTTAGAGTTAAGGG
Found at i:8808928 original size:125 final size:126
Alignment explanation
Indices: 8808699--8808988 Score: 501
Period size: 125 Copynumber: 2.3 Consensus size: 126
8808689 TTGTTAATTT
*
8808699 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAAATTCAAGTAGAC
* *
8808764 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGTTTTGTCAGCAAAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
*
8808825 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAA-AAATTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAAATTCAAGTAGAC
*
8808889 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
* * *
8808950 AAAGAAGCTTCCTCGTGGACGCGCTTTTGCTACAGTAGC
1 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGC
8808989 GCATGTTTGG
Statistics
Matches: 156, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
125 106 0.68
126 50 0.32
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAAATTCAAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTG
Found at i:8812421 original size:18 final size:18
Alignment explanation
Indices: 8812379--8812421 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
8812369 AACTAGAAAA
* * *
8812379 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
8812397 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
*
8812415 AGTATAC
1 AGGATAC
8812422 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:8814278 original size:22 final size:21
Alignment explanation
Indices: 8814253--8814301 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
8814243 TCTTTTAAAT
* *
8814253 AGAAATTTGAGAGGAATTTGAG
1 AGAAATTAGAGA-GAAATTGAG
8814275 AGAATATTAGAGAGAAATTGAG
1 AGAA-ATTAGAGAGAAATTGAG
8814297 AGAAA
1 AGAAA
8814302 GGATTTAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 16 0.67
23 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (21 bp):
AGAAATTAGAGAGAAATTGAG
Found at i:8814297 original size:10 final size:10
Alignment explanation
Indices: 8814253--8814301 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 10
8814243 TCTTTTAAAT
8814253 AGAAATTTGAG
1 AGAAA-TTGAG
*
8814264 AGGAATTTGAG
1 A-GAAATTGAG
8814275 AGAATATTAGAG
1 AGAA-ATT-GAG
8814287 AGAAATTGAG
1 AGAAATTGAG
8814297 AGAAA
1 AGAAA
8814302 GGATTTAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
10 11 0.33
11 12 0.36
12 10 0.30
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (10 bp):
AGAAATTGAG
Found at i:8816824 original size:10 final size:10
Alignment explanation
Indices: 8816809--8816841 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
8816799 AAGAAAGAAA
8816809 GAAAGGGAAG
1 GAAAGGGAAG
*
8816819 GAAAGGAAAG
1 GAAAGGGAAG
8816829 GAAAGGG-AG
1 GAAAGGGAAG
8816838 GAAA
1 GAAA
8816842 AATTATGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.29
10 15 0.71
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (10 bp):
GAAAGGGAAG
Found at i:8828125 original size:12 final size:12
Alignment explanation
Indices: 8828086--8828119 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
8828076 AATTTCGATT
8828086 TCATCATCATCC
1 TCATCATCATCC
*
8828098 TCATCCTCATCC
1 TCATCATCATCC
8828110 TCATCATCAT
1 TCATCATCAT
8828120 TATCATAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.41, G:0.00, T:0.35
Consensus pattern (12 bp):
TCATCATCATCC
Found at i:8839797 original size:21 final size:22
Alignment explanation
Indices: 8839757--8839797 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8839747 TGAGGATGTC
*
8839757 GCGACACCCAAGCTTTGTTGTT
1 GCGACACCAAAGCTTTGTTGTT
*
8839779 GCGACACTAAAGC-TTGTTG
1 GCGACACCAAAGCTTTGTTG
8839798 AGGTGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.29
Consensus pattern (22 bp):
GCGACACCAAAGCTTTGTTGTT
Found at i:8846697 original size:44 final size:42
Alignment explanation
Indices: 8846589--8846703 Score: 121
Period size: 42 Copynumber: 2.7 Consensus size: 42
8846579 AGCTCGTACA
*
8846589 ATGCCAAC-TCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATA-CG
** *
8846631 ATGCCATTGT-ACAGACAG-GGTCTTACACGTAAATCTCAAATA-G
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACGT-AA--TCAAATACG
8846674 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
8846704 ATAACTCATA
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
42 22 0.37
43 14 0.24
44 16 0.27
45 7 0.12
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATACG
Found at i:8848278 original size:43 final size:43
Alignment explanation
Indices: 8848190--8848351 Score: 134
Period size: 43 Copynumber: 3.8 Consensus size: 43
8848180 TACCATAACA
* * * * * * *
8848190 ATGCC-ATATCCCAGATATGGTATTACATGTAATCTCGTATCG
1 ATGCCAATAGCCCAGACATGGTCTTACACGAAATCACATATCG
* * *
8848232 ATGCCAATAGCTCAGCCATGGTCTTACACGAAATCACATATTG
1 ATGCCAATAGCCCAGACATGGTCTTACACGAAATCACATATCG
* *
8848275 ATGCAAAT-GTCCCAGACATGGTCTTACAC-AAATTCTCATATCG
1 ATGCCAATAG-CCCAGACATGGTCTTACACGAAA-TCACATATCG
* * * *
8848318 ATGTC-ATATCCCAGATATGGTCTTACACGTAATC
1 ATGCCAATAGCCCAGACATGGTCTTACACGAAATC
8848352 TCGGTAACCC
Statistics
Matches: 95, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
42 31 0.33
43 64 0.67
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (43 bp):
ATGCCAATAGCCCAGACATGGTCTTACACGAAATCACATATCG
Found at i:8865309 original size:21 final size:21
Alignment explanation
Indices: 8865275--8865315 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8865265 GGGGGAAAGT
*
8865275 GGGAAGAAGTAAAAGTTTTGA
1 GGGAAGAAGTAAAAGGTTTGA
8865296 GGGAA-AAGTAAAAAGGTTTG
1 GGGAAGAAGT-AAAAGGTTTG
8865316 GGAGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.34, T:0.22
Consensus pattern (21 bp):
GGGAAGAAGTAAAAGGTTTGA
Found at i:8865370 original size:9 final size:9
Alignment explanation
Indices: 8865353--8865389 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
8865343 TATAGTTTGA
*
8865353 TATTTGAAT
1 TATTCGAAT
8865362 TATTCGAAT
1 TATTCGAAT
*
8865371 TATTCGAGT
1 TATTCGAAT
8865380 TATTCGAAT
1 TATTCGAAT
8865389 T
1 T
8865390 TGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:8865606 original size:14 final size:14
Alignment explanation
Indices: 8865587--8865626 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
8865577 TTGATTGCCA
8865587 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
8865601 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
8865615 GGAAAATGTTTT
1 GTAAAATGTTTT
8865627 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:8865635 original size:20 final size:20
Alignment explanation
Indices: 8865610--8865649 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8865600 CGTAAAATGA
*
8865610 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
8865630 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
8865650 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:8865639 original size:34 final size:35
Alignment explanation
Indices: 8865595--8865661 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
8865585 CAGTAAAATG
*
8865595 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
8865629 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
8865662 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:8865665 original size:14 final size:15
Alignment explanation
Indices: 8865589--8865665 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
8865579 GATTGCCAGT
* *
8865589 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
8865603 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
8865617 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
8865637 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
8865652 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
8865666 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:8869246 original size:4 final size:4
Alignment explanation
Indices: 8869237--8869314 Score: 102
Period size: 4 Copynumber: 18.2 Consensus size: 4
8869227 CAGCAGAGGG
8869237 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAAA AGAA AGAAA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG-AA AGAA AG-AA
*
8869287 AGAAA AGAA AGGAGA AGAA AGAG AGAA A
1 AG-AA AGAA A-GA-A AGAA AGAA AGAA A
8869315 AAATATATGT
Statistics
Matches: 68, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
4 49 0.72
5 17 0.25
6 2 0.03
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:8869695 original size:50 final size:49
Alignment explanation
Indices: 8869548--8869699 Score: 141
Period size: 50 Copynumber: 3.0 Consensus size: 49
8869538 GTAATTTATG
8869548 ATTAGATTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTT
1 ATTAGATTATAAATT-TTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTT
* * * ** * *
8869598 A-T-GAATGTAAATTTCTTGTTTTTTTAAAATTA-T-TTTGTTAGTAATTTTTT
1 ATTAGATTATAAATTT-TTG--TGTTT-AGTTTAGTGTTTATT-GTGATTTTTT
*
8869648 ATTAGGTTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTT
1 ATTAGATTATAAATT-TTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTT
8869698 AT
1 AT
8869700 GAATGTAATT
Statistics
Matches: 77, Mismatches: 15, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
47 1 0.01
48 12 0.16
49 10 0.13
50 32 0.42
51 10 0.13
52 11 0.14
53 1 0.01
ACGTcount: A:0.24, C:0.01, G:0.15, T:0.60
Consensus pattern (49 bp):
ATTAGATTATAAATTTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTT
Found at i:8869752 original size:203 final size:204
Alignment explanation
Indices: 8869444--8869914 Score: 554
Period size: 203 Copynumber: 2.3 Consensus size: 204
8869434 CTAATAATTA
* *
8869444 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTTATTGTGATTTTTTATGAATGTAAATTTTTTGTT
1 TTATAAATTATTTGTGTTTAGTTTAGTG-TTTATTGTGATTTTTTATGAATGT-AA----TT-TA
***** ** *
8869509 TTTTTAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGATTATAAATTGTTTGTGTTTA
59 AAAAAAAACATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGATTATAAATTGTTTCTGTTTA
* ***** *
8869574 GTTTAGTGTTTATTGTGATTTTTTATGAATGTAAATTT-CTTGTTTTTTTAAAATTATTTTGTTA
124 GTTTAGTGTTTATTGTGATTTTGTATGAATGTAAATTTAAAAAATATTTTAAAATTATTTTGTTA
* *
8869638 GTAATTTTTTATTAGG
189 GTAATTTATGATTAGG
8869654 TTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTAAAAAAAA
1 TTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTAAAAAAAA
* * * *
8869719 ACATTTTAAAGTTCTTTTGTTAGTATTTTATGATTAGGTTATAAATTGTTTCTGTTTATTTTAGT
66 ACATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGATTATAAATTGTTTCTGTTTAGTTTAGT
* *
8869784 GTTTATTGTGATTTTGTATGAATTTAATTTTAAAAAAAAATATTTTAAAATTATTTTGTTAGTAA
131 GTTTATTGTGATTTTGTATGAATGTAAATTT---AAAAAATATTTTAAAATTATTTTGTTAGTAA
8869849 TTTATGATTAGG
193 TTTATGATTAGG
* * * * *
8869861 GTATAAATTA-TT-TGTTTAGTTTAATGTGTATTGTGGTTTGTTAT-AATGTAATTT
1 TTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTT
8869915 TAATTGTTTT
Statistics
Matches: 227, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
203 89 0.39
204 12 0.05
205 28 0.12
206 2 0.01
207 43 0.19
208 2 0.01
209 24 0.11
210 27 0.12
ACGTcount: A:0.28, C:0.01, G:0.15, T:0.56
Consensus pattern (204 bp):
TTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTAAAAAAAA
ACATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGATTATAAATTGTTTCTGTTTAGTTTAGT
GTTTATTGTGATTTTGTATGAATGTAAATTTAAAAAATATTTTAAAATTATTTTGTTAGTAATTT
ATGATTAGG
Found at i:8869788 original size:103 final size:103
Alignment explanation
Indices: 8869444--8869914 Score: 524
Period size: 100 Copynumber: 4.6 Consensus size: 103
8869434 CTAATAATTA
*
8869444 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTTATTGTGATTTTTTATGAATGTAAATTTTTTGTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTG-TTTATTGTGATTTTTTATGAATGT-AA----TT-TA
***** * * *
8869509 TTTTTAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGA
59 AAAAAAAATATTTTAAAATTATTTTGTTAGTAATTTATGATTAGG
***
8869554 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAAATTT----CTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGT-AATTTAAAAAAA
** * * *
8869615 GTTTTTTTAAAATTATTTTGTTAGTAATTTTTTATTAGG
65 AATATTTTAAAATTATTTTGTTAGTAATTTATGATTAGG
*
8869654 TTATAAATTATTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTAAAAAAAA
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTAAAAAAAA
* * * *
8869719 ACATTTTAAAGTTCTTTTGTTAGTATTTTATGATTAGG
66 ATATTTTAAAATTATTTTGTTAGTAATTTATGATTAGG
* * * *
8869757 TTATAAATTGTTTCTGTTTATTTTAGTGTTTATTGTGATTTTGTATGAATTTAATTTTAAAAAAA
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAA-TTTAAAAAAA
8869822 AATATTTTAAAATTATTTTGTTAGTAATTTATGATTAGG
65 AATATTTTAAAATTATTTTGTTAGTAATTTATGATTAGG
* * * * * *
8869861 GTATAAATT-ATT-TGTTTAGTTTAATGTGTATTGTGGTTTGTTAT-AATGTAATTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTT
8869915 TAATTGTTTT
Statistics
Matches: 317, Mismatches: 39, Indels: 20
0.84 0.10 0.05
Matches are distributed among these distances:
99 5 0.02
100 88 0.28
101 6 0.02
102 26 0.08
103 81 0.26
104 54 0.17
105 2 0.01
109 27 0.09
110 28 0.09
ACGTcount: A:0.28, C:0.01, G:0.15, T:0.56
Consensus pattern (103 bp):
TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATGTAATTTAAAAAAAA
ATATTTTAAAATTATTTTGTTAGTAATTTATGATTAGG
Found at i:8870207 original size:21 final size:20
Alignment explanation
Indices: 8870134--8870208 Score: 51
Period size: 21 Copynumber: 3.5 Consensus size: 20
8870124 AATATGAGGT
* * *
8870134 TTATTATATTTTTTATTGTAA
1 TTATAATATTATTTACTGT-A
* *
8870155 TTATATTATTATTCTACTATA
1 TTATAATATTATT-TACTGTA
**
8870176 TTTATTGTATTATTTACTGTA
1 -TTATAATATTATTTACTGTA
8870197 TGTATAATATTA
1 T-TATAATATTA
8870209 ATATGTTTGA
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
20 1 0.02
21 25 0.61
22 15 0.37
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (20 bp):
TTATAATATTATTTACTGTA
Found at i:8871978 original size:6 final size:6
Alignment explanation
Indices: 8871967--8872006 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
8871957 TCTTGCACCC
* * *
8871967 GAGCCA GAGCCA GAGCTA GAGCCA GATCCA GAGGCA GAGC
1 GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGC
8872007 TACACTTTGG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.33, C:0.28, G:0.35, T:0.05
Consensus pattern (6 bp):
GAGCCA
Found at i:8872505 original size:48 final size:48
Alignment explanation
Indices: 8872373--8872540 Score: 159
Period size: 48 Copynumber: 3.5 Consensus size: 48
8872363 ATGCAAAAAT
* * *
8872373 ACAAATTTTGTAATTCAAATTAGATTAATTGCAAC----AAACTT-GA
1 ACAAACTTTGTAATTTAAATTAGATTAATTGCAACATTAAAAATTGGA
* *
8872416 GACAAACTTTGT-ATTTATTTAATTGAGATTCATTGTAACATTAAAAATTGGA
1 -ACAAACTTTGTAATTTA---AATT-AGATTAATTGCAACATTAAAAATTGGA
* ** *
8872468 ACAAACTTTGTAATTTAAATTAAATTAATTGCAACATTAAAAAGAGAA
1 ACAAACTTTGTAATTTAAATTAGATTAATTGCAACATTAAAAATTGGA
*
8872516 ACAAACTTTGTAATATAAATTAGAT
1 ACAAACTTTGTAATTTAAATTAGAT
8872541 ACATTGGAGT
Statistics
Matches: 101, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 4 0.04
44 10 0.10
46 4 0.04
47 12 0.12
48 44 0.44
49 4 0.04
51 16 0.16
52 7 0.07
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.36
Consensus pattern (48 bp):
ACAAACTTTGTAATTTAAATTAGATTAATTGCAACATTAAAAATTGGA
Found at i:8876356 original size:111 final size:114
Alignment explanation
Indices: 8876156--8876364 Score: 370
Period size: 111 Copynumber: 1.9 Consensus size: 114
8876146 TTTATAATAG
8876156 TTACTAACAAAATAACTTTAAAATAAATTAAAAAATAATAAAAAGATTACATTCATAACCTAACA
1 TTACTAACAAAATAACTTTAAAATAAATTAAAAAATAATAAAAAGATTACATTCATAACCTAACA
*
8876221 AATCACAATAAATATTAAACTAAACAAACAATTAACCTCATCATAAAAA
66 AATCACAATAAACATTAAACTAAACAAACAATTAACCTCATCATAAAAA
8876270 TTACTAACAAAATAACTTTAAAATAAATTAAAAAAT-A-AAAAA-ATTACATTCATAACCTAACA
1 TTACTAACAAAATAACTTTAAAATAAATTAAAAAATAATAAAAAGATTACATTCATAACCTAACA
* *
8876332 AATCACAATAAACATTAAATTAAACAAATAATT
66 AATCACAATAAACATTAAACTAAACAAACAATT
8876365 TATAATAGTT
Statistics
Matches: 92, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
111 50 0.54
112 5 0.05
113 1 0.01
114 36 0.39
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.26
Consensus pattern (114 bp):
TTACTAACAAAATAACTTTAAAATAAATTAAAAAATAATAAAAAGATTACATTCATAACCTAACA
AATCACAATAAACATTAAACTAAACAAACAATTAACCTCATCATAAAAA
Found at i:8887319 original size:2 final size:2
Alignment explanation
Indices: 8887312--8887352 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
8887302 TCACACTCAT
8887312 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
8887353 TAAACACAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:8887653 original size:3 final size:3
Alignment explanation
Indices: 8887645--8887681 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
8887635 CCTTTTACCC
*
8887645 CAT CAT CAT CAT CAT CAT CAT TAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
8887682 GAGAACAACG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:8892061 original size:29 final size:27
Alignment explanation
Indices: 8892028--8892082 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
8892018 GTGATTAAAT
8892028 AAAATCGACA-CAAGCAGAATTTAAAAGAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAA
*
8892057 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
8892083 TAAGTCCTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.33
28 2 0.08
29 10 0.42
30 4 0.17
ACGTcount: A:0.60, C:0.11, G:0.15, T:0.15
Consensus pattern (27 bp):
AAAATCGACAGCAAGAAATTAAAAGAA
Found at i:8895585 original size:30 final size:28
Alignment explanation
Indices: 8895551--8895606 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
8895541 GTGATTAAAT
8895551 AAAATCGACA-CAAGCAGAATTTAAAAGAAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAAA
*
8895581 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
8895607 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 8 0.33
29 2 0.08
30 10 0.42
31 4 0.17
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (28 bp):
AAAATCGACAGCAAGAAATTAAAAGAAA
Found at i:8900012 original size:24 final size:24
Alignment explanation
Indices: 8899985--8900033 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
8899975 GCAAGAAGAT
8899985 GATGTTATTCAAATATGCATAATA
1 GATGTTATTCAAATATGCATAATA
8900009 GATGTTATTCAAATATGCATAATA
1 GATGTTATTCAAATATGCATAATA
8900033 G
1 G
8900034 TCTTTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (24 bp):
GATGTTATTCAAATATGCATAATA
Found at i:8903015 original size:13 final size:13
Alignment explanation
Indices: 8902993--8903030 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
8902983 CAAAAGAAAA
8902993 AAAAATTAAAAATT
1 AAAAA-TAAAAATT
*
8903007 AAAAATAAAAAAT
1 AAAAATAAAAATT
8903020 AAAAA-AAAAAT
1 AAAAATAAAAAT
8903031 CCCTCAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 5 0.23
13 12 0.55
14 5 0.23
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAAATAAAAATT
Found at i:8903026 original size:8 final size:7
Alignment explanation
Indices: 8902992--8903029 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
8902982 ACAAAAGAAA
8902992 AAAAAAT
1 AAAAAAT
*
8902999 TAAAAAT
1 AAAAAAT
*
8903006 TAAAAAT
1 AAAAAAT
8903013 AAAAAAT
1 AAAAAAT
8903020 AAAAAA-
1 AAAAAAT
8903026 AAAA
1 AAAA
8903030 TCCCTCAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
AAAAAAT
Found at i:8919057 original size:13 final size:13
Alignment explanation
Indices: 8919041--8919070 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
8919031 CATCAATAGA
8919041 AATTCTCTGAAAT
1 AATTCTCTGAAAT
8919054 AATTCTCTGAAAT
1 AATTCTCTGAAAT
8919067 AATT
1 AATT
8919071 TTTTTAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (13 bp):
AATTCTCTGAAAT
Found at i:8920979 original size:21 final size:23
Alignment explanation
Indices: 8920937--8920979 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
8920927 TAATTAATTA
*
8920937 TAAACAGAAGTAAATCTCTTTTC
1 TAAACAGAAGTAAATATCTTTTC
*
8920960 TAAA-AGAAG-AAATATGTTTT
1 TAAACAGAAGTAAATATCTTTT
8920980 AAAAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (23 bp):
TAAACAGAAGTAAATATCTTTTC
Found at i:8921046 original size:20 final size:20
Alignment explanation
Indices: 8921016--8921054 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
8921006 AAGAGAAATA
8921016 CAAAAAAAAATAG-ATCAAT
1 CAAAAAAAAATAGAATCAAT
8921035 CAAAAAAGAAATAGAATCAA
1 CAAAAAA-AAATAGAATCAA
8921055 CAATTTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 6 0.33
21 5 0.28
ACGTcount: A:0.69, C:0.10, G:0.08, T:0.13
Consensus pattern (20 bp):
CAAAAAAAAATAGAATCAAT
Found at i:8923913 original size:34 final size:34
Alignment explanation
Indices: 8923857--8924001 Score: 200
Period size: 34 Copynumber: 4.3 Consensus size: 34
8923847 GAAGAAATTA
* * * **
8923857 TGCAAGAAAAGATGTGTTAACAGGAAAGATTTTC
1 TGCAAGAAATGATGCGTGAACAGGAAAGATTCCC
*
8923891 TGTAAGAAATGATGCGTGAACAGGAAAGATTCCC
1 TGCAAGAAATGATGCGTGAACAGGAAAGATTCCC
* *
8923925 TGCAAGAAATGATGCATGAACATGAAAGATTCCC
1 TGCAAGAAATGATGCGTGAACAGGAAAGATTCCC
* *
8923959 TGCAAGAAATGATGTGTGAACAGGAAATATTCCC
1 TGCAAGAAATGATGCGTGAACAGGAAAGATTCCC
8923993 TGCAAGAAA
1 TGCAAGAAA
8924002 AGACAAGAAA
Statistics
Matches: 98, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 98 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (34 bp):
TGCAAGAAATGATGCGTGAACAGGAAAGATTCCC
Found at i:8924281 original size:14 final size:13
Alignment explanation
Indices: 8924254--8924291 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
8924244 GTTTTCCAAA
8924254 TTTTCAAATTAAG
1 TTTTCAAATTAAG
8924267 TTTTCAAACTTAAG
1 TTTTCAAA-TTAAG
8924281 TTTTCAAATTA
1 TTTTCAAATTA
8924292 CAAATATCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (13 bp):
TTTTCAAATTAAG
Found at i:8926237 original size:17 final size:17
Alignment explanation
Indices: 8926215--8926258 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
8926205 AGTTGTCTTA
8926215 CTTGCAATGCAAACGTT
1 CTTGCAATGCAAACGTT
* *
8926232 CTTGCAATGTAAATGTT
1 CTTGCAATGCAAACGTT
*
8926249 CTTACAATGC
1 CTTGCAATGC
8926259 CACTTATCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (17 bp):
CTTGCAATGCAAACGTT
Found at i:8928992 original size:18 final size:18
Alignment explanation
Indices: 8928959--8928993 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8928949 AGATGTAACC
*
8928959 GAGAAAGAAGATGCAGTT
1 GAGAAAGAAGAGGCAGTT
*
8928977 GAGAAAGAAGGGGCAGT
1 GAGAAAGAAGAGGCAGT
8928994 GAATGTGGTT
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:0.43, C:0.06, G:0.40, T:0.11
Consensus pattern (18 bp):
GAGAAAGAAGAGGCAGTT
Found at i:8933908 original size:16 final size:17
Alignment explanation
Indices: 8933869--8933913 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
8933859 ACTTGAGAAA
*
8933869 AATTGAGAGAATTAAGAG
1 AATTGAGAG-TTTAAGAG
*
8933887 AGTTGAGAGTTTAA-AG
1 AATTGAGAGTTTAAGAG
8933903 AATTGAGAGTT
1 AATTGAGAGTT
8933914 GGATTTGAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 12 0.50
17 4 0.17
18 8 0.33
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (17 bp):
AATTGAGAGTTTAAGAG
Found at i:8934641 original size:7 final size:7
Alignment explanation
Indices: 8934629--8934656 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
8934619 CTCTTATTTA
8934629 TATAAAT
1 TATAAAT
8934636 TATAAAT
1 TATAAAT
8934643 TATAAAT
1 TATAAAT
8934650 TATAAAT
1 TATAAAT
8934657 ATGGTTGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TATAAAT
Found at i:8938662 original size:30 final size:31
Alignment explanation
Indices: 8938626--8938709 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 31
8938616 TTTAAAAGTC
* **
8938626 AATTTTTTTTGCCAAATTTTAAGGGGTC-AA
1 AATTTTTTTTACCAAATTTTAAGGGACCTAA
*
8938656 AA-TTTTTTTACCACATTTTAAGGGACCTAA
1 AATTTTTTTTACCAAATTTTAAGGGACCTAA
* *
8938686 AATTTTTTTTCTCCAACTTTTAAG
1 AATTTTTTTT-ACCAAATTTTAAG
8938710 AATCTAAAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 21 0.48
30 6 0.14
31 7 0.16
32 10 0.23
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (31 bp):
AATTTTTTTTACCAAATTTTAAGGGACCTAA
Found at i:8940201 original size:205 final size:203
Alignment explanation
Indices: 8939820--8940228 Score: 719
Period size: 203 Copynumber: 2.0 Consensus size: 203
8939810 AGTGTAATCC
* *
8939820 TTTTAGGAAGTGTAAGTATTTAGACTTTGAAAAAAAATTTAAGGACATTTTAGGAGTTCAATAGT
1 TTTTAGGAAGTGTAAGTATTTAGACTTAGAAAAAAAAATTAAGGACATTTTAGGAGTTCAATAGT
*
8939885 TTGAAAACATTTGAAACTTGAGATAAATGTTAATTTAATGAATATAGTTTAAGGCAGGACATGCT
66 TTGAAAACATTTGAAACTTGAGATAAATGTTAATTTAATGAATATAGTTTAAGCCAGGACATGCT
8939950 CTATAGTTGGCATAATTGATGTGAGAGCTGATTGTTATTGGATGATGGGCCACGTGTCACTCTCA
131 CTATAGTTGGCATAATTGATGTGAGAGCTGATTGTTATTGGATGATGGGCCACGTGTCACTCTCA
8940015 TATTAGCT
196 TATTAGCT
* *
8940023 TTTTAGGGAGTGTAAGTATTTAGACTTAGAAAAAAAAATTAAGGACATTTTAGGAGTTCAATGGT
1 TTTTAGGAAGTGTAAGTATTTAGACTTAGAAAAAAAAATTAAGGACATTTTAGGAGTTCAATAGT
* *
8940088 TTGAAAACATTTGAAACTTGAGATAAATGTTAATTTGATGGAAATATAGTTTAAGCCGGGACATG
66 TTGAAAACATTTGAAACTTGAGATAAATGTTAATTTAAT-G-AATATAGTTTAAGCCAGGACATG
*
8940153 CTCTATAGTTGGCGTAATTGATGTGAGAGCTGATTGTTATTGGATGATGGGCCACGTGTCACTCT
129 CTCTATAGTTGGCATAATTGATGTGAGAGCTGATTGTTATTGGATGATGGGCCACGTGTCACTCT
*
8940218 CGTATTAGCT
194 CATATTAGCT
8940228 T
1 T
8940229 GAGGAGCAGC
Statistics
Matches: 195, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
203 99 0.51
204 1 0.01
205 95 0.49
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (203 bp):
TTTTAGGAAGTGTAAGTATTTAGACTTAGAAAAAAAAATTAAGGACATTTTAGGAGTTCAATAGT
TTGAAAACATTTGAAACTTGAGATAAATGTTAATTTAATGAATATAGTTTAAGCCAGGACATGCT
CTATAGTTGGCATAATTGATGTGAGAGCTGATTGTTATTGGATGATGGGCCACGTGTCACTCTCA
TATTAGCT
Found at i:8942707 original size:41 final size:41
Alignment explanation
Indices: 8942656--8942883 Score: 368
Period size: 41 Copynumber: 5.6 Consensus size: 41
8942646 TAGGCTTAGC
* *
8942656 GCCTAACAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
* *
8942697 GCCTAGCAGGCTAAGTGTCGGTGAACTGAATCAGGTTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
*
8942738 GCCTAGCAGGCTAAGTGCC-GTGATCTGAATCAGGCTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
* * *
8942778 GCCTAGCAGACTAAGTGCCGATGAGCTGAATCAGGTTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
*
8942819 GCCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGTTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
8942860 GCCTAGCAGGCTAAGTGCCGGTGA
1 GCCTAGCAGGCTAAGTGCCGGTGA
8942884 ATTTGTTTAA
Statistics
Matches: 170, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 37 0.22
41 133 0.78
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (41 bp):
GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
Found at i:8942792 original size:81 final size:81
Alignment explanation
Indices: 8942656--8942884 Score: 377
Period size: 81 Copynumber: 2.8 Consensus size: 81
8942646 TAGGCTTAGC
* *
8942656 GCCTAACAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGTCGGTGA
1 GCCTAGCAGGCTAAGTGCC-GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGA
8942721 ACTGAATCAGGTTATAA
65 ACTGAATCAGGTTATAA
* * *
8942738 GCCTAGCAGGCTAAGTGCCGTGATCTGAATCAGGCTATAAGCCTAGCAGACTAAGTGCCGATGAG
1 GCCTAGCAGGCTAAGTGCCGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAA
8942803 CTGAATCAGGTTATAA
66 CTGAATCAGGTTATAA
* *
8942819 GCCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGGTGA
1 GCCTAGCAGGCTAAGTG-CCGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGA
8942884 A
65 A
8942885 TTTGTTTAAA
Statistics
Matches: 136, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
81 75 0.55
82 61 0.45
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (81 bp):
GCCTAGCAGGCTAAGTGCCGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAA
CTGAATCAGGTTATAA
Found at i:8942864 original size:122 final size:122
Alignment explanation
Indices: 8942656--8942879 Score: 394
Period size: 122 Copynumber: 1.8 Consensus size: 122
8942646 TAGGCTTAGC
* * *
8942656 GCCTAACAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGTCGGTGA
1 GCCTAACAGACTAAGTGCCGATGAGCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGTCGGTGA
8942721 ACTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGTGATCTGAATCAGGCTATAA
66 ACTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGTGATCTGAATCAGGCTATAA
* *
8942778 GCCTAGCAGACTAAGTGCCGATGAGCTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGTCGGTGA
1 GCCTAACAGACTAAGTGCCGATGAGCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGTCGGTGA
*
8942843 TCTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCG
66 ACTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCG
8942880 GTGAATTTGT
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
122 96 1.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (122 bp):
GCCTAACAGACTAAGTGCCGATGAGCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGTCGGTGA
ACTGAATCAGGTTATAAGCCTAGCAGGCTAAGTGCCGTGATCTGAATCAGGCTATAA
Found at i:8943126 original size:34 final size:35
Alignment explanation
Indices: 8943058--8943126 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 35
8943048 TGTTGGATAT
* *
8943058 ATATATGTATGCATTCGGCATATGTGGATTATAAGA
1 ATATATG-ATGCATTCGGCACATGTAGATTATAAGA
8943094 ATATATG-TGCATTCGGCACATGTAG-TTGATAAG
1 ATATATGATGCATTCGGCACATGTAGATT-ATAAG
8943127 TATAAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 2 0.07
34 21 0.70
36 7 0.23
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (35 bp):
ATATATGATGCATTCGGCACATGTAGATTATAAGA
Found at i:8946335 original size:4 final size:4
Alignment explanation
Indices: 8946326--8946361 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
8946316 TTAAACTAAG
8946326 TAAA TAAA TAAA TAAA TAAA TAAA TATAA -AAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TA-AA TAAA TAAA
8946362 ACTTTACAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 2 0.07
4 26 0.87
5 2 0.07
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:8947761 original size:23 final size:22
Alignment explanation
Indices: 8947709--8947761 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
8947699 TCCACGTCTT
*
8947709 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
8947731 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
8947754 TTTCTTTT
1 TTTCTTTT
8947762 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:8947786 original size:27 final size:27
Alignment explanation
Indices: 8947756--8947807 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
8947746 TTCTTCAATT
8947756 TCTTTTTCACTCTCAATCTCTTTTTGC
1 TCTTTTTCACTCTCAATCTCTTTTTGC
* **
8947783 TCTTTTTCATTCTCTTTCTCTTTTT
1 TCTTTTTCACTCTCAATCTCTTTTT
8947808 CCTCACTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.08, C:0.27, G:0.02, T:0.63
Consensus pattern (27 bp):
TCTTTTTCACTCTCAATCTCTTTTTGC
Found at i:8950149 original size:4 final size:4
Alignment explanation
Indices: 8950140--8950175 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
8950130 TTAAACTAAG
8950140 TAAA TAAA TAAA TAAA TAAA TAAA TATAA -AAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TA-AA TAAA TAAA
8950176 ACTTTACAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 2 0.07
4 26 0.87
5 2 0.07
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:8957037 original size:30 final size:30
Alignment explanation
Indices: 8957001--8957077 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
8956991 TAATTGAATA
8957001 AATTCGGCAATGTATAACCAAATACAAATC
1 AATTCGGCAATGTATAACCAAATACAAATC
* * *
8957031 AATTCGGCAATGTATATCCATATACGAATC
1 AATTCGGCAATGTATAACCAAATACAAATC
*
8957061 AATTCAGCAATGTATAA
1 AATTCGGCAATGTATAA
8957078 AACATATACA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (30 bp):
AATTCGGCAATGTATAACCAAATACAAATC
Found at i:8970467 original size:6 final size:6
Alignment explanation
Indices: 8970450--8970490 Score: 66
Period size: 6 Copynumber: 6.8 Consensus size: 6
8970440 TTTGGACTCA
8970450 GTTTTCG GTTTTG GTTTTG GTTTT- GTTTTG GTTTTG GTTTT
1 GTTTT-G GTTTTG GTTTTG GTTTTG GTTTTG GTTTTG GTTTT
8970491 TGTGTTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.15
6 23 0.70
7 5 0.15
ACGTcount: A:0.00, C:0.02, G:0.29, T:0.68
Consensus pattern (6 bp):
GTTTTG
Found at i:8970479 original size:17 final size:17
Alignment explanation
Indices: 8970457--8970490 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8970447 TCAGTTTTCG
8970457 GTTTTGGTTTTGGTTTT
1 GTTTTGGTTTTGGTTTT
8970474 GTTTTGGTTTTGGTTTT
1 GTTTTGGTTTTGGTTTT
8970491 TGTGTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.29, T:0.71
Consensus pattern (17 bp):
GTTTTGGTTTTGGTTTT
Found at i:8976066 original size:39 final size:39
Alignment explanation
Indices: 8975991--8976068 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
8975981 CATATTACAT
* * *
8975991 ATATAATCACCTAACATACAAGTATATATCACAATACTC
1 ATATAATCACATAACATACAAGCATATATCAAAATACTC
** *
8976030 ATATAATCACATAACATTTAAGCATATGTCAAAATACTC
1 ATATAATCACATAACATACAAGCATATATCAAAATACTC
8976069 GAAAACATCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.29
Consensus pattern (39 bp):
ATATAATCACATAACATACAAGCATATATCAAAATACTC
Found at i:8980188 original size:21 final size:22
Alignment explanation
Indices: 8980162--8980221 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
8980152 ATAGCAGATT
*
8980162 CAGATCATGCTTAACA-AATAA
1 CAGATCATACTTAACATAATAA
*
8980183 CAGATCGTACTTAACATAAT-A
1 CAGATCATACTTAACATAATAA
* * *
8980204 CAAATTATACTTAGCATA
1 CAGATCATACTTAACATA
8980222 CAACTTATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 29 0.91
22 3 0.09
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.28
Consensus pattern (22 bp):
CAGATCATACTTAACATAATAA
Found at i:8994048 original size:60 final size:60
Alignment explanation
Indices: 8993980--8994101 Score: 217
Period size: 60 Copynumber: 2.0 Consensus size: 60
8993970 AGCATTACTT
* *
8993980 ATGATATCTGAATGTATGTACTATTAATTGCATAATTGCATGTCTTATTTTGTATGTTGC
1 ATGATATCTGAATGTATGTACTATTAATTGCATAATTGCATGACATATTTTGTATGTTGC
*
8994040 ATGATATCTGAATGTATGTACTATTAATTGCATAATTGCATGACATATTTTGTTTGTTGC
1 ATGATATCTGAATGTATGTACTATTAATTGCATAATTGCATGACATATTTTGTATGTTGC
8994100 AT
1 AT
8994102 TGCGTCGAGG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.46
Consensus pattern (60 bp):
ATGATATCTGAATGTATGTACTATTAATTGCATAATTGCATGACATATTTTGTATGTTGC
Found at i:9002778 original size:19 final size:20
Alignment explanation
Indices: 9002744--9002783 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
9002734 TTTTTTTCTC
9002744 TTTTTGAAGTTGTATGGAAAA
1 TTTTTGAAG-TGTATGGAAAA
*
9002765 TTTTTGAA-TGTATGTAAAA
1 TTTTTGAAGTGTATGGAAAA
9002784 AAAATTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (20 bp):
TTTTTGAAGTGTATGGAAAA
Found at i:9003935 original size:3 final size:3
Alignment explanation
Indices: 9003927--9003971 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
9003917 CGATGTTCCC
9003927 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
9003972 AAAATTGAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:9007304 original size:28 final size:28
Alignment explanation
Indices: 9007273--9007326 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
9007263 ACTAAAAATT
* *
9007273 TTACTTTTTTGTTTCTCTACTCTACTCC
1 TTACGTTTTTGTTTCCCTACTCTACTCC
*
9007301 TTACGTTTTTGTTTCCCTCCTCTACT
1 TTACGTTTTTGTTTCCCTACTCTACT
9007327 TCTTCTCTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.09, C:0.30, G:0.06, T:0.56
Consensus pattern (28 bp):
TTACGTTTTTGTTTCCCTACTCTACTCC
Found at i:9011678 original size:28 final size:28
Alignment explanation
Indices: 9011584--9011686 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 28
9011574 GTGTTATATG
*
9011584 TATAATATATTTGTGTGGGTCTGTTATATACA
1 TATAATATATATGTGT-GGT-T-TTAT-TACA
* * ** *
9011616 TAGTACAAATATATGTGTGGTTCTGCTATA
1 TA-TA-ATATATATGTGTGGTTTTATTACA
*
9011646 CATAATATATATGTGTGGTTTTATTACA
1 TATAATATATATGTGTGGTTTTATTACA
9011674 TATAATATATATG
1 TATAATATATATG
9011687 CAGTTATAAG
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
28 31 0.55
29 2 0.04
30 4 0.07
31 1 0.02
32 3 0.05
33 5 0.09
34 10 0.18
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.45
Consensus pattern (28 bp):
TATAATATATATGTGTGGTTTTATTACA
Found at i:9024781 original size:30 final size:30
Alignment explanation
Indices: 9024745--9024801 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9024735 CATGTACATA
*
9024745 TATAAAAAA-ATTATATACATATATATAGAT
1 TATAAAAAAGATAAT-TACATATATATAGAT
9024775 TATAAAAAAGATAATTACATATATATA
1 TATAAAAAAGATAATTACATATATATA
9024802 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (30 bp):
TATAAAAAAGATAATTACATATATATAGAT
Found at i:9024987 original size:17 final size:17
Alignment explanation
Indices: 9024965--9025008 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
9024955 TAGGGAATAA
9024965 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
9024982 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
9024999 -ATATGTATAT
1 AAAATGTATAT
9025009 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:9026388 original size:100 final size:100
Alignment explanation
Indices: 9026220--9026399 Score: 236
Period size: 100 Copynumber: 1.8 Consensus size: 100
9026210 GCAATGTCGG
** * * * * *
9026220 GGAAACAAGATTCGTCGTCGTGGCTTCAATCTGCTCCGCTACAATGCCAGGGAAGTAAGATTCAC
1 GGAAACAAGATTCACCGTCGTAGCTTCAATCTACTCCACTACAACGCCAGAGAAGTAAGATTCAC
9026285 CGTTGCGACTTCAATCTTTTAAATTGAAATGTTGA
66 CGTTGCGACTTCAATCTTTTAAATTGAAATGTTGA
* * * *
9026320 GGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCATTACACCGCCA-AGAGAGTAAGATTCG
1 GGAAACAAGATTCACCGTCGTAGCTTCAATCTACTCCACTACAACGCCAGAGA-AGTAAGATTCA
*
9026384 CCGTTGCGGCTTCAAT
65 CCGTTGCGACTTCAAT
9026400 TTGCTCCACT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
99 2 0.03
100 65 0.97
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (100 bp):
GGAAACAAGATTCACCGTCGTAGCTTCAATCTACTCCACTACAACGCCAGAGAAGTAAGATTCAC
CGTTGCGACTTCAATCTTTTAAATTGAAATGTTGA
Found at i:9026699 original size:44 final size:44
Alignment explanation
Indices: 9026650--9026815 Score: 210
Period size: 44 Copynumber: 3.8 Consensus size: 44
9026640 ACCTACTATT
**
9026650 TTCAACCTACTT-CACTGCTGTTCAGGGAGATAGGATTCACAATC
1 TTCAACCTA-TTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * * *
9026694 TTCAACCTATTCCACTACTAACCAGGTAGATAGGA-CCTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATC
* * * *
9026738 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
9026782 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG
9026816 GTTGGGATCA
Statistics
Matches: 102, Mismatches: 17, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
43 3 0.03
44 98 0.96
45 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
Found at i:9026764 original size:88 final size:88
Alignment explanation
Indices: 9026639--9026815 Score: 248
Period size: 88 Copynumber: 2.0 Consensus size: 88
9026629 AGGAAGGCAA
* * ** *
9026639 GACCTACTATTTTCAACCTACTTCACTGCTGTTCAGGGAGATAGGATTCACAATCTTCAACCTAT
1 GACCTACAATCTTCAACCTACTTCACTGCTGCCCAGGGAGATAGAATTCACAATCTTCAACCTAT
*
9026704 TCCACTACTAACCAGGTAGATAG
66 TCCACTACTAACCAGGGAGATAG
* *
9026727 GACCTACAATCTTCAATCTA-TTCCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTA
1 GACCTACAATCTTCAACCTACTT-CACTGCTGCCCAGGGAGATAGAATTCACAATCTTCAACCTA
* *
9026791 TTCCACTGCTGACCAGGGAGATAG
65 TTCCACTACTAACCAGGGAGATAG
9026815 G
1 G
9026816 GTTGGGATCA
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
87 2 0.03
88 76 0.97
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (88 bp):
GACCTACAATCTTCAACCTACTTCACTGCTGCCCAGGGAGATAGAATTCACAATCTTCAACCTAT
TCCACTACTAACCAGGGAGATAG
Found at i:9026877 original size:88 final size:88
Alignment explanation
Indices: 9026826--9027304 Score: 670
Period size: 88 Copynumber: 5.4 Consensus size: 88
9026816 GTTGGGATCA
** * *
9026826 TCGATCTGCTTCGCTGTTAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCATTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGTAAC
* *
9026891 CTAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGACAAGGCTGGTGTCT
* **
9026914 TCGATCTGCTTAGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGTAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGTAAC
* *
9026979 CCAAGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGACAAGGCTGGTGTCT
* * * * ** *
9027002 TCGATCTGCTTCGTTGTTGGTGTAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTTTACTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGTAAC
* *
9027067 CCAGGGAGGCAAGGCTAGTGTCT
66 CCAGGGAGACAAGGCTGGTGTCT
* * *
9027090 TCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGTAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGTAAC
* *
9027155 CCAGGGAGGCAAGTCTGGTGTCT
66 CCAGGGAGACAAGGCTGGTGTCT
* * * * **
9027178 TTGATTTGCTTCACTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGTAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGTAAC
9027243 CCAGGGAGACAAGGCTGGTGTCT
66 CCAGGGAGACAAGGCTGGTGTCT
*
9027266 TTGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
9027305 TTATCTTCAC
Statistics
Matches: 350, Mismatches: 41, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 350 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGTAAC
CCAGGGAGACAAGGCTGGTGTCT
Found at i:9027077 original size:44 final size:44
Alignment explanation
Indices: 9027029--9027255 Score: 122
Period size: 44 Copynumber: 5.2 Consensus size: 44
9027019 TGGTGTAGGA
**
9027029 AGGCAAGATCTGCTATTTTTAGCCTGCTTTACTGCAACCCAGGG
1 AGGCAAGATCTGCTATTTTTAGCCTGCTTCGCTGCAACCCAGGG
* * * * ** **** *
9027073 AGGCAAG-GCTAG-TGTCTTCAATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGATCT-GCTATTTTTAGCCTGCTTCGCTG-CAACCCAGGG
* *
9027117 AGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGTAACCCAGGG
1 AGGCAAGATCTGCTATTTTTAGCCTGCTTCGCTGCAACCCAGGG
* * * ** * *** *
9027161 AGGCAAG-TCTGGTGTCTTT-GATTTGCTTCACTGTCAGTGCAGGA
1 AGGCAAGATCTGCTATTTTTAG-CCTGCTTCGCTG-CAACCCAGGG
* *
9027205 AGGCAAGATCTGCTATTTTTAACCTGC-TCTGCTGTAACCCAGGG
1 AGGCAAGATCTGCTATTTTTAGCCTGCTTC-GCTGCAACCCAGGG
*
9027249 AGACAAG
1 AGGCAAG
9027256 GCTGGTGTCT
Statistics
Matches: 123, Mismatches: 51, Indels: 18
0.64 0.27 0.09
Matches are distributed among these distances:
42 1 0.01
43 33 0.27
44 57 0.46
45 32 0.26
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (44 bp):
AGGCAAGATCTGCTATTTTTAGCCTGCTTCGCTGCAACCCAGGG
Found at i:9027120 original size:176 final size:176
Alignment explanation
Indices: 9026826--9027304 Score: 751
Period size: 176 Copynumber: 2.7 Consensus size: 176
9026816 GTTGGGATCA
* *
9026826 TCGATCTGCTTCGCTGTTAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCATTGCAAC
1 TCGATCTGCTTCGCTGTTAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTACTGCAAC
* *
9026891 CTAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTAGCTGTCGGTGCAGGAAGGCAAGATCTGCTA
66 CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA
*
9026956 TTTTTAACCTGCTCTGCTGTAACCCAAGGAGGCAAGGCTGGTGTCT
131 TTTTTAACCTGCTCCGCTGTAACCCAAGGAGGCAAGGCTGGTGTCT
* * * * *
9027002 TCGATCTGCTTCGTTGTTGGTGTAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTTTACTGCAAC
1 TCGATCTGCTTCGCTGTTAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTACTGCAAC
* *
9027067 CCAGGGAGGCAAGGCTAGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA
66 CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA
* * *
9027132 TTTTTAGCCTGCTCCGCTGTAACCCAGGGAGGCAAGTCTGGTGTCT
131 TTTTTAACCTGCTCCGCTGTAACCCAAGGAGGCAAGGCTGGTGTCT
* * * * * *
9027178 TTGATTTGCTTCACTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGTAAC
1 TCGATCTGCTTCGCTGTTAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTACTGCAAC
* *
9027243 CCAGGGAGACAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
66 CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
9027305 TTATCTTCAC
Statistics
Matches: 273, Mismatches: 30, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
176 273 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (176 bp):
TCGATCTGCTTCGCTGTTAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTACTGCAAC
CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA
TTTTTAACCTGCTCCGCTGTAACCCAAGGAGGCAAGGCTGGTGTCT
Found at i:9027274 original size:264 final size:264
Alignment explanation
Indices: 9026829--9027304 Score: 783
Period size: 264 Copynumber: 1.8 Consensus size: 264
9026819 GGGATCATCG
* * *
9026829 ATCTGCTTCGCTGTTAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCATTGCAACCTA
1 ATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCAACCCA
*
9026894 GGGAGGCAAGGCTGGTGTCTTCGATCTGCTTAGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTT
66 GGGAGGCAAGGCTGGTGTCTTCGATCTGCTTAGCTGTCAGTGCAGGAAGGCAAGATCTGCTATTT
* * *
9026959 TTAACCTGCTCTGCTGTAACCCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTGTTGGTG
131 TTAACCTGCTCTGCTGTAACCCAAGGAGACAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
*
9027024 TAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTTTACTGCAACCCAGGGAGGCAAGGCTAGTGTC
196 CAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTTTACTGCAACCCAGGGAGGCAAGGCTAGTGTC
9027089 TTCA
261 TTCA
* * * *
9027093 ATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGTAACCCA
1 ATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCAACCCA
* * *
9027158 GGGAGGCAAGTCTGGTGTCTTTGATTTGCTTCA-CTGTCAGTGCAGGAAGGCAAGATCTGCTATT
66 GGGAGGCAAGGCTGGTGTCTTCGATCTGCTT-AGCTGTCAGTGCAGGAAGGCAAGATCTGCTATT
* *
9027222 TTTAACCTGCTCTGCTGTAACCCAGGGAGACAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCGGT
130 TTTAACCTGCTCTGCTGTAACCCAAGGAGACAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
9027287 GCAGGAAGGCAAGATCTG
195 GCAGGAAGGCAAGATCTG
9027305 TTATCTTCAC
Statistics
Matches: 194, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
264 193 0.99
265 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (264 bp):
ATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCAACCCA
GGGAGGCAAGGCTGGTGTCTTCGATCTGCTTAGCTGTCAGTGCAGGAAGGCAAGATCTGCTATTT
TTAACCTGCTCTGCTGTAACCCAAGGAGACAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
CAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTTTACTGCAACCCAGGGAGGCAAGGCTAGTGTC
TTCA
Found at i:9029494 original size:26 final size:25
Alignment explanation
Indices: 9029435--9029504 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 25
9029425 AAGAAAATCC
* **
9029435 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAAT-ATTAGCTCA
9029461 AAAAGAATGAAAAAATATTAGCTCA
1 AAAAGAATGAAAAAATATTAGCTCA
* * *
9029486 GAAATGAATGCAAAGATAT
1 -AAAAGAATGAAAAAATAT
9029505 ATTTTATTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
25 7 0.19
26 30 0.81
ACGTcount: A:0.57, C:0.06, G:0.14, T:0.23
Consensus pattern (25 bp):
AAAAGAATGAAAAAATATTAGCTCA
Found at i:9033180 original size:28 final size:27
Alignment explanation
Indices: 9033123--9033182 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
9033113 AAAAAGGTAC
* *
9033123 AAAATATATACATGTACATATATAAAA
1 AAAATATATACATATACATAGATAAAA
* *
9033150 AAAATTATATACATATATATAGATTATAA
1 AAAA-TATATACATATACATAGA-TAAAA
9033179 AAAA
1 AAAA
9033183 GATAATTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 4 0.15
28 15 0.56
29 8 0.30
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (27 bp):
AAAATATATACATATACATAGATAAAA
Found at i:9033181 original size:30 final size:28
Alignment explanation
Indices: 9033123--9033200 Score: 70
Period size: 30 Copynumber: 2.8 Consensus size: 28
9033113 AAAAAGGTAC
* * *
9033123 AAAA-TATATACATGTACATATATAAAA
1 AAAATTATATACATATATATAGATAAAA
9033150 AAAATTATATACATATATATAGATTATAAA
1 AAAATTATATACATATATATAGA-TA-AAA
* *
9033180 AAAGATAAT-TAAATATATATA
1 AAA-ATTATATACATATATATA
9033201 TAAACAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
27 4 0.10
28 15 0.36
29 2 0.05
30 17 0.40
31 4 0.10
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (28 bp):
AAAATTATATACATATATATAGATAAAA
Found at i:9033383 original size:17 final size:17
Alignment explanation
Indices: 9033361--9033404 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
9033351 TAGGAATTAA
9033361 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
9033378 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
9033395 -ATATGTATAT
1 AAAATGTATAT
9033405 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:9033538 original size:3 final size:3
Alignment explanation
Indices: 9033530--9033565 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
9033520 ATATATATAG
*
9033530 TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9033566 CTTAATAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9033930 original size:23 final size:22
Alignment explanation
Indices: 9033887--9033984 Score: 66
Period size: 22 Copynumber: 4.6 Consensus size: 22
9033877 AAAGGGTATC
* *
9033887 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
9033908 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
9033931 TGCATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
*
9033950 TGC--AT-ATATCATATCTAAGAT
1 TACAAATCATATC-T-TCTAAGAT
*
9033971 TACATATCATATCT
1 TACAAATCATATCT
9033985 AAGATTGCAC
Statistics
Matches: 62, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
16 3 0.05
17 2 0.03
19 11 0.18
21 13 0.21
22 15 0.24
23 13 0.21
24 5 0.08
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:9033947 original size:19 final size:19
Alignment explanation
Indices: 9033923--9033993 Score: 115
Period size: 19 Copynumber: 3.6 Consensus size: 19
9033913 AATCATATCT
9033923 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
9033942 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
9033963 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
9033982 TCTAAGATTGCA
1 TCTAAGATTGCA
9033994 CATCCTTGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 30 0.62
21 18 0.38
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:9033960 original size:21 final size:20
Alignment explanation
Indices: 9033900--9033993 Score: 111
Period size: 19 Copynumber: 4.6 Consensus size: 20
9033890 AAATTAAATC
* *
9033900 TCTAAGATTACAAAATCATA
1 TCTAAGATTGCAATATCATA
9033920 TCTTCTAAGATTGC-ATATCATA
1 ---TCTAAGATTGCAATATCATA
9033942 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATA
*
9033963 TCTAAGATTAC-ATATCATA
1 TCTAAGATTGCAATATCATA
9033982 TCTAAGATTGCA
1 TCTAAGATTGCA
9033994 CATCCTTGAA
Statistics
Matches: 64, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
19 29 0.45
21 18 0.28
22 7 0.11
23 10 0.16
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (20 bp):
TCTAAGATTGCAATATCATA
Found at i:9036056 original size:32 final size:34
Alignment explanation
Indices: 9036018--9036096 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 34
9036008 AAGTTATGTG
9036018 TATATATAATATATAAGTATA-GGG-TTT-TGTTA
1 TATATATAATATATAA-TATATGGGTTTTGTGTTA
*
9036050 TTTATAT-ATA-AT-ATATATGGGTTTTGGTGTTA
1 TATATATAATATATAATATATGGGTTTT-GTGTTA
9036082 TATATATAATATATA
1 TATATATAATATATA
9036097 TTTATGTGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
28 4 0.11
29 4 0.11
30 5 0.13
31 3 0.08
32 17 0.45
33 3 0.08
34 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (34 bp):
TATATATAATATATAATATATGGGTTTTGTGTTA
Found at i:9036088 original size:30 final size:29
Alignment explanation
Indices: 9036026--9036097 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 29
9036016 TGTATATATA
* *
9036026 ATATATAA-GTATA-GGGTTTTGTTATTT
1 ATATATAATATATATGGGTTTTGGTATTT
*
9036053 ATATATAATATATATGGGTTTTGGTGTTAT
1 ATATATAATATATATGGGTTTTGGTATT-T
9036083 ATATATAATATATAT
1 ATATATAATATATAT
9036098 TTATGTGCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 8 0.21
28 4 0.10
29 11 0.28
30 16 0.41
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (29 bp):
ATATATAATATATATGGGTTTTGGTATTT
Found at i:9036097 original size:32 final size:33
Alignment explanation
Indices: 9036018--9036129 Score: 97
Period size: 34 Copynumber: 3.4 Consensus size: 33
9036008 AAGTTATGTG
* * *
9036018 TATATATAATATATAAGTATAGGGTTTTGTTATT-
1 TATATATAATATAT-ATTAT-GGGTTTTGGTGTTA
9036052 TATATAT-A-ATATA-TATGGGTTTTGGTGTTA
1 TATATATAATATATATTATGGGTTTTGGTGTTA
* ** *
9036082 TATATATAATATATATTTATGTGCATGGGTGTTA
1 TATATATAATATATA-TTATGGGTTTTGGTGTTA
*
9036116 TATGTATAATATAT
1 TATATATAATATAT
9036130 TTGCATGGGT
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
29 11 0.17
30 10 0.15
31 2 0.03
32 9 0.14
33 1 0.02
34 33 0.50
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (33 bp):
TATATATAATATATATTATGGGTTTTGGTGTTA
Found at i:9036117 original size:28 final size:28
Alignment explanation
Indices: 9036084--9036188 Score: 93
Period size: 30 Copynumber: 3.6 Consensus size: 28
9036074 TGGTGTTATA
*
9036084 TATATAATATATATTTATGTGCATGGGTGT
1 TATAT-ATATA-ATATATGTGCATGGGTGT
* * *
9036114 TATATGTATAATATATTTGCATGGGTCT
1 TATATATATAATATATGTGCATGGGTGT
* * * *
9036142 ACTATATACATAATATATATGTATGGGTTT
1 --TATATATATAATATATGTGCATGGGTGT
9036172 TATTATATATAATATAT
1 TA-TATATATAATATAT
9036189 ATGCGGTTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
28 17 0.27
29 17 0.27
30 28 0.45
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (28 bp):
TATATATATAATATATGTGCATGGGTGT
Found at i:9038368 original size:5 final size:5
Alignment explanation
Indices: 9038358--9038436 Score: 67
Period size: 5 Copynumber: 16.4 Consensus size: 5
9038348 CTTTTATATT
* * * *
9038358 TTTTC TTTTC -TTTC TATT- ATTTC TTCTTC TTTTC TTCTC TTTTC -TCT-
1 TTTTC TTTTC TTTTC TTTTC TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC
**
9038405 TTTTC GGTTC TTTTC TTTTC TTTTC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT
9038437 CATTTTGATT
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
4 10 0.18
5 42 0.74
6 5 0.09
ACGTcount: A:0.03, C:0.22, G:0.03, T:0.73
Consensus pattern (5 bp):
TTTTC
Found at i:9038370 original size:19 final size:20
Alignment explanation
Indices: 9038344--9038390 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
9038334 ACGTTAGTCA
*
9038344 TCTTCTTTTATATTTTTTCT
1 TCTTCTTTTATATTATTTCT
*
9038364 T-TTC-TTTCTATTATTTCT
1 TCTTCTTTTATATTATTTCT
9038382 TCTTCTTTT
1 TCTTCTTTT
9038391 CTTCTCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 13 0.57
19 6 0.26
20 4 0.17
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (20 bp):
TCTTCTTTTATATTATTTCT
Found at i:9038372 original size:23 final size:24
Alignment explanation
Indices: 9038346--9038437 Score: 71
Period size: 28 Copynumber: 3.6 Consensus size: 24
9038336 GTTAGTCATC
9038346 TTCTTTTATATT-TT-TTCTTTTCT
1 TTCTTTTAT-TTCTTCTTCTTTTCT
*
9038369 TTCTATTATTTCTTCTTCTTTTCT
1 TTCTTTTATTTCTTCTTCTTTTCT
* *
9038393 TCTCTTTTCTCTTTTTCGGTTCTTTTCTT
1 T-TCTTTTAT-TTCTTC--TTCTTTTC-T
*
9038422 TTCTTTTCTTTTCTTC
1 TTCTTTT-ATTTCTTC
9038438 ATTTTGATTA
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
22 2 0.04
23 10 0.18
24 10 0.18
25 6 0.11
26 5 0.09
28 19 0.35
29 3 0.05
ACGTcount: A:0.04, C:0.21, G:0.02, T:0.73
Consensus pattern (24 bp):
TTCTTTTATTTCTTCTTCTTTTCT
Found at i:9038384 original size:21 final size:19
Alignment explanation
Indices: 9038346--9038385 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
9038336 GTTAGTCATC
*
9038346 TTCTTTTATATTTTTTCTT
1 TTCTTTTATATTTCTTCTT
9038365 TTCTTTCTATTATTTCTTCTT
1 TTCTTT-TA-TATTTCTTCTT
9038386 CTTTTCTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 2 0.11
21 10 0.56
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (19 bp):
TTCTTTTATATTTCTTCTT
Found at i:9042328 original size:27 final size:27
Alignment explanation
Indices: 9042298--9042475 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
9042288 ATATTGAGCC
* *
9042298 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
9042325 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
9042352 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
9042380 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
9042407 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
9042434 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
9042461 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
9042476 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:9042437 original size:82 final size:81
Alignment explanation
Indices: 9042319--9042474 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
9042309 TGCTATATAA
* * *
9042319 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
9042384 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
9042401 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
*
9042465 CCCTTAGTGC
65 CACTTAGTGC
9042475 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:9050444 original size:41 final size:40
Alignment explanation
Indices: 9050378--9050500 Score: 140
Period size: 41 Copynumber: 3.0 Consensus size: 40
9050368 TTTCATTCGT
**
9050378 TATCCTTTTTGGATAACATTATTTTCAACCTTCTTATTTGA
1 TATCCTTTTTGGATAACATCCTTTTCAACCTT-TTATTTGA
* * * *
9050419 TATCATTTTTGGATAGCATCCTTTTCAATCTTTTCATTCGA
1 TATCCTTTTTGGATAACATCCTTTTCAACCTTTT-ATTTGA
* *
9050460 TATCCTTTTT-TATTAACATCCTTTTCAACCTTTTAATTGA
1 TATCCTTTTTGGA-TAACATCCTTTTCAACCTTTTATTTGA
9050500 T
1 T
9050501 TCAGAAATAC
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
40 8 0.12
41 60 0.88
ACGTcount: A:0.24, C:0.19, G:0.07, T:0.51
Consensus pattern (40 bp):
TATCCTTTTTGGATAACATCCTTTTCAACCTTTTATTTGA
Found at i:9050888 original size:68 final size:68
Alignment explanation
Indices: 9050809--9050945 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 68
9050799 CATGCAATGA
*
9050809 ACTCAAATTGGCCGAAAGCTTCTAACCTCGTCTAATGGTGTTTCAATTTTCGCATCACCAAAATG
1 ACTCAAATTGGCCGAAAGCTTCTAACCTCGTCTAATGGTGTTTCAATTTTCCCATCACCAAAATG
9050874 AAG
66 AAG
*
9050877 ACTCAAATTGGCCGAAAGCTTCTAACCTCGTCTAATGGTGTTTCGATTTTCCCATCACCAAAATG
1 ACTCAAATTGGCCGAAAGCTTCTAACCTCGTCTAATGGTGTTTCAATTTTCCCATCACCAAAATG
9050942 AAG
66 AAG
9050945 A
1 A
9050946 ATATGATGAT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (68 bp):
ACTCAAATTGGCCGAAAGCTTCTAACCTCGTCTAATGGTGTTTCAATTTTCCCATCACCAAAATG
AAG
Found at i:9054256 original size:13 final size:13
Alignment explanation
Indices: 9054235--9054298 Score: 110
Period size: 13 Copynumber: 4.9 Consensus size: 13
9054225 ACACTCAAAT
9054235 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
9054248 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
9054261 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
9054274 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
9054287 TTCTCAAAAGCA
1 TTCTCAAAAGCA
9054299 ATGAAGAACT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 47 1.00
ACGTcount: A:0.39, C:0.27, G:0.11, T:0.23
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:9054264 original size:26 final size:26
Alignment explanation
Indices: 9054235--9054298 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
9054225 ACACTCAAAT
9054235 TTCTCAAAAGCACTTCTGAAAAGCAC
1 TTCTCAAAAGCACTTCTGAAAAGCAC
9054261 TTCTCAAAAGCACTTCTGAAAAGCAC
1 TTCTCAAAAGCACTTCTGAAAAGCAC
9054287 TTCTCAAAAGCA
1 TTCTCAAAAGCA
9054299 ATGAAGAACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.39, C:0.27, G:0.11, T:0.23
Consensus pattern (26 bp):
TTCTCAAAAGCACTTCTGAAAAGCAC
Found at i:9072569 original size:18 final size:19
Alignment explanation
Indices: 9072541--9072577 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
9072531 GAAACAAAAT
9072541 TGAAAATTTTGGGAAAACA
1 TGAAAATTTTGGGAAAACA
9072560 TGAAAA-TTTGGGAAAACA
1 TGAAAATTTTGGGAAAACA
9072578 GGGGTTACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.49, C:0.05, G:0.22, T:0.24
Consensus pattern (19 bp):
TGAAAATTTTGGGAAAACA
Found at i:9073854 original size:41 final size:41
Alignment explanation
Indices: 9073785--9073915 Score: 172
Period size: 41 Copynumber: 3.2 Consensus size: 41
9073775 AGATACATCA
* *
9073785 TTTTCATTTGTTATCCTTTTCGGGTAACATCTTTTTCAACC
1 TTTTCATTTGATATCCTTTTCGGATAACATCTTTTTCAACC
* * **
9073826 TTTTCATTTGATATCATTTTTGGATAACATCTTTTTCAATA
1 TTTTCATTTGATATCCTTTTCGGATAACATCTTTTTCAACC
* ** *
9073867 TTTTCATTTGAGATCCTTTTCAAATAACATCCTTTTCAACC
1 TTTTCATTTGATATCCTTTTCGGATAACATCTTTTTCAACC
9073908 TTTTCATT
1 TTTTCATT
9073916 GATTCAAAAA
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.23, C:0.19, G:0.07, T:0.51
Consensus pattern (41 bp):
TTTTCATTTGATATCCTTTTCGGATAACATCTTTTTCAACC
Found at i:9079542 original size:29 final size:28
Alignment explanation
Indices: 9079508--9079571 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
9079498 ATATATATGG
9079508 TATATATAACAAAACCCAAT-CATATAATA
1 TATATATAACAAAACCC-ATGCATA-AATA
*
9079537 TATATATAACAAAGCCCATGCATAAATA
1 TATATATAACAAAACCCATGCATAAATA
9079565 T-TATATA
1 TATATATA
9079572 CTGAACCCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
27 6 0.18
28 7 0.21
29 20 0.61
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.30
Consensus pattern (28 bp):
TATATATAACAAAACCCATGCATAAATA
Found at i:9085442 original size:18 final size:18
Alignment explanation
Indices: 9085419--9085454 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9085409 ATTTTATAAT
*
9085419 TATATTTGCTTTGATACC
1 TATATTTGCTCTGATACC
9085437 TATATTTGCTCTGATACC
1 TATATTTGCTCTGATACC
9085455 AAGACGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.47
Consensus pattern (18 bp):
TATATTTGCTCTGATACC
Found at i:9086577 original size:32 final size:32
Alignment explanation
Indices: 9086541--9086602 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
9086531 TATGACGAAC
9086541 AACATAATTAGATATGATAAAACATGCCTTTT
1 AACATAATTAGATATGATAAAACATGCCTTTT
*
9086573 AACATAATTAGATATGATAAAATATGCCTT
1 AACATAATTAGATATGATAAAACATGCCTT
9086603 CAATGTTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (32 bp):
AACATAATTAGATATGATAAAACATGCCTTTT
Found at i:9089468 original size:4 final size:4
Alignment explanation
Indices: 9089452--9089483 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
9089442 TTCATTTGGT
*
9089452 TGTC TGCC TGTC TGTC TGTC TGTC TGTC TGTC
1 TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC
9089484 GGAAAAGACC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.00, C:0.28, G:0.25, T:0.47
Consensus pattern (4 bp):
TGTC
Found at i:9096289 original size:22 final size:22
Alignment explanation
Indices: 9096261--9096329 Score: 88
Period size: 22 Copynumber: 3.1 Consensus size: 22
9096251 TATGCACTAT
9096261 TAAACAGAGAGCACTAAAGTGC
1 TAAACAGAGAGCACTAAAGTGC
*
9096283 TATACAGAGAGCAC-AAATGTGC
1 TAAACAGAGAGCACTAAA-GTGC
*
9096305 TAAAC-GAAGAGCACTAATGTGC
1 TAAACAG-AGAGCACTAAAGTGC
9096327 TAA
1 TAA
9096330 TAATTGGAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 4 0.10
22 35 0.85
23 2 0.05
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.17
Consensus pattern (22 bp):
TAAACAGAGAGCACTAAAGTGC
Found at i:9099500 original size:15 final size:15
Alignment explanation
Indices: 9099480--9099563 Score: 55
Period size: 15 Copynumber: 5.5 Consensus size: 15
9099470 TTATGTAAAG
*
9099480 TCAAATATATGGTTA
1 TCAAATATATGGATA
* *
9099495 TCAAATA-ATGAAAA
1 TCAAATATATGGATA
* *
9099509 GTCAAAGATATGGGTA
1 -TCAAATATATGGATA
*
9099525 TCAAATAT-TGGAAAA
1 TCAAATATATGG-ATA
* *
9099540 TCAAAGATATGGGTA
1 TCAAATATATGGATA
9099555 TCGAAATAT
1 TC-AAATAT
9099564 TGGCATAAGA
Statistics
Matches: 50, Mismatches: 14, Indels: 9
0.68 0.19 0.12
Matches are distributed among these distances:
14 7 0.14
15 31 0.62
16 12 0.24
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.29
Consensus pattern (15 bp):
TCAAATATATGGATA
Found at i:9099562 original size:31 final size:31
Alignment explanation
Indices: 9099476--9099566 Score: 132
Period size: 30 Copynumber: 3.0 Consensus size: 31
9099466 GTATTTATGT
* * *
9099476 AAAGTCAAATATATGGTTATCAAATAAT-GA
1 AAAGTCAAAGATATGGGTATCAAATATTGGA
9099506 AAAGTCAAAGATATGGGTATCAAATATTGGA
1 AAAGTCAAAGATATGGGTATCAAATATTGGA
9099537 AAA-TCAAAGATATGGGTATCGAAATATTGG
1 AAAGTCAAAGATATGGGTATC-AAATATTGG
9099567 CATAAGAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
30 42 0.75
31 14 0.25
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.27
Consensus pattern (31 bp):
AAAGTCAAAGATATGGGTATCAAATATTGGA
Done.